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Conserved domains on  [gi|1085698214|emb|SDO76448|]
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poly(beta-D-mannuronate) C5 epimerase [Pseudomonas azotoformans]

Protein Classification

right-handed parallel beta-helix repeat-containing protein( domain architecture ID 17609036)

right-handed parallel beta-helix repeat-containing protein that may share some similarity with pectate lyases, similar to Pseudomonas putida mannuronan C5-epimerase that catalyzes the epimerization of beta-D-mannuronate to alpha-L-guluronate during the synthesis of the linear polysaccharide alginate

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
epimerase_AlgG super family cl45661
mannuronan 5-epimerase AlgG;
5-517 0e+00

mannuronan 5-epimerase AlgG;


The actual alignment was detected with superfamily member NF038177:

Pssm-ID: 468398 [Multi-domain]  Cd Length: 519  Bit Score: 1061.76  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214   5 SLLVAAMLLASATAFADTTAKA---PTIAKELQQAKTYTISSPPTAPLEMAKPALPDLSGYTAAAMEKKIVRTKPGKISI 81
Cdd:NF038177    4 ALLLGALLLASGAAQAAVPAQPeapRQLAKELQQAKTYTVTSAPIEPLEMDPPKLPDLSGYTAAAVEKKIVRKPGGKISV 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214  82 RRMMQEDALKDFIGGDNKMAEWVVRQHGIPQAIFVDDGYMNLKDLLGKVPKQYLSETSPGVIVAKLPIVVGRKGILEIDK 161
Cdd:NF038177   84 ARMMQETALKEFTGGDNKLAEWVVRQHGIPQAIFIEDGYVNLGQLAKKVPKQYLSEVEPGVYVARLPIVVGQGGILEIDK 163

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 162 KTQELRLSQEAGSFLINDGQLFVHDTKVTGWSEKANGPALFKSPKEFRPFLLAWGGTETYISNTKMASFGYANSKSYGVS 241
Cdd:NF038177  164 KVKELRLSQERGAFLVNDGKLFVTDTKVTGWSEKNNGPAAYRTPKEFRPFLLSWGGTETYISNTKMASFGYNTSKSYGVS 243

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 242 ISQYTPNMAKVLKRPEPTGWIIDSEFSDMWYGFYCYETTGFVIKGNTYKDNIVYGIDPHDRSHGLIIADNTVYGTKKKHG 321
Cdd:NF038177  244 ISQYTPNMAKRLKRPEPTGWIIDSEFSDMWYGFYCYETDDFVVKGNTYRDNIVYGIDPHDRSHRLIIAENTVYGTKKKHG 323

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 322 IIISREVNDSFIFNNRSYDNKLSGLVIDRNSVNNLIADNEIYRNHTDGITLYESGDNLLWGNKVISNRRHGIRVRNSVNI 401
Cdd:NF038177  324 IIVSREVNDSFIFNNRSYDNKLSGIVLDRNSVGNLVAYNEVYRNHTDGITLYESGDNLLWGNRVIANRRHGIRVRNSVNI 403

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 402 KLYENTAMANGLTGVYGHIKDLTDTDRDIALDPFDAKVSLIVVGGELAGNGSGPLSIDSPLSIELYRVSMLAPTKSSGIS 481
Cdd:NF038177  404 RLYENLAMANGLTGVYGHIKDLSDTDRDIALDPFDTKVSLIVVGGELSGNGSGPLSIDSPLSVELYRVSMLAPTKSSGIS 483

                         490       500       510
                  ....*....|....*....|....*....|....*.
gi 1085698214 482 FSGVLGDRQEEILDLLVRQQKAVLIDPVERQTEMQD 517
Cdd:NF038177  484 LNGVLGERQDEILDLLVRQQKAVLIDPVESQTELQD 519
 
Name Accession Description Interval E-value
epimerase_AlgG NF038177
mannuronan 5-epimerase AlgG;
5-517 0e+00

mannuronan 5-epimerase AlgG;


Pssm-ID: 468398 [Multi-domain]  Cd Length: 519  Bit Score: 1061.76  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214   5 SLLVAAMLLASATAFADTTAKA---PTIAKELQQAKTYTISSPPTAPLEMAKPALPDLSGYTAAAMEKKIVRTKPGKISI 81
Cdd:NF038177    4 ALLLGALLLASGAAQAAVPAQPeapRQLAKELQQAKTYTVTSAPIEPLEMDPPKLPDLSGYTAAAVEKKIVRKPGGKISV 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214  82 RRMMQEDALKDFIGGDNKMAEWVVRQHGIPQAIFVDDGYMNLKDLLGKVPKQYLSETSPGVIVAKLPIVVGRKGILEIDK 161
Cdd:NF038177   84 ARMMQETALKEFTGGDNKLAEWVVRQHGIPQAIFIEDGYVNLGQLAKKVPKQYLSEVEPGVYVARLPIVVGQGGILEIDK 163

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 162 KTQELRLSQEAGSFLINDGQLFVHDTKVTGWSEKANGPALFKSPKEFRPFLLAWGGTETYISNTKMASFGYANSKSYGVS 241
Cdd:NF038177  164 KVKELRLSQERGAFLVNDGKLFVTDTKVTGWSEKNNGPAAYRTPKEFRPFLLSWGGTETYISNTKMASFGYNTSKSYGVS 243

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 242 ISQYTPNMAKVLKRPEPTGWIIDSEFSDMWYGFYCYETTGFVIKGNTYKDNIVYGIDPHDRSHGLIIADNTVYGTKKKHG 321
Cdd:NF038177  244 ISQYTPNMAKRLKRPEPTGWIIDSEFSDMWYGFYCYETDDFVVKGNTYRDNIVYGIDPHDRSHRLIIAENTVYGTKKKHG 323

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 322 IIISREVNDSFIFNNRSYDNKLSGLVIDRNSVNNLIADNEIYRNHTDGITLYESGDNLLWGNKVISNRRHGIRVRNSVNI 401
Cdd:NF038177  324 IIVSREVNDSFIFNNRSYDNKLSGIVLDRNSVGNLVAYNEVYRNHTDGITLYESGDNLLWGNRVIANRRHGIRVRNSVNI 403

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 402 KLYENTAMANGLTGVYGHIKDLTDTDRDIALDPFDAKVSLIVVGGELAGNGSGPLSIDSPLSIELYRVSMLAPTKSSGIS 481
Cdd:NF038177  404 RLYENLAMANGLTGVYGHIKDLSDTDRDIALDPFDTKVSLIVVGGELSGNGSGPLSIDSPLSVELYRVSMLAPTKSSGIS 483

                         490       500       510
                  ....*....|....*....|....*....|....*.
gi 1085698214 482 FSGVLGDRQEEILDLLVRQQKAVLIDPVERQTEMQD 517
Cdd:NF038177  484 LNGVLGERQDEILDLLVRQQKAVLIDPVESQTELQD 519
Beta_helix pfam13229
Right handed beta helix region; This region contains a parallel beta helix region that shares ...
 272-417 3.27e-16

Right handed beta helix region; This region contains a parallel beta helix region that shares some similarity with Pectate lyases.


Pssm-ID: 463811 [Multi-domain]  Cd Length: 158  Bit Score: 75.91  E-value: 3.27e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 272 YGFYCYETTGFVIKGNTYKDNIVYGIDPHDrSHGLIIADNTVYGTKKkHGIIISREVNdSFIFNNRSYDNKLSGLVIdRN 351
Cdd:pfam13229   1 SGILLNGSSNATIKNNTISNNGGYGIYLRG-SSNATIENNTITNNGG-DGIEISGSSN-NTISNNTISNNGGGGIAL-RG 76

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1085698214 352 SVNNLIADNEIYRNHTDGITLYESGDNLLWGNKVISNRRHGIRV-RNSVNIKLYENTAMANGLTGVY 417
Cdd:pfam13229  77 SSNNLIENNTISNNGGAGIYLSDSSNNTIENNIIHNNGGSGIVIeDSSNNVTISNNTVTNNKGAGIL 143
NosD COG3420
Nitrous oxide reductase accessory protein NosD, contains tandem CASH domains [Inorganic ion ...
 262-417 3.78e-15

Nitrous oxide reductase accessory protein NosD, contains tandem CASH domains [Inorganic ion transport and metabolism];


Pssm-ID: 442646 [Multi-domain]  Cd Length: 343  Bit Score: 76.49  E-value: 3.78e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 262 IIDSEFSDMWYGFYCYETTGFVIKGNTYKDNIVYGIDPHD-----RSHGLIIADNTVYGTKkkHGIIISReVNDSFIFNN 336
Cdd:COG3420   111 IENNRIENNLFGIYLEGSDNNVIRNNTISGNRDLRADRGNgihlwNSPGNVIEGNTISGGR--DGIYLEF-SDNNVIRNN 187

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 337 R------------SYDNKLSGLVIDRNSV--------NNLIADNEIYRNHTDGITLYESGDNLLWGNKVISNRrHGIRVR 396
Cdd:COG3420   188 TirnlrygihymySNDNLVEGNTFRDNGAgialmyskGNTVRGNTILGNSGYGILLKESSDSVIEGNTISGNG-KGIFIY 266

                         170       180
                  ....*....|....*....|.
gi 1085698214 397 NSVNIKLYENTAMANGlTGVY 417
Cdd:COG3420   267 NSNRNTIRGNLFAGNG-IGIH 286
CASH smart00722
Domain present in carbohydrate binding proteins and sugar hydrolses;
280-396 8.59e-08

Domain present in carbohydrate binding proteins and sugar hydrolses;


Pssm-ID: 214788  Cd Length: 153  Bit Score: 51.74  E-value: 8.59e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214  280 TGFVIKGNTYKDNIVYGIDPHDRSHGLII--ADNTVYG----TKKKHGIIISREVNDSFIFN---NRSYDNKLSGLVIDR 350
Cdd:smart00722  26 GGAVIDMGSGRGSNITINSNDVRVDGVTIggDGNAVTGiyvsASGDPVIQNDGTGKNLIIDNvtfNGTEINSGAGIVVTA 105

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*....
gi 1085698214  351 NSVNNLIaDNEIYRNHT---DGITLYESGDNLLWGNKVISNRRHGIRVR 396
Cdd:smart00722 106 GSEGLFI-GNRIIGNYVatgDGNYLSDSSGGDLIGNRIYDNNRDGIAVV 153
para_beta_helix TIGR03804
parallel beta-helix repeat (two copies); This model represents a tandem pair of an ...
 369-408 1.10e-04

parallel beta-helix repeat (two copies); This model represents a tandem pair of an approximately 22-amino acid (each) repeat homologous to the beta-strand repeats that stack in a right-handed parallel beta-helix in the periplasmic C-5 mannuronan epimerase, AlgA, of Pseudomonas aeruginosa. A homology domain consisting of a longer tandem array of these repeats is described in the SMART database as CASH (SM00722), and is found in many carbohydrate-binding proteins and sugar hydrolases. A single repeat is represented by SM00710. This TIGRFAMs model represents a flavor of the parallel beta-helix-forming repeat based on prokaryotic sequences only in its seed alignment, although it also finds many eukaryotic sequences.


Pssm-ID: 274795 [Multi-domain]  Cd Length: 44  Bit Score: 39.80  E-value: 1.10e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1085698214 369 GITLYESGDNLLWGNKVISNRrHGIRVRNSVNIKLYENTA 408
Cdd:TIGR03804   1 GIYLESSSNNTLSNNTASNNS-YGIYLYDSSNNTLSNNTA 39
 
Name Accession Description Interval E-value
epimerase_AlgG NF038177
mannuronan 5-epimerase AlgG;
5-517 0e+00

mannuronan 5-epimerase AlgG;


Pssm-ID: 468398 [Multi-domain]  Cd Length: 519  Bit Score: 1061.76  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214   5 SLLVAAMLLASATAFADTTAKA---PTIAKELQQAKTYTISSPPTAPLEMAKPALPDLSGYTAAAMEKKIVRTKPGKISI 81
Cdd:NF038177    4 ALLLGALLLASGAAQAAVPAQPeapRQLAKELQQAKTYTVTSAPIEPLEMDPPKLPDLSGYTAAAVEKKIVRKPGGKISV 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214  82 RRMMQEDALKDFIGGDNKMAEWVVRQHGIPQAIFVDDGYMNLKDLLGKVPKQYLSETSPGVIVAKLPIVVGRKGILEIDK 161
Cdd:NF038177   84 ARMMQETALKEFTGGDNKLAEWVVRQHGIPQAIFIEDGYVNLGQLAKKVPKQYLSEVEPGVYVARLPIVVGQGGILEIDK 163

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 162 KTQELRLSQEAGSFLINDGQLFVHDTKVTGWSEKANGPALFKSPKEFRPFLLAWGGTETYISNTKMASFGYANSKSYGVS 241
Cdd:NF038177  164 KVKELRLSQERGAFLVNDGKLFVTDTKVTGWSEKNNGPAAYRTPKEFRPFLLSWGGTETYISNTKMASFGYNTSKSYGVS 243

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 242 ISQYTPNMAKVLKRPEPTGWIIDSEFSDMWYGFYCYETTGFVIKGNTYKDNIVYGIDPHDRSHGLIIADNTVYGTKKKHG 321
Cdd:NF038177  244 ISQYTPNMAKRLKRPEPTGWIIDSEFSDMWYGFYCYETDDFVVKGNTYRDNIVYGIDPHDRSHRLIIAENTVYGTKKKHG 323

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 322 IIISREVNDSFIFNNRSYDNKLSGLVIDRNSVNNLIADNEIYRNHTDGITLYESGDNLLWGNKVISNRRHGIRVRNSVNI 401
Cdd:NF038177  324 IIVSREVNDSFIFNNRSYDNKLSGIVLDRNSVGNLVAYNEVYRNHTDGITLYESGDNLLWGNRVIANRRHGIRVRNSVNI 403

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 402 KLYENTAMANGLTGVYGHIKDLTDTDRDIALDPFDAKVSLIVVGGELAGNGSGPLSIDSPLSIELYRVSMLAPTKSSGIS 481
Cdd:NF038177  404 RLYENLAMANGLTGVYGHIKDLSDTDRDIALDPFDTKVSLIVVGGELSGNGSGPLSIDSPLSVELYRVSMLAPTKSSGIS 483

                         490       500       510
                  ....*....|....*....|....*....|....*.
gi 1085698214 482 FSGVLGDRQEEILDLLVRQQKAVLIDPVERQTEMQD 517
Cdd:NF038177  484 LNGVLGERQDEILDLLVRQQKAVLIDPVESQTELQD 519
Beta_helix pfam13229
Right handed beta helix region; This region contains a parallel beta helix region that shares ...
 272-417 3.27e-16

Right handed beta helix region; This region contains a parallel beta helix region that shares some similarity with Pectate lyases.


Pssm-ID: 463811 [Multi-domain]  Cd Length: 158  Bit Score: 75.91  E-value: 3.27e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 272 YGFYCYETTGFVIKGNTYKDNIVYGIDPHDrSHGLIIADNTVYGTKKkHGIIISREVNdSFIFNNRSYDNKLSGLVIdRN 351
Cdd:pfam13229   1 SGILLNGSSNATIKNNTISNNGGYGIYLRG-SSNATIENNTITNNGG-DGIEISGSSN-NTISNNTISNNGGGGIAL-RG 76

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1085698214 352 SVNNLIADNEIYRNHTDGITLYESGDNLLWGNKVISNRRHGIRV-RNSVNIKLYENTAMANGLTGVY 417
Cdd:pfam13229  77 SSNNLIENNTISNNGGAGIYLSDSSNNTIENNIIHNNGGSGIVIeDSSNNVTISNNTVTNNKGAGIL 143
Beta_helix pfam13229
Right handed beta helix region; This region contains a parallel beta helix region that shares ...
 262-408 2.90e-15

Right handed beta helix region; This region contains a parallel beta helix region that shares some similarity with Pectate lyases.


Pssm-ID: 463811 [Multi-domain]  Cd Length: 158  Bit Score: 73.21  E-value: 2.90e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 262 IIDSEFSDM-WYGFYCYETTGFVIKGNTYKDNIVYGIDPHDRSHGLIIaDNTVYGTkkKHGIIISREVNDSFIFNNRSYD 340
Cdd:pfam13229  13 IKNNTISNNgGYGIYLRGSSNATIENNTITNNGGDGIEISGSSNNTIS-NNTISNN--GGGGIALRGSSNNLIENNTISN 89

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 341 NKLSGLVIDRNSvNNLIADNEIYRNHTDGITLYESGDNL-LWGNKVISNRRHGIRVRNSV-NIKLYENTA 408
Cdd:pfam13229  90 NGGAGIYLSDSS-NNTIENNIIHNNGGSGIVIEDSSNNVtISNNTVTNNKGAGILIVGGSsNNTVENNTF 158
NosD COG3420
Nitrous oxide reductase accessory protein NosD, contains tandem CASH domains [Inorganic ion ...
 262-417 3.78e-15

Nitrous oxide reductase accessory protein NosD, contains tandem CASH domains [Inorganic ion transport and metabolism];


Pssm-ID: 442646 [Multi-domain]  Cd Length: 343  Bit Score: 76.49  E-value: 3.78e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 262 IIDSEFSDMWYGFYCYETTGFVIKGNTYKDNIVYGIDPHD-----RSHGLIIADNTVYGTKkkHGIIISReVNDSFIFNN 336
Cdd:COG3420   111 IENNRIENNLFGIYLEGSDNNVIRNNTISGNRDLRADRGNgihlwNSPGNVIEGNTISGGR--DGIYLEF-SDNNVIRNN 187

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 337 R------------SYDNKLSGLVIDRNSV--------NNLIADNEIYRNHTDGITLYESGDNLLWGNKVISNRrHGIRVR 396
Cdd:COG3420   188 TirnlrygihymySNDNLVEGNTFRDNGAgialmyskGNTVRGNTILGNSGYGILLKESSDSVIEGNTISGNG-KGIFIY 266

                         170       180
                  ....*....|....*....|.
gi 1085698214 397 NSVNIKLYENTAMANGlTGVY 417
Cdd:COG3420   267 NSNRNTIRGNLFAGNG-IGIH 286
NosD COG3420
Nitrous oxide reductase accessory protein NosD, contains tandem CASH domains [Inorganic ion ...
 262-401 4.31e-13

Nitrous oxide reductase accessory protein NosD, contains tandem CASH domains [Inorganic ion transport and metabolism];


Pssm-ID: 442646 [Multi-domain]  Cd Length: 343  Bit Score: 70.33  E-value: 4.31e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 262 IIDSEFSDMWYGFYCYETTGFVIKGNTYKDNIVyGIDPHDrSHGLIIADNTVYGTKKkHGIIIsREVNDSFIFNNRSYDN 341
Cdd:COG3420   184 IRNNTIRNLRYGIHYMYSNDNLVEGNTFRDNGA-GIALMY-SKGNTVRGNTILGNSG-YGILL-KESSDSVIEGNTISGN 259

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1085698214 342 KlSGLVIDrNSVNNLIADNEIYRNHTdGITLY-ESGDNLLWGNKVISNRRHGIRVRNSVNI 401
Cdd:COG3420   260 G-KGIFIY-NSNRNTIRGNLFAGNGI-GIHLTaGSEGNRIYGNNFIGNRTQVKYVGGRDNE 317
NosD pfam05048
Periplasmic copper-binding protein (NosD); NosD is a periplasmic protein which is thought to ...
 283-417 2.16e-11

Periplasmic copper-binding protein (NosD); NosD is a periplasmic protein which is thought to insert copper into the exported reductase apoenzyme (NosZ). This region forms a parallel beta helix domain.


Pssm-ID: 428281 [Multi-domain]  Cd Length: 215  Bit Score: 63.59  E-value: 2.16e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 283 VIKGNTYkdNIVYGIDPHDRSHGLIIADNTVYGTKkkhgIIISRevndSFIFNNRSYDNKLSGLVID--------RNSVN 354
Cdd:pfam05048   4 AISGDTI--GIYNGLSRGNGIQLWNTEGNVISNND----IINSR----DGIYLDASNNNTITGNRISnlrygihlMNSND 73

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1085698214 355 NLIADNEIYRNhTDGITLYESGDNLLWGNKVISNRRHGIRVRNSVNIKLYENTAMANGLTGVY 417
Cdd:pfam05048  74 NTISDNVFSGN-TAGIALMSSSNNTLENNTISGNTNYGILLSDSSNNTISNNTISNNNGKGIF 135
NosD pfam05048
Periplasmic copper-binding protein (NosD); NosD is a periplasmic protein which is thought to ...
 262-407 2.29e-11

Periplasmic copper-binding protein (NosD); NosD is a periplasmic protein which is thought to insert copper into the exported reductase apoenzyme (NosZ). This region forms a parallel beta helix domain.


Pssm-ID: 428281 [Multi-domain]  Cd Length: 215  Bit Score: 63.21  E-value: 2.29e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 262 IIDSEFSDMWYGFYCYETTGFVIKGNTYKDNiVYGIdpH-DRSHGLIIADNTVYGTKKkhGIIISrEVNDSFIFNNRSYD 340
Cdd:pfam05048  32 ISNNDIINSRDGIYLDASNNNTITGNRISNL-RYGI--HlMNSNDNTISDNVFSGNTA--GIALM-SSSNNTLENNTISG 105

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1085698214 341 NKLSGlVIDRNSVNNLIADNEIYRNHTDGITLYESGDNLLWGNKVISNrRHGIRVRN-SVNIKLYENT 407
Cdd:pfam05048 106 NTNYG-ILLSDSSNNTISNNTISNNNGKGIFLYNSDYNTITGNRITSN-GIGIHFLAgSNGNTIYNNY 171
NosD pfam05048
Periplasmic copper-binding protein (NosD); NosD is a periplasmic protein which is thought to ...
 262-418 4.67e-10

Periplasmic copper-binding protein (NosD); NosD is a periplasmic protein which is thought to insert copper into the exported reductase apoenzyme (NosZ). This region forms a parallel beta helix domain.


Pssm-ID: 428281 [Multi-domain]  Cd Length: 215  Bit Score: 59.35  E-value: 4.67e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 262 IIDSEFSDMWYGFYCYETTGFVIKGNTYKDNiVYGIDPHDrSHGLIIADNTVYGTkKKHGIIISrEVNDSFIFNNRSYDN 341
Cdd:pfam05048  54 ITGNRISNLRYGIHLMNSNDNTISDNVFSGN-TAGIALMS-SSNNTLENNTISGN-TNYGILLS-DSSNNTISNNTISNN 129

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1085698214 342 KLSGLVIDrNSVNNLIADNEIYRNHTDGITLYESGDNLLWGNKVISNRRHgirVRNSVNIKLYENTAMANGLTGVYG 418
Cdd:pfam05048 130 NGKGIFLY-NSDYNTITGNRITSNGIGIHFLAGSNGNTIYNNYFINNSEN---VKYVGTNDNYWNTTKTTGYNIIGG 202
CASH smart00722
Domain present in carbohydrate binding proteins and sugar hydrolses;
280-396 8.59e-08

Domain present in carbohydrate binding proteins and sugar hydrolses;


Pssm-ID: 214788  Cd Length: 153  Bit Score: 51.74  E-value: 8.59e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214  280 TGFVIKGNTYKDNIVYGIDPHDRSHGLII--ADNTVYG----TKKKHGIIISREVNDSFIFN---NRSYDNKLSGLVIDR 350
Cdd:smart00722  26 GGAVIDMGSGRGSNITINSNDVRVDGVTIggDGNAVTGiyvsASGDPVIQNDGTGKNLIIDNvtfNGTEINSGAGIVVTA 105

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*....
gi 1085698214  351 NSVNNLIaDNEIYRNHT---DGITLYESGDNLLWGNKVISNRRHGIRVR 396
Cdd:smart00722 106 GSEGLFI-GNRIIGNYVatgDGNYLSDSSGGDLIGNRIYDNNRDGIAVV 153
Beta_helix pfam13229
Right handed beta helix region; This region contains a parallel beta helix region that shares ...
 261-362 8.05e-06

Right handed beta helix region; This region contains a parallel beta helix region that shares some similarity with Pectate lyases.


Pssm-ID: 463811 [Multi-domain]  Cd Length: 158  Bit Score: 45.86  E-value: 8.05e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1085698214 261 WIIDSEFSDMWY-GFYCYETTGFVIKGNTYKDNIVYGIDPHDRSHgLIIADNTVYGTKKkHGIIISREVNDSFIFNNRSY 339
Cdd:pfam13229  58 TISNNTISNNGGgGIALRGSSNNLIENNTISNNGGAGIYLSDSSN-NTIENNIIHNNGG-SGIVIEDSSNNVTISNNTVT 135

                          90       100
                  ....*....|....*....|...
gi 1085698214 340 DNKLSGLVIDRNSVNNLIADNEI 362
Cdd:pfam13229 136 NNKGAGILIVGGSSNNTVENNTF 158
para_beta_helix TIGR03804
parallel beta-helix repeat (two copies); This model represents a tandem pair of an ...
 369-408 1.10e-04

parallel beta-helix repeat (two copies); This model represents a tandem pair of an approximately 22-amino acid (each) repeat homologous to the beta-strand repeats that stack in a right-handed parallel beta-helix in the periplasmic C-5 mannuronan epimerase, AlgA, of Pseudomonas aeruginosa. A homology domain consisting of a longer tandem array of these repeats is described in the SMART database as CASH (SM00722), and is found in many carbohydrate-binding proteins and sugar hydrolases. A single repeat is represented by SM00710. This TIGRFAMs model represents a flavor of the parallel beta-helix-forming repeat based on prokaryotic sequences only in its seed alignment, although it also finds many eukaryotic sequences.


Pssm-ID: 274795 [Multi-domain]  Cd Length: 44  Bit Score: 39.80  E-value: 1.10e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1085698214 369 GITLYESGDNLLWGNKVISNRrHGIRVRNSVNIKLYENTA 408
Cdd:TIGR03804   1 GIYLESSSNNTLSNNTASNNS-YGIYLYDSSNNTLSNNTA 39
para_beta_helix TIGR03804
parallel beta-helix repeat (two copies); This model represents a tandem pair of an ...
 351-390 1.81e-04

parallel beta-helix repeat (two copies); This model represents a tandem pair of an approximately 22-amino acid (each) repeat homologous to the beta-strand repeats that stack in a right-handed parallel beta-helix in the periplasmic C-5 mannuronan epimerase, AlgA, of Pseudomonas aeruginosa. A homology domain consisting of a longer tandem array of these repeats is described in the SMART database as CASH (SM00722), and is found in many carbohydrate-binding proteins and sugar hydrolases. A single repeat is represented by SM00710. This TIGRFAMs model represents a flavor of the parallel beta-helix-forming repeat based on prokaryotic sequences only in its seed alignment, although it also finds many eukaryotic sequences.


Pssm-ID: 274795 [Multi-domain]  Cd Length: 44  Bit Score: 39.03  E-value: 1.81e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1085698214 351 NSVNNLIADNEIYRNhTDGITLYESGDNLLWGNKVISNRR 390
Cdd:TIGR03804   6 SSSNNTLSNNTASNN-SYGIYLYDSSNNTLSNNTASNNGY 44
 
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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