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Conserved domains on  [gi|1191860083|ref|XP_020940125|]
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high affinity cAMP-specific and IBMX-insensitive 3',5'-cyclic phosphodiesterase 8B isoform X2 [Sus scrofa]

Protein Classification

PAS and HDc domain-containing protein( domain architecture ID 11654464)

protein containing domains PDE8, PAS, and HDc

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PDEase_I pfam00233
3'5'-cyclic nucleotide phosphodiesterase;
647-894 2.00e-99

3'5'-cyclic nucleotide phosphodiesterase;


:

Pssm-ID: 459723  Cd Length: 238  Bit Score: 310.64  E-value: 2.00e-99
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 647 YHNSTHAADVLHATAFFLGKERVKGSLDQLDEVAALIAATVHDVDHPGRTNSFLCNAGSELAVLYNDTAVLESHHTALAF 726
Cdd:pfam00233   1 YHNWRHAFDVTQTMYYLLKTGKLKEVLTDLEILALLIAALCHDVDHPGTNNAFLIKTKSPLAILYNDSSVLENHHCATAF 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 727 QLtVKDNKCNIFKNIDRNHYRTLRQAIIDMVLATEMTKHFEHVNKFVNSINKPMAAEveggdcdcnpIGKNFPENQLLIK 806
Cdd:pfam00233  81 QI-LQDEECNIFSNLSDEEYKEVRKLIISLILATDMAKHFELLKKFKSLLESKKTLD----------FLENEEDRRLLLL 149

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 807 RMMIKCADVANPCRPLDLCIEWAGRISEEYFAQTDEEKRQGLPvVMPVFDRN-TCSIPKSQISFIDYFITDMFDAW-DAF 884
Cdd:pfam00233 150 SMLIKAADISNPTRPWEISKKWADLVAEEFFRQGDLEKELGLP-VSPLMDREkKTSLPKSQIGFIDFIVLPLFEALaKLF 228

                         250
                  ....*....|
gi 1191860083 885 AHLPALMQHL 894
Cdd:pfam00233 229 PELQPLLDQL 238
PDE8 super family cl07304
PDE8 phosphodiesterase; This region is found in members of the PDE8 phosphodiesterase family. ...
 1-47 6.16e-21

PDE8 phosphodiesterase; This region is found in members of the PDE8 phosphodiesterase family. It is found with pfam00233.


The actual alignment was detected with superfamily member pfam08629:

Pssm-ID: 400795  Cd Length: 52  Bit Score: 86.77  E-value: 6.16e-21
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1191860083   1 MGCAPSIHVSQSGVIY--CRDSEESNSPRQT-TSVSQ--GPAAPLHGLFVQT 47
Cdd:pfam08629   1 MGCAPSIHISDSGVIYhsCKDSDDSSSPNQTnTSMSQqlGNAAPLPGLFIKS 52
PAS COG2202
PAS domain [Signal transduction mechanisms];
272-375 3.69e-17

PAS domain [Signal transduction mechanisms];


:

Pssm-ID: 441804 [Multi-domain]  Cd Length: 258  Bit Score: 82.38  E-value: 3.69e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 272 TALDHCHEAIEITSDDHVIQYVNPAFERMMGYHKGELLGKELAELpKSDKNRADLLETINTCIKKGKEWQGVYYARRKSG 351
Cdd:COG2202    15 ALVESSPDAIIITDLDGRILYVNPAFERLTGYSAEELLGKTLRDL-LPPEDDDEFLELLRAALAGGGVWRGELRNRRKDG 93

                          90       100
                  ....*....|....*....|....
gi 1191860083 352 DSIQQHVKITPVIGQGGKIRHFVS 375
Cdd:COG2202    94 SLFWVELSISPVRDEDGEITGFVG 117
PleD super family cl34659
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 153-234 6.52e-03

Two-component response regulator, PleD family, consists of two REC domains and a diguanylate cyclase (GGDEF) domain [Signal transduction mechanisms, Transcription];


The actual alignment was detected with superfamily member COG3706:

Pssm-ID: 442920 [Multi-domain]  Cd Length: 179  Bit Score: 38.74  E-value: 6.52e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 153 RAGYRCNIARTPESALECFLDKHHEIIVIDHrQTRNFDAEAVCRSIRATNPSEHTVILAVVSQTCSDHEEASvlplLHAG 232
Cdd:COG3706    23 AAGYEVVEAADGEEALELLQEHRPDLILLDL-EMPDMDGLELCRRLRADPRTADIPIIFLTALDDEEDRARA----LEAG 97


                  ..
gi 1191860083 233 FN 234
Cdd:COG3706    98 AD 99
 
Name Accession Description Interval E-value
PDEase_I pfam00233
3'5'-cyclic nucleotide phosphodiesterase;
647-894 2.00e-99

3'5'-cyclic nucleotide phosphodiesterase;


Pssm-ID: 459723  Cd Length: 238  Bit Score: 310.64  E-value: 2.00e-99
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 647 YHNSTHAADVLHATAFFLGKERVKGSLDQLDEVAALIAATVHDVDHPGRTNSFLCNAGSELAVLYNDTAVLESHHTALAF 726
Cdd:pfam00233   1 YHNWRHAFDVTQTMYYLLKTGKLKEVLTDLEILALLIAALCHDVDHPGTNNAFLIKTKSPLAILYNDSSVLENHHCATAF 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 727 QLtVKDNKCNIFKNIDRNHYRTLRQAIIDMVLATEMTKHFEHVNKFVNSINKPMAAEveggdcdcnpIGKNFPENQLLIK 806
Cdd:pfam00233  81 QI-LQDEECNIFSNLSDEEYKEVRKLIISLILATDMAKHFELLKKFKSLLESKKTLD----------FLENEEDRRLLLL 149

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 807 RMMIKCADVANPCRPLDLCIEWAGRISEEYFAQTDEEKRQGLPvVMPVFDRN-TCSIPKSQISFIDYFITDMFDAW-DAF 884
Cdd:pfam00233 150 SMLIKAADISNPTRPWEISKKWADLVAEEFFRQGDLEKELGLP-VSPLMDREkKTSLPKSQIGFIDFIVLPLFEALaKLF 228

                         250
                  ....*....|
gi 1191860083 885 AHLPALMQHL 894
Cdd:pfam00233 229 PELQPLLDQL 238
PDE8 pfam08629
PDE8 phosphodiesterase; This region is found in members of the PDE8 phosphodiesterase family. ...
 1-47 6.16e-21

PDE8 phosphodiesterase; This region is found in members of the PDE8 phosphodiesterase family. It is found with pfam00233.


Pssm-ID: 400795  Cd Length: 52  Bit Score: 86.77  E-value: 6.16e-21
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1191860083   1 MGCAPSIHVSQSGVIY--CRDSEESNSPRQT-TSVSQ--GPAAPLHGLFVQT 47
Cdd:pfam08629   1 MGCAPSIHISDSGVIYhsCKDSDDSSSPNQTnTSMSQqlGNAAPLPGLFIKS 52
PAS COG2202
PAS domain [Signal transduction mechanisms];
272-375 3.69e-17

PAS domain [Signal transduction mechanisms];


Pssm-ID: 441804 [Multi-domain]  Cd Length: 258  Bit Score: 82.38  E-value: 3.69e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 272 TALDHCHEAIEITSDDHVIQYVNPAFERMMGYHKGELLGKELAELpKSDKNRADLLETINTCIKKGKEWQGVYYARRKSG 351
Cdd:COG2202    15 ALVESSPDAIIITDLDGRILYVNPAFERLTGYSAEELLGKTLRDL-LPPEDDDEFLELLRAALAGGGVWRGELRNRRKDG 93

                          90       100
                  ....*....|....*....|....
gi 1191860083 352 DSIQQHVKITPVIGQGGKIRHFVS 375
Cdd:COG2202    94 SLFWVELSISPVRDEDGEITGFVG 117
PAS_9 pfam13426
PAS domain; This domain is found in many signalling proteins in which it functions as a sensor ...
 287-376 5.18e-12

PAS domain; This domain is found in many signalling proteins in which it functions as a sensor domain. It recognizes FMN, Zn(II), FAD and riboflavin (MAtilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 463873 [Multi-domain]  Cd Length: 93  Bit Score: 62.86  E-value: 5.18e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 287 DHVIQYVNPAFERMMGYHKGELLGKELAELPKSDKNRADLLETINTcikKGKEWQGVYYARRKSGDSIQQHVKITPVIGQ 366
Cdd:pfam13426   1 DGRIIYVNDAALRLLGYTREELLGKSITDLFAEPEDSERLREALRE---GKAVREFEVVLYRKDGEPFPVLVSLAPIRDD 77

                          90
                  ....*....|
gi 1191860083 367 GGKIRHFVSL 376
Cdd:pfam13426  78 GGELVGIIAI 87
PAS cd00130
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 283-375 2.58e-10

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction.


Pssm-ID: 238075 [Multi-domain]  Cd Length: 103  Bit Score: 58.41  E-value: 2.58e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 283 ITSDDHVIQYVNPAFERMMGYHKGELLGKELAEL-PKSDknRADLLETINTCIKKGKEWQGVYYARRKSGDSIQQHVKIT 361
Cdd:cd00130     7 VLDLDGRILYANPAAEQLLGYSPEELIGKSLLDLiHPED--REELRERLENLLSGGEPVTLEVRLRRKDGSVIWVLVSLT 84

                          90
                  ....*....|....
gi 1191860083 362 PVIGQGGKIRHFVS 375
Cdd:cd00130    85 PIRDEGGEVIGLLG 98
sensory_box TIGR00229
PAS domain S-box; The PAS domain was previously described. This sensory box, or S-box domain ...
 272-375 1.65e-09

PAS domain S-box; The PAS domain was previously described. This sensory box, or S-box domain occupies the central portion of the PAS domain but is more widely distributed. It is often tandemly repeated. Known prosthetic groups bound in the S-box domain include heme in the oxygen sensor FixL, FAD in the redox potential sensor NifL, and a 4-hydroxycinnamyl chromophore in photoactive yellow protein. Proteins containing the domain often contain other regulatory domains such as response regulator or sensor histidine kinase domains. Other S-box proteins include phytochromes and the aryl hydrocarbon receptor nuclear translocator. [Regulatory functions, Small molecule interactions]


Pssm-ID: 272971 [Multi-domain]  Cd Length: 124  Bit Score: 56.53  E-value: 1.65e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 272 TALDHCHEAIEITSDDHVIQYVNPAFERMMGYHKGELLGKELAELPKSDkNRADLLETINTCIKKGKEWQGVYYA-RRKS 350
Cdd:TIGR00229   7 AIFESSPDAIIVIDLEGNILYVNPAFEEIFGYSAEELIGRNVLELIPEE-DREEVRERIERRLEGEPEPVSEERRvRRKD 85

                          90       100
                  ....*....|....*....|....*
gi 1191860083 351 GDSIQQHVKITPVIGQGGkIRHFVS 375
Cdd:TIGR00229  86 GSEIWVEVSVSPIRTNGG-ELGVVG 109
HDc cd00077
Metal dependent phosphohydrolases with conserved 'HD' motif
 647-837 9.03e-07

Metal dependent phosphohydrolases with conserved 'HD' motif


Pssm-ID: 238032 [Multi-domain]  Cd Length: 145  Bit Score: 49.26  E-value: 9.03e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 647 YHNSTHAADVLHATAFFLGKERvkgsLDQLDEVAALIAATVHDVDHPGRTNSFlcnagselavlYNDTAVLESHHTALAF 726
Cdd:cd00077     1 EHRFEHSLRVAQLARRLAEELG----LSEEDIELLRLAALLHDIGKPGTPDAI-----------TEEESELEKDHAIVGA 65

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 727 QLtvkdnkcnifknIDRNHYRTLRQAIIDMVLATEMtKHFEHVNKFvnsinkpmaaeveggdcdcnPIGKNFPENQLLIK 806
Cdd:cd00077    66 EI------------LRELLLEEVIKLIDELILAVDA-SHHERLDGL--------------------GYPDGLKGEEITLE 112

                         170       180       190
                  ....*....|....*....|....*....|...
gi 1191860083 807 RMMIKCADV--ANPCRPLDLCIEWAGRISEEYF 837
Cdd:cd00077   113 ARIVKLADRldALRRDSREKRRRIAEEDLEELL 145
PAS smart00091
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 272-335 6.56e-06

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels.


Pssm-ID: 214512  Cd Length: 67  Bit Score: 44.70  E-value: 6.56e-06
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1191860083  272 TALDHCHEAIEITSDDHVIQYVNPAFERMMGYHKGELLGKELAEL-PKSDknRADLLETINTCIK 335
Cdd:smart00091   5 AILESLPDGIFVLDLDGRILYANPAAEELLGYSPEELIGKSLLELiHPED--RERVQEALQRLLS 67
HDc smart00471
Metal dependent phosphohydrolases with conserved 'HD' motif; Includes eukaryotic cyclic ...
 645-743 3.63e-05

Metal dependent phosphohydrolases with conserved 'HD' motif; Includes eukaryotic cyclic nucleotide phosphodiesterases (PDEc). This profile/HMM does not detect HD homologues in bacterial glycine aminoacyl-tRNA synthetases (beta subunit).


Pssm-ID: 214679 [Multi-domain]  Cd Length: 124  Bit Score: 44.21  E-value: 3.63e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083  645 NAYHNSTHAADVLHaTAFFLGKErvkgsLDQLDEVAALIAATVHDVDHPGRTNSFLCNAGSELavlyndtavlesHHTAL 724
Cdd:smart00471   1 SDYHVFEHSLRVAQ-LAAALAEE-----LGLLDIELLLLAALLHDIGKPGTPDSFLVKTSVLE------------DHHFI 62

                           90
                   ....*....|....*....
gi 1191860083  725 AFQLTVKDNKCNIFKNIDR 743
Cdd:smart00471  63 GAEILLEEEEPRILEEILR 81
PRK13558 PRK13558
bacterio-opsin activator; Provisional
 273-374 1.62e-04

bacterio-opsin activator; Provisional


Pssm-ID: 237426 [Multi-domain]  Cd Length: 665  Bit Score: 45.60  E-value: 1.62e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 273 ALDHCHEAIEI---TSDDHVIQYVNPAFERMMGYHKGELLGKELAELPKSDKNrADLLETINTCIKKGKEWQGVYYARRK 349
Cdd:PRK13558  153 ALDEAPVGITIadaTLPDEPLIYINDAFERITGYSPDEVLGRNCRFLQGEDTN-EERVAELREAIDEERPTSVELRNYRK 231

                          90       100
                  ....*....|....*....|....*
gi 1191860083 350 SGDSIQQHVKITPVIGQGGKIRHFV 374
Cdd:PRK13558  232 DGSTFWNQVDIAPIRDEDGTVTHYV 256
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 153-234 6.52e-03

Two-component response regulator, PleD family, consists of two REC domains and a diguanylate cyclase (GGDEF) domain [Signal transduction mechanisms, Transcription];


Pssm-ID: 442920 [Multi-domain]  Cd Length: 179  Bit Score: 38.74  E-value: 6.52e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 153 RAGYRCNIARTPESALECFLDKHHEIIVIDHrQTRNFDAEAVCRSIRATNPSEHTVILAVVSQTCSDHEEASvlplLHAG 232
Cdd:COG3706    23 AAGYEVVEAADGEEALELLQEHRPDLILLDL-EMPDMDGLELCRRLRADPRTADIPIIFLTALDDEEDRARA----LEAG 97


                  ..
gi 1191860083 233 FN 234
Cdd:COG3706    98 AD 99
 
Name Accession Description Interval E-value
PDEase_I pfam00233
3'5'-cyclic nucleotide phosphodiesterase;
647-894 2.00e-99

3'5'-cyclic nucleotide phosphodiesterase;


Pssm-ID: 459723  Cd Length: 238  Bit Score: 310.64  E-value: 2.00e-99
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 647 YHNSTHAADVLHATAFFLGKERVKGSLDQLDEVAALIAATVHDVDHPGRTNSFLCNAGSELAVLYNDTAVLESHHTALAF 726
Cdd:pfam00233   1 YHNWRHAFDVTQTMYYLLKTGKLKEVLTDLEILALLIAALCHDVDHPGTNNAFLIKTKSPLAILYNDSSVLENHHCATAF 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 727 QLtVKDNKCNIFKNIDRNHYRTLRQAIIDMVLATEMTKHFEHVNKFVNSINKPMAAEveggdcdcnpIGKNFPENQLLIK 806
Cdd:pfam00233  81 QI-LQDEECNIFSNLSDEEYKEVRKLIISLILATDMAKHFELLKKFKSLLESKKTLD----------FLENEEDRRLLLL 149

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 807 RMMIKCADVANPCRPLDLCIEWAGRISEEYFAQTDEEKRQGLPvVMPVFDRN-TCSIPKSQISFIDYFITDMFDAW-DAF 884
Cdd:pfam00233 150 SMLIKAADISNPTRPWEISKKWADLVAEEFFRQGDLEKELGLP-VSPLMDREkKTSLPKSQIGFIDFIVLPLFEALaKLF 228

                         250
                  ....*....|
gi 1191860083 885 AHLPALMQHL 894
Cdd:pfam00233 229 PELQPLLDQL 238
PDE8 pfam08629
PDE8 phosphodiesterase; This region is found in members of the PDE8 phosphodiesterase family. ...
 1-47 6.16e-21

PDE8 phosphodiesterase; This region is found in members of the PDE8 phosphodiesterase family. It is found with pfam00233.


Pssm-ID: 400795  Cd Length: 52  Bit Score: 86.77  E-value: 6.16e-21
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1191860083   1 MGCAPSIHVSQSGVIY--CRDSEESNSPRQT-TSVSQ--GPAAPLHGLFVQT 47
Cdd:pfam08629   1 MGCAPSIHISDSGVIYhsCKDSDDSSSPNQTnTSMSQqlGNAAPLPGLFIKS 52
PAS COG2202
PAS domain [Signal transduction mechanisms];
272-375 3.69e-17

PAS domain [Signal transduction mechanisms];


Pssm-ID: 441804 [Multi-domain]  Cd Length: 258  Bit Score: 82.38  E-value: 3.69e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 272 TALDHCHEAIEITSDDHVIQYVNPAFERMMGYHKGELLGKELAELpKSDKNRADLLETINTCIKKGKEWQGVYYARRKSG 351
Cdd:COG2202    15 ALVESSPDAIIITDLDGRILYVNPAFERLTGYSAEELLGKTLRDL-LPPEDDDEFLELLRAALAGGGVWRGELRNRRKDG 93

                          90       100
                  ....*....|....*....|....
gi 1191860083 352 DSIQQHVKITPVIGQGGKIRHFVS 375
Cdd:COG2202    94 SLFWVELSISPVRDEDGEITGFVG 117
PAS_9 pfam13426
PAS domain; This domain is found in many signalling proteins in which it functions as a sensor ...
 287-376 5.18e-12

PAS domain; This domain is found in many signalling proteins in which it functions as a sensor domain. It recognizes FMN, Zn(II), FAD and riboflavin (MAtilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 463873 [Multi-domain]  Cd Length: 93  Bit Score: 62.86  E-value: 5.18e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 287 DHVIQYVNPAFERMMGYHKGELLGKELAELPKSDKNRADLLETINTcikKGKEWQGVYYARRKSGDSIQQHVKITPVIGQ 366
Cdd:pfam13426   1 DGRIIYVNDAALRLLGYTREELLGKSITDLFAEPEDSERLREALRE---GKAVREFEVVLYRKDGEPFPVLVSLAPIRDD 77

                          90
                  ....*....|
gi 1191860083 367 GGKIRHFVSL 376
Cdd:pfam13426  78 GGELVGIIAI 87
NtrB COG3852
Signal transduction histidine kinase NtrB, nitrogen specific [Signal transduction mechanisms];
272-371 1.35e-10

Signal transduction histidine kinase NtrB, nitrogen specific [Signal transduction mechanisms];


Pssm-ID: 443061 [Multi-domain]  Cd Length: 361  Bit Score: 64.10  E-value: 1.35e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 272 TALDHCHEAIEITSDDHVIQYVNPAFERMMGYHKGELLGKELAELPKSDknrADLLETINTCIKKGKE-WQGVYYARRKS 350
Cdd:COG3852    11 AILDSLPDAVIVLDADGRITYVNPAAERLLGLSAEELLGRPLAELFPED---SPLRELLERALAEGQPvTEREVTLRRKD 87

                          90       100
                  ....*....|....*....|.
gi 1191860083 351 GDSIQQHVKITPVIGQGGKIR 371
Cdd:COG3852    88 GEERPVDVSVSPLRDAEGEGG 108
PAS cd00130
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 283-375 2.58e-10

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction.


Pssm-ID: 238075 [Multi-domain]  Cd Length: 103  Bit Score: 58.41  E-value: 2.58e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 283 ITSDDHVIQYVNPAFERMMGYHKGELLGKELAEL-PKSDknRADLLETINTCIKKGKEWQGVYYARRKSGDSIQQHVKIT 361
Cdd:cd00130     7 VLDLDGRILYANPAAEQLLGYSPEELIGKSLLDLiHPED--REELRERLENLLSGGEPVTLEVRLRRKDGSVIWVLVSLT 84

                          90
                  ....*....|....
gi 1191860083 362 PVIGQGGKIRHFVS 375
Cdd:cd00130    85 PIRDEGGEVIGLLG 98
sensory_box TIGR00229
PAS domain S-box; The PAS domain was previously described. This sensory box, or S-box domain ...
 272-375 1.65e-09

PAS domain S-box; The PAS domain was previously described. This sensory box, or S-box domain occupies the central portion of the PAS domain but is more widely distributed. It is often tandemly repeated. Known prosthetic groups bound in the S-box domain include heme in the oxygen sensor FixL, FAD in the redox potential sensor NifL, and a 4-hydroxycinnamyl chromophore in photoactive yellow protein. Proteins containing the domain often contain other regulatory domains such as response regulator or sensor histidine kinase domains. Other S-box proteins include phytochromes and the aryl hydrocarbon receptor nuclear translocator. [Regulatory functions, Small molecule interactions]


Pssm-ID: 272971 [Multi-domain]  Cd Length: 124  Bit Score: 56.53  E-value: 1.65e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 272 TALDHCHEAIEITSDDHVIQYVNPAFERMMGYHKGELLGKELAELPKSDkNRADLLETINTCIKKGKEWQGVYYA-RRKS 350
Cdd:TIGR00229   7 AIFESSPDAIIVIDLEGNILYVNPAFEEIFGYSAEELIGRNVLELIPEE-DREEVRERIERRLEGEPEPVSEERRvRRKD 85

                          90       100
                  ....*....|....*....|....*
gi 1191860083 351 GDSIQQHVKITPVIGQGGkIRHFVS 375
Cdd:TIGR00229  86 GSEIWVEVSVSPIRTNGG-ELGVVG 109
PAS pfam00989
PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...
 272-374 3.04e-09

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. This domain can bind gases (O2, CO and NO), FAD, 4-hydroxycinnamic acid and NAD+ (Matilla et.al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 395786 [Multi-domain]  Cd Length: 113  Bit Score: 55.50  E-value: 3.04e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 272 TALDHCHEAIEITSDDHVIQYVNPAFERMMGYHKGELLGKELAEL-PKSDknRADLLETINTCIKKGKEWQGVYYARRKS 350
Cdd:pfam00989   5 AILESLPDGIFVVDEDGRILYVNAAAEELLGLSREEVIGKSLLDLiPEED--DAEVAELLRQALLQGEESRGFEVSFRVP 82

                          90       100
                  ....*....|....*....|....*
gi 1191860083 351 -GDSIQQHVKITPVIGQGGKIRHFV 374
Cdd:pfam00989  83 dGRPRHVEVRASPVRDAGGEILGFL 107
RocR COG3829
RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis ...
 272-407 1.64e-08

RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis domains [Transcription, Signal transduction mechanisms];


Pssm-ID: 443041 [Multi-domain]  Cd Length: 448  Bit Score: 57.86  E-value: 1.64e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 272 TALDHCHEAIEITSDDHVIQYVNPAFERMMGYHKGELLGKELAELPKSdknradllETINTCIKKGKEWQGVYYarRKSG 351
Cdd:COG3829    15 AILDSLDDGIIVVDADGRITYVNRAAERILGLPREEVIGKNVTELIPN--------SPLLEVLKTGKPVTGVIQ--KTGG 84

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1191860083 352 DSIQQHVKITPVIGQGGKIRHFVSLKKLcctTDNNKQIHKVHRDSGDNSQTESHSF 407
Cdd:COG3829    85 KGKTVIVTAIPIFEDGEVIGAVETFRDI---TELKRLERKLREEELERGLSAKYTF 137
PAS_3 pfam08447
PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...
 292-375 2.06e-07

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya.


Pssm-ID: 430001 [Multi-domain]  Cd Length: 89  Bit Score: 49.64  E-value: 2.06e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 292 YVNPAFERMMGYHKGELLGK--ELAELPKSDkNRADLLETINTCIKKGKEWQGVYYARRKSGDSIQQHVKITPVIGQGGK 369
Cdd:pfam08447   3 YWSPRFEEILGYTPEELLGKgeSWLDLVHPD-DRERVREALWEALKGGEPYSGEYRIRRKDGEYRWVEARARPIRDENGK 81


                  ....*.
gi 1191860083 370 IRHFVS 375
Cdd:pfam08447  82 PVRVIG 87
PAS COG2202
PAS domain [Signal transduction mechanisms];
259-376 5.10e-07

PAS domain [Signal transduction mechanisms];


Pssm-ID: 441804 [Multi-domain]  Cd Length: 258  Bit Score: 51.95  E-value: 5.10e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 259 RSQFKLRAcnsvftALDHCHEAIEITSDDHVIQYVNPAFERMMGYHKGELLGKELAELPkSDKNRADLLETINTCIKKGK 338
Cdd:COG2202   134 ESEERLRL------LVENAPDGIFVLDLDGRILYVNPAAEELLGYSPEELLGKSLLDLL-HPEDRERLLELLRRLLEGGR 206

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1191860083 339 EWQGVYYaRRKSGDSIQQHVKITPV-IGQGGKIRHFVSL 376
Cdd:COG2202   207 ESYELEL-RLKDGDGRWVWVEASAVpLRDGGEVIGVLGI 244
HDc cd00077
Metal dependent phosphohydrolases with conserved 'HD' motif
 647-837 9.03e-07

Metal dependent phosphohydrolases with conserved 'HD' motif


Pssm-ID: 238032 [Multi-domain]  Cd Length: 145  Bit Score: 49.26  E-value: 9.03e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 647 YHNSTHAADVLHATAFFLGKERvkgsLDQLDEVAALIAATVHDVDHPGRTNSFlcnagselavlYNDTAVLESHHTALAF 726
Cdd:cd00077     1 EHRFEHSLRVAQLARRLAEELG----LSEEDIELLRLAALLHDIGKPGTPDAI-----------TEEESELEKDHAIVGA 65

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 727 QLtvkdnkcnifknIDRNHYRTLRQAIIDMVLATEMtKHFEHVNKFvnsinkpmaaeveggdcdcnPIGKNFPENQLLIK 806
Cdd:cd00077    66 EI------------LRELLLEEVIKLIDELILAVDA-SHHERLDGL--------------------GYPDGLKGEEITLE 112

                         170       180       190
                  ....*....|....*....|....*....|...
gi 1191860083 807 RMMIKCADV--ANPCRPLDLCIEWAGRISEEYF 837
Cdd:cd00077   113 ARIVKLADRldALRRDSREKRRRIAEEDLEELL 145
PAS smart00091
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 272-335 6.56e-06

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels.


Pssm-ID: 214512  Cd Length: 67  Bit Score: 44.70  E-value: 6.56e-06
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1191860083  272 TALDHCHEAIEITSDDHVIQYVNPAFERMMGYHKGELLGKELAEL-PKSDknRADLLETINTCIK 335
Cdd:smart00091   5 AILESLPDGIFVLDLDGRILYANPAAEELLGYSPEELIGKSLLELiHPED--RERVQEALQRLLS 67
KinA COG5805
Sporulation sensor histidine kinase A (Stage II sporulation protein SpoIIF/SpoIIJ) [Cell cycle ...
 240-378 3.06e-05

Sporulation sensor histidine kinase A (Stage II sporulation protein SpoIIF/SpoIIJ) [Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 444507 [Multi-domain]  Cd Length: 496  Bit Score: 47.42  E-value: 3.06e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 240 NSSIIACYNELIQIEHGEvRSQFKLRACNSVFTALD-HCHEAIEITSDDHVIQYVNPAFERMMGYHKGELLGKELAELpK 318
Cdd:COG5805   129 NQNGQAAILALRDITKKK-KIEEILQEQEERLQTLIeNSPDLICVIDTDGRILFINESIERLFGAPREELIGKNLLEL-L 206

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 319 SDKNRADLLETINTCIKKGKEWQGVYYARRKSGDSIQQHVKITPVIGQGGKIRHFVSLKK 378
Cdd:COG5805   207 HPCDKEEFKERIESITEVWQEFIIEREIITKDGRIRYFEAVIVPLIDTDGSVKGILVILR 266
HDc smart00471
Metal dependent phosphohydrolases with conserved 'HD' motif; Includes eukaryotic cyclic ...
 645-743 3.63e-05

Metal dependent phosphohydrolases with conserved 'HD' motif; Includes eukaryotic cyclic nucleotide phosphodiesterases (PDEc). This profile/HMM does not detect HD homologues in bacterial glycine aminoacyl-tRNA synthetases (beta subunit).


Pssm-ID: 214679 [Multi-domain]  Cd Length: 124  Bit Score: 44.21  E-value: 3.63e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083  645 NAYHNSTHAADVLHaTAFFLGKErvkgsLDQLDEVAALIAATVHDVDHPGRTNSFLCNAGSELavlyndtavlesHHTAL 724
Cdd:smart00471   1 SDYHVFEHSLRVAQ-LAAALAEE-----LGLLDIELLLLAALLHDIGKPGTPDSFLVKTSVLE------------DHHFI 62

                           90
                   ....*....|....*....
gi 1191860083  725 AFQLTVKDNKCNIFKNIDR 743
Cdd:smart00471  63 GAEILLEEEEPRILEEILR 81
PRK13558 PRK13558
bacterio-opsin activator; Provisional
 273-374 1.62e-04

bacterio-opsin activator; Provisional


Pssm-ID: 237426 [Multi-domain]  Cd Length: 665  Bit Score: 45.60  E-value: 1.62e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 273 ALDHCHEAIEI---TSDDHVIQYVNPAFERMMGYHKGELLGKELAELPKSDKNrADLLETINTCIKKGKEWQGVYYARRK 349
Cdd:PRK13558  153 ALDEAPVGITIadaTLPDEPLIYINDAFERITGYSPDEVLGRNCRFLQGEDTN-EERVAELREAIDEERPTSVELRNYRK 231

                          90       100
                  ....*....|....*....|....*
gi 1191860083 350 SGDSIQQHVKITPVIGQGGKIRHFV 374
Cdd:PRK13558  232 DGSTFWNQVDIAPIRDEDGTVTHYV 256
PAS_8 pfam13188
PAS domain; PAS domains are involved in many signalling proteins where they are used as a ...
 272-331 1.04e-03

PAS domain; PAS domains are involved in many signalling proteins where they are used as a signal sensor domain. PAS domains appear in archaea, bacteria and eukaryotes. Several PAS-domain proteins are known to detect their signal by way of an associated cofactor. Heme, flavin, and a 4-hydroxycinnamyl chromophore are used in different proteins. This domain recognizes oxygen and CO (Matilla et al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 463802 [Multi-domain]  Cd Length: 65  Bit Score: 38.30  E-value: 1.04e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1191860083 272 TALDHCHEAIEITSDDHVIQYVNPAFERMMGY-HKGELLGKELAELPKSDKNRADLLETIN 331
Cdd:pfam13188   5 ALFESSPDGILVLDEGGRIIYVNPAALELLGYeLLGELLGELLDLLDPLLEDALELLRELR 65
KinE COG5809
Sporulation sensor histidine kinase E [Cell cycle control, cell division, chromosome ...
 274-370 2.63e-03

Sporulation sensor histidine kinase E [Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 444511 [Multi-domain]  Cd Length: 489  Bit Score: 41.50  E-value: 2.63e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 274 LDHCHEAIEITSDDHVIQYVNPAFERMMGYHKGELLGKELAELPKSDKNRadLLETINTCIKKGKEWQGVYYARR-KSGD 352
Cdd:COG5809    21 FENAPDAILILDLEGKILKVNPAAERIFGYTEDELLGTNILDFLHPDDEK--ELREILKLLKEGESRDELEFELRhKNGK 98

                          90
                  ....*....|....*...
gi 1191860083 353 SIQQHVKITPVIGQGGKI 370
Cdd:COG5809    99 RLEFSSKLSPIFDQNGDI 116
NtrY COG5000
Signal transduction histidine kinase NtrY involved in nitrogen fixation and metabolism ...
 272-367 6.29e-03

Signal transduction histidine kinase NtrY involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms];


Pssm-ID: 444024 [Multi-domain]  Cd Length: 422  Bit Score: 39.95  E-value: 6.29e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 272 TALDHCHEAIEITSDDHVIQYVNPAFERMMGYHKGELLGKELAELPKSDKNRADLLETINtcikkgKEWQGVYyaRRKSG 351
Cdd:COG5000    94 TILENLPAGVIVLDADGRITLANPAAERLLGIPLEELIGKPLEELLPELDLAELLREALE------RGWQEEI--ELTRD 165

                          90
                  ....*....|....*.
gi 1191860083 352 DSIQQHVKITPVIGQG 367
Cdd:COG5000   166 GRRTLLVRASPLRDDG 181
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 153-234 6.52e-03

Two-component response regulator, PleD family, consists of two REC domains and a diguanylate cyclase (GGDEF) domain [Signal transduction mechanisms, Transcription];


Pssm-ID: 442920 [Multi-domain]  Cd Length: 179  Bit Score: 38.74  E-value: 6.52e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191860083 153 RAGYRCNIARTPESALECFLDKHHEIIVIDHrQTRNFDAEAVCRSIRATNPSEHTVILAVVSQTCSDHEEASvlplLHAG 232
Cdd:COG3706    23 AAGYEVVEAADGEEALELLQEHRPDLILLDL-EMPDMDGLELCRRLRADPRTADIPIIFLTALDDEEDRARA----LEAG 97


                  ..
gi 1191860083 233 FN 234
Cdd:COG3706    98 AD 99
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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