NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|979879476|emb|CUS96250|]
View 

ribosome maturation factor RimP [Candidatus Kryptonium thompsonii]

Protein Classification

ribosome maturation factor RimP( domain architecture ID 10002501)

ribosome maturation factor rimp is important for maturation of 30S ribosome subunits

Gene Symbol:  rimP
Gene Ontology:  GO:0000028|GO:0042274|GO:0006412
PubMed:  19150615

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
RimP COG0779
Ribosome maturation factor RimP [Translation, ribosomal structure and biogenesis];
1-155 1.11e-42

Ribosome maturation factor RimP [Translation, ribosomal structure and biogenesis];


:

Pssm-ID: 440542 [Multi-domain]  Cd Length: 151  Bit Score: 138.72  E-value: 1.11e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 979879476   1 MMDIEEvksRLREIILPIVENSGAYLVDINLKGVGKRLIVEVLVDTDDGITVKKCEEISKQISDALDFYDPIPGSYRLEV 80
Cdd:COG0779    1 MSGLEE---RLEELLEPVLEELGLELVDVEVVKEGKRWVLRVYIDKDGGVTLDDCAAVSRALSAVLDVEDPIPGAYTLEV 77

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 979879476  81 SSPGVGNPFKVKRQYFTNVGRFLRVKYVDAPSNQvREVFGKLISAGEEAIELKVDDDFLILKYEQILEAKTEIVW 155
Cdd:COG0779   78 SSPGLDRPLKKPRDFERFIGRLVKVKLREPIDGR-KKFTGRLLGVDDDGVTLEVDGKEVEIPLDDIAKARLVIEF 151
 
Name Accession Description Interval E-value
RimP COG0779
Ribosome maturation factor RimP [Translation, ribosomal structure and biogenesis];
1-155 1.11e-42

Ribosome maturation factor RimP [Translation, ribosomal structure and biogenesis];


Pssm-ID: 440542 [Multi-domain]  Cd Length: 151  Bit Score: 138.72  E-value: 1.11e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 979879476   1 MMDIEEvksRLREIILPIVENSGAYLVDINLKGVGKRLIVEVLVDTDDGITVKKCEEISKQISDALDFYDPIPGSYRLEV 80
Cdd:COG0779    1 MSGLEE---RLEELLEPVLEELGLELVDVEVVKEGKRWVLRVYIDKDGGVTLDDCAAVSRALSAVLDVEDPIPGAYTLEV 77

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 979879476  81 SSPGVGNPFKVKRQYFTNVGRFLRVKYVDAPSNQvREVFGKLISAGEEAIELKVDDDFLILKYEQILEAKTEIVW 155
Cdd:COG0779   78 SSPGLDRPLKKPRDFERFIGRLVKVKLREPIDGR-KKFTGRLLGVDDDGVTLEVDGKEVEIPLDDIAKARLVIEF 151
PRK00092 PRK00092
ribosome maturation protein RimP; Reviewed
 1-155 1.36e-33

ribosome maturation protein RimP; Reviewed


Pssm-ID: 234627 [Multi-domain]  Cd Length: 154  Bit Score: 115.67  E-value: 1.36e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 979879476   1 MMDIEEvksRLREIILPIVENSGAYLVDINLKGVGKRLIVEVLVDTDDGITVKKCEEISKQISDALDFYDPIPGSYRLEV 80
Cdd:PRK00092   2 MSPLEE---QLTELIEPVVEALGYELVDVEYVKEGRDSTLRIYIDKEGGIDLDDCEEVSRQISAVLDVEDPIPGAYTLEV 78

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 979879476  81 SSPGVGNPFKVKRQYFTNVGRFLRVKyVDAPSNQVREVFGKLISAGEEAIELKVDDDF--LILKYEQILEAKTEIVW 155
Cdd:PRK00092  79 SSPGLDRPLKKARDFRRFIGREVKVK-LYEPIDGRKKFQGILLAVDGETVTLEVEGKEkeVEIPLDNIAKARLVVEF 154
RimP_N pfam02576
RimP N-terminal domain; This entry represents the N-terminal domain of the ribosome maturation ...
 14-85 1.77e-19

RimP N-terminal domain; This entry represents the N-terminal domain of the ribosome maturation factor RimP (also known as yhbC). RimP facilitates the maturation of the 30S ribosomal subunit. The N-terminal domain contains two alpha-helices and a three-stranded beta-sheet. It is suggested that the N-terminal domain of SP14.3 (RimP orthologue) could function as a protein module that binds to other proteins, especially those that contain highly positively charged surfaces..


Pssm-ID: 460600  Cd Length: 73  Bit Score: 76.87  E-value: 1.77e-19
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 979879476   14 IILPIVENSGAYLVDINLKGVGKRLIVEVLVDTDDGITVKKCEEISKQISDALDFYDPIPGSYRLEVSSPGV 85
Cdd:pfam02576   1 LIEPVVESLGFELVDVEFVKEGGGWTLRIYIDKDGGVTIDDCAKVSRAISAVLDVEDPISGEYTLEVSSPGL 72
YlxS_C cd01734
Bacillus subtilis YxlS-like, C-terminal domain; YxlS is a Bacillus subtilis gene of unknown ...
 84-155 5.24e-03

Bacillus subtilis YxlS-like, C-terminal domain; YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix and a five-stranded beta-sheet. This CD represents the C-terminal domain which has a fold similar to the Sm fold of proteins like Sm-D3.


Pssm-ID: 212481  Cd Length: 72  Bit Score: 33.96  E-value: 5.24e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 979879476  84 GVGNPFKVKRQYFTNVGRFLRVKyVDAPSNQVREVFGKLISAGEEAIELKVDDDFLI-LKYEQILEAKTEIVW 155
Cdd:cd01734    1 GLDRPLKKPEDFERFIGKEVKVK-LKEPIDGRKKFTGELLGVDDDTVTLEVDDGKEVeIPFDNIAKARLVPEF 72
 
Name Accession Description Interval E-value
RimP COG0779
Ribosome maturation factor RimP [Translation, ribosomal structure and biogenesis];
1-155 1.11e-42

Ribosome maturation factor RimP [Translation, ribosomal structure and biogenesis];


Pssm-ID: 440542 [Multi-domain]  Cd Length: 151  Bit Score: 138.72  E-value: 1.11e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 979879476   1 MMDIEEvksRLREIILPIVENSGAYLVDINLKGVGKRLIVEVLVDTDDGITVKKCEEISKQISDALDFYDPIPGSYRLEV 80
Cdd:COG0779    1 MSGLEE---RLEELLEPVLEELGLELVDVEVVKEGKRWVLRVYIDKDGGVTLDDCAAVSRALSAVLDVEDPIPGAYTLEV 77

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 979879476  81 SSPGVGNPFKVKRQYFTNVGRFLRVKYVDAPSNQvREVFGKLISAGEEAIELKVDDDFLILKYEQILEAKTEIVW 155
Cdd:COG0779   78 SSPGLDRPLKKPRDFERFIGRLVKVKLREPIDGR-KKFTGRLLGVDDDGVTLEVDGKEVEIPLDDIAKARLVIEF 151
PRK00092 PRK00092
ribosome maturation protein RimP; Reviewed
 1-155 1.36e-33

ribosome maturation protein RimP; Reviewed


Pssm-ID: 234627 [Multi-domain]  Cd Length: 154  Bit Score: 115.67  E-value: 1.36e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 979879476   1 MMDIEEvksRLREIILPIVENSGAYLVDINLKGVGKRLIVEVLVDTDDGITVKKCEEISKQISDALDFYDPIPGSYRLEV 80
Cdd:PRK00092   2 MSPLEE---QLTELIEPVVEALGYELVDVEYVKEGRDSTLRIYIDKEGGIDLDDCEEVSRQISAVLDVEDPIPGAYTLEV 78

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 979879476  81 SSPGVGNPFKVKRQYFTNVGRFLRVKyVDAPSNQVREVFGKLISAGEEAIELKVDDDF--LILKYEQILEAKTEIVW 155
Cdd:PRK00092  79 SSPGLDRPLKKARDFRRFIGREVKVK-LYEPIDGRKKFQGILLAVDGETVTLEVEGKEkeVEIPLDNIAKARLVVEF 154
PRK14647 PRK14647
ribosome maturation factor RimP;
2-133 6.35e-22

ribosome maturation factor RimP;


Pssm-ID: 173110 [Multi-domain]  Cd Length: 159  Bit Score: 85.95  E-value: 6.35e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 979879476   2 MDIEEVKSRLREIILPIVENSGAYLVDINLKGVGKRLIVEVLVDTDDGITVKKCEEISKQISDALDFYDPIPGSYRLEVS 81
Cdd:PRK14647   1 MAKVDVVDRVTELAEQVLSSLGLELVELEYKREGREMVLRLFIDKEGGVNLDDCAEVSRELSEILDVEDFIPERYTLEVS 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 979879476  82 SPGVGNPFKVKRQYFTNVGRFLRVK----YVDAPSNQVREVFGKL--ISAGEEAIELK 133
Cdd:PRK14647  81 SPGLDRPLKKEADYERYAGRLVKVRtfelLADEAGNKRKTFLGELegLADGVVTIALK 138
PRK14641 PRK14641
ribosome maturation factor RimP;
7-122 1.53e-20

ribosome maturation factor RimP;


Pssm-ID: 173104 [Multi-domain]  Cd Length: 173  Bit Score: 82.52  E-value: 1.53e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 979879476   7 VKSRLREIILPIVENS------GAYLVDINLKGVGKRLIVEVLVDTDDGITVKKCEEISKQISDALDFYDPIPG----SY 76
Cdd:PRK14641   1 MEEKINNCVLQVLEASagtkgeGVYLVSMTVKGSGKGRKIEVLLDADTGIRIDQCAFFSRRIRERLEEDEELLGlvgeDF 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 979879476  77 RLEVSSPGVGNPFKVKRQYFTNVGRFLRVKYVDAPSNQVrEVFGKL 122
Cdd:PRK14641  81 DLMVSSPGLGEPIILPRQYGRHVGRLLRVTYRDEEGSEH-EVTGHL 125
RimP_N pfam02576
RimP N-terminal domain; This entry represents the N-terminal domain of the ribosome maturation ...
 14-85 1.77e-19

RimP N-terminal domain; This entry represents the N-terminal domain of the ribosome maturation factor RimP (also known as yhbC). RimP facilitates the maturation of the 30S ribosomal subunit. The N-terminal domain contains two alpha-helices and a three-stranded beta-sheet. It is suggested that the N-terminal domain of SP14.3 (RimP orthologue) could function as a protein module that binds to other proteins, especially those that contain highly positively charged surfaces..


Pssm-ID: 460600  Cd Length: 73  Bit Score: 76.87  E-value: 1.77e-19
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 979879476   14 IILPIVENSGAYLVDINLKGVGKRLIVEVLVDTDDGITVKKCEEISKQISDALDFYDPIPGSYRLEVSSPGV 85
Cdd:pfam02576   1 LIEPVVESLGFELVDVEFVKEGGGWTLRIYIDKDGGVTIDDCAKVSRAISAVLDVEDPISGEYTLEVSSPGL 72
PRK14640 PRK14640
hypothetical protein; Provisional
 7-149 9.38e-16

hypothetical protein; Provisional


Pssm-ID: 173103 [Multi-domain]  Cd Length: 152  Bit Score: 69.65  E-value: 9.38e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 979879476   7 VKSRLREIILPIVENSGAYLVDINLKGVGKRLIVEVLVDTDDGITVKKCEEISKQISDALDFYDPIPGSYRLEVSSPGVG 86
Cdd:PRK14640   4 LEQRLTDLLEAPVVALGFELWGIEFIRAGKHSTLRVYIDGENGVSVENCAEVSHQVGAIMDVEDPITEEYYLEVSSPGLD 83

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 979879476  87 NPFKVKRQYFTNVGRFLRVKYVDAPSNQvREVFGKLISAGEEAIELKVDDDFLILKYEQILEA 149
Cdd:PRK14640  84 RPLFKVAQFEKYVGQEAAVTLRMATNNR-RKFKGVIKAVQGDMITLTVDGKDEVLAFTNIQKA 145
PRK14631 PRK14631
ribosome maturation factor RimP;
11-137 3.85e-15

ribosome maturation factor RimP;


Pssm-ID: 237772 [Multi-domain]  Cd Length: 174  Bit Score: 68.76  E-value: 3.85e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 979879476  11 LREIILPIVENSGAYLVDINLKGVGKRLIVEVLVDT------------------DDGITVKKCEEISKQISDALDFYDPI 72
Cdd:PRK14631  10 LTDIIAPAVAACGVDLWGIEFLPQGKRSLLRIYIDRlveenaepvinedgeveqGRGIGVEDCVRVTQQVGAMLDVHDPI 89

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 979879476  73 PGSYRLEVSSPGVGNPFKVKRQYFTNVGRFLRVKYVDAPSNQvREVFGKLISAGEEAIELKVDDD 137
Cdd:PRK14631  90 SGEYALEVSSPGWDRPFFQLEQLQGYIGQQVALRLIAAVENR-RKFQAKLLAVDLENEEIQVEVE 153
PRK02001 PRK02001
ribosome assembly cofactor RimP;
5-134 1.87e-14

ribosome assembly cofactor RimP;


Pssm-ID: 179358 [Multi-domain]  Cd Length: 152  Bit Score: 66.15  E-value: 1.87e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 979879476   5 EEVKSRLREIILpivENSGAYLVDINLkGVGKRLIVEVlvDTDDGITVKKCEEISKQISDALDFYDpipGSYRLEVSSPG 84
Cdd:PRK02001   4 KKVVELLVEELL---EGPELFLVDLTI-SPDNKIVVEI--DGDEGVWIEDCVELSRAIEHNLDREE---EDFELEVGSAG 74

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 979879476  85 VGNPFKVKRQYFTNVGRFLRVKYVDApsnqvREVFGKLISAGEEAIELKV 134
Cdd:PRK02001  75 LTSPLKVPRQYKKNIGRELEVLTKNG-----KKIEGELKSADENDITLEV 119
PRK14636 PRK14636
ribosome maturation protein RimP;
1-150 1.24e-12

ribosome maturation protein RimP;


Pssm-ID: 237773 [Multi-domain]  Cd Length: 176  Bit Score: 62.11  E-value: 1.24e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 979879476   1 MMDIeevkSRLREIILPIVENSGAYLVDINLKGVGKRLIVEVLVDTDDG--ITVKKCEEISKQISDALDFYDPIPGSYRL 78
Cdd:PRK14636   1 MADI----AALTALIEPEAKALGLDLVRVAMFGGKSDPTLQIMAERPDTrqLVIEDCAALSRRLSDVFDELDPIEDAYRL 76

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 979879476  79 EVSSPGVGNPFKVKRQYFTNVGRFLRVKYVdAPSNQVREVFGKLISAGEEAIELKVDDDF-LILKYEQILEAK 150
Cdd:PRK14636  77 EVSSPGIDRPLTRPKDFADWAGHEARIALS-EPLDGRKQFRGELKGIDGDTVTIADNKAGeVILPFAAIESAK 148
PRK14645 PRK14645
ribosome maturation factor RimP;
6-106 1.74e-12

ribosome maturation factor RimP;


Pssm-ID: 184780 [Multi-domain]  Cd Length: 154  Bit Score: 61.32  E-value: 1.74e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 979879476   6 EVKSRLREIILPIVENSGAYLVDINLKGVGKRLIVEVLVDTDDG--ITVKKCEEISKQISDALDFYDPIPGSYRLEVSSP 83
Cdd:PRK14645   6 ENNPDLQQLAEGALEPLGYEVLEVQVQRSGGKRIVLVRIDRKDEqpVTVEDLERASRALEAELDRLDPIEGEYRLEVESP 85

                         90       100
                 ....*....|....*....|...
gi 979879476  84 GVGNPFKVKRQYftnvGRFLRVK 106
Cdd:PRK14645  86 GPKRPLFTARHF----ERFAGLK 104
PRK14638 PRK14638
ribosome maturation factor RimP;
2-153 2.27e-12

ribosome maturation factor RimP;


Pssm-ID: 184777 [Multi-domain]  Cd Length: 150  Bit Score: 60.65  E-value: 2.27e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 979879476   2 MDIEEVKSRLREIILPIVENSGAYLVDINLKGVGKRLIVEVLVDTDDG-ITVKKCEEISKQISDALDFYDPIPGSYRLEV 80
Cdd:PRK14638   1 MFEEMILEKVRKEAERIAEEQGLEIFDVQYRRESRGWVLRIIIDNPVGyVSVRDCELFSREIERFLDREDLIEHSYTLEV 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 979879476  81 SSPGVGNPFKVKRQYFTNVGRFLRVKYVDApsnqvREVFGKLISAGEEAIELKVDDDFLILKYEQILEAKTEI 153
Cdd:PRK14638  81 SSPGLDRPLRGPKDYVRFTGKLAKIVTKDG-----KTFIGRIESFVDGTITISDEKEKYEINIDDVKRANLEV 148
PRK14639 PRK14639
ribosome maturation factor RimP;
18-155 3.10e-12

ribosome maturation factor RimP;


Pssm-ID: 173102 [Multi-domain]  Cd Length: 140  Bit Score: 60.22  E-value: 3.10e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 979879476  18 IVENSGAYLVDINLKGVGKRLIVEVLVDTDDGITVKKCEEISKQISDALDFYDPIPGSYRLEVSSPGVGNPFKVKRQYFT 97
Cdd:PRK14639   6 LCKECGVSFYDDELVSENGRKIYRVYITKEGGVNLDDCERLSELLSPIFDVEPPVSGEYFLEVSSPGLERKLSKIEHFAK 85

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 979879476  98 NVGRFLRVKyvdapSNQVREVFGKLISAGEEAIELK--VDDDFLILKYEQILEAKTEIVW 155
Cdd:PRK14639  86 SIGELVKIT-----TNEKEKFEGKIVSVDDENITLEnlENKEKTTINFNDIKKAKTYVEW 140
PRK14632 PRK14632
ribosome maturation factor RimP;
2-105 3.66e-11

ribosome maturation factor RimP;


Pssm-ID: 173095 [Multi-domain]  Cd Length: 172  Bit Score: 58.15  E-value: 3.66e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 979879476   2 MDIEEVKSRLREIILPIVENSGAYLVDINLKGvGKRLIVEVLVDTDDGITVKKCEEISKQISDALDFYDPIPGSYRLEVS 81
Cdd:PRK14632   1 MTKQALDATIADMAGPFLASLGLELWGIELSY-GGRTVVRLFVDGPEGVTIDQCAEVSRHVGLALEVEDVISSAYVLEVS 79

                         90       100
                 ....*....|....*....|....
gi 979879476  82 SPGVGNPFKVKRQYFTNVGRFLRV 105
Cdd:PRK14632  80 SPGLERPFFRAEQMSPYVGRQIEL 103
PRK14633 PRK14633
ribosome maturation factor RimP;
11-85 5.06e-11

ribosome maturation factor RimP;


Pssm-ID: 173096 [Multi-domain]  Cd Length: 150  Bit Score: 57.28  E-value: 5.06e-11
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 979879476  11 LREIILPIVENSGAYLVDINLKGVGKrLIVEVLVDTDDGITVKKCEEISKQISDALDFYDPIPGSYRLEVSSPGV 85
Cdd:PRK14633   6 LYEIVEPITADLGYILWGIEVVGSGK-LTIRIFIDHENGVSVDDCQIVSKEISAVFDVEDPVSGKYILEVSSPGM 79
PRK14637 PRK14637
ribosome maturation factor RimP;
17-150 8.78e-07

ribosome maturation factor RimP;


Pssm-ID: 237774 [Multi-domain]  Cd Length: 151  Bit Score: 46.01  E-value: 8.78e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 979879476  17 PIVENSGAYLVDINLKGVGKRLIVEVLVDTDDGITVKKCEEISKQISDALDFYDPIPGSYrLEVSSPGVGNPFKVKRQYF 96
Cdd:PRK14637  16 PVVEGLGCKLVDLSRRVQQAQGRVRAVIYSAGGVGLDDCARVHRILVPRLEALGGVRDVF-LEVSSPGIERVIKNAAEFS 94

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 979879476  97 TNVGRFLRVkyVDAPSNQVRevFGKLISAGEEAIELKVDDDFLILKYEQILEAK 150
Cdd:PRK14637  95 IFVGETVKV--WFECTGQWQ--VGTIAEADETCLVLTSDGVPVTIPYVQITKAQ 144
PRK14642 PRK14642
ribosome maturation factor RimP;
11-101 5.06e-04

ribosome maturation factor RimP;


Pssm-ID: 237775 [Multi-domain]  Cd Length: 197  Bit Score: 38.69  E-value: 5.06e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 979879476  11 LREIILPIVENSGAYLVDINLKGVGkrlIVEVLVD------TDDG-------ITVKKCEEISKQISDALDfydpIPGS-- 75
Cdd:PRK14642   3 LQQIVEQTVTGLGYDLVEIERSAGG---LLRVTIDlpwvppTEGApvgpeqfVTVEDCEKVTRQLQFALE----VDGVdy 75

                         90       100
                 ....*....|....*....|....*.
gi 979879476  76 YRLEVSSPGVGNPFKVKRQYFTNVGR 101
Cdd:PRK14642  76 KRLEVSSPGIDRPLRHEQDFERFAGE 101
YlxS_C cd01734
Bacillus subtilis YxlS-like, C-terminal domain; YxlS is a Bacillus subtilis gene of unknown ...
 84-155 5.24e-03

Bacillus subtilis YxlS-like, C-terminal domain; YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix and a five-stranded beta-sheet. This CD represents the C-terminal domain which has a fold similar to the Sm fold of proteins like Sm-D3.


Pssm-ID: 212481  Cd Length: 72  Bit Score: 33.96  E-value: 5.24e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 979879476  84 GVGNPFKVKRQYFTNVGRFLRVKyVDAPSNQVREVFGKLISAGEEAIELKVDDDFLI-LKYEQILEAKTEIVW 155
Cdd:cd01734    1 GLDRPLKKPEDFERFIGKEVKVK-LKEPIDGRKKFTGELLGVDDDTVTLEVDDGKEVeIPFDNIAKARLVPEF 72
PRK14644 PRK14644
hypothetical protein; Provisional
 38-135 7.67e-03

hypothetical protein; Provisional


Pssm-ID: 184779 [Multi-domain]  Cd Length: 136  Bit Score: 34.81  E-value: 7.67e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 979879476  38 LIVEVLVDTDDgitVKKCEEISKQISDALDFYDPIPGSYRLEVSSPGVGnpFKVKRQYFTN-VGRFLRVKYVDApSNQVR 116
Cdd:PRK14644  27 LFLEVILNSRD---LKDIEELTKEISDFIDNLSVEFDFDSLDISSPGFD--MDYETDELENhIGEIIDVSLNKE-VNKTD 100

                         90
                 ....*....|....*....
gi 979879476 117 EVFGKLISAGEEAIELKVD 135
Cdd:PRK14644 101 FITGELLENNPETITLKWN 119
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH