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Conserved domains on  [gi|504406727|ref|WP_014593829|]
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MULTISPECIES: YchJ family protein [Pantoea]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK01617 super family cl30716
hypothetical protein; Provisional
 1-151 1.55e-80

hypothetical protein; Provisional


The actual alignment was detected with superfamily member PRK01617:

Pssm-ID: 234966  Cd Length: 154  Bit Score: 234.54  E-value: 1.55e-80
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504406727   1 MSESCPCCSGKQYSLCCQPFVKGAEIPLSAEQLMRSRYCAYVKHDVNYLVSTWHPTRRDPALAGLLSESFAGTEWLSLNI 80
Cdd:PRK01617   1 MSQLCPCGSALEYSLCCQPYLSGEKVAPDPEHLMRSRYCAFVMKDADYLIKTWHPDCHAAAWRAEIIAGFANTEWLGLTV 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 504406727  81 TQREPGRDDDESFVTFFARYRENGAD--RAMYERSRFLREDQRWYYVDGVTPAIGRNDRCPCGADKKYKKCCG 151
Cdd:PRK01617  81 FEHTWGDADNEGFVEFVARFTEGGKTgrTAIIERSRFLKENGQWYYIDGTRPQFGRNDPCPCGSGKKFKKCCG 153
 
Name Accession Description Interval E-value
PRK01617 PRK01617
hypothetical protein; Provisional
 1-151 1.55e-80

hypothetical protein; Provisional


Pssm-ID: 234966  Cd Length: 154  Bit Score: 234.54  E-value: 1.55e-80
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504406727   1 MSESCPCCSGKQYSLCCQPFVKGAEIPLSAEQLMRSRYCAYVKHDVNYLVSTWHPTRRDPALAGLLSESFAGTEWLSLNI 80
Cdd:PRK01617   1 MSQLCPCGSALEYSLCCQPYLSGEKVAPDPEHLMRSRYCAFVMKDADYLIKTWHPDCHAAAWRAEIIAGFANTEWLGLTV 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 504406727  81 TQREPGRDDDESFVTFFARYRENGAD--RAMYERSRFLREDQRWYYVDGVTPAIGRNDRCPCGADKKYKKCCG 151
Cdd:PRK01617  81 FEHTWGDADNEGFVEFVARFTEGGKTgrTAIIERSRFLKENGQWYYIDGTRPQFGRNDPCPCGSGKKFKKCCG 153
YchJ COG3012
Uncharacterized conserved protein YchJ, contains N- and C-terminal SEC-C domains [Function ...
 3-148 6.23e-72

Uncharacterized conserved protein YchJ, contains N- and C-terminal SEC-C domains [Function unknown];


Pssm-ID: 442249  Cd Length: 144  Bit Score: 212.40  E-value: 6.23e-72
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504406727   3 ESCPCCSGKQYSLCCQPFVKGAEIPLSAEQLMRSRYCAYVKHDVNYLVSTWHPTRRDPALAGLLSESFAGTEWLSLNITQ 82
Cdd:COG3012    4 SPCPCGSGKPYADCCGPYHAGAAPAPTAEALMRSRYSAFVLGDADYLLATWHPSTRPALLRLEIEAWAPGTQWLGLEILA 83

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 504406727  83 REPGRDDDESFVTFFARYRENGADRAMYERSRFLREDQRWYYVDG-VTPAIGRndrcpcGADKKYKK 148
Cdd:COG3012   84 TEAGPDDDEGTVEFVARYREGGRAGRLHERSRFVREDGRWYYVDGeVAPKPGR------GSGKKFKK 144
UPF0225 pfam17775
UPF0225 domain; This entry represents an NTF2-like domain found in bacterial proteins.
 29-127 4.90e-47

UPF0225 domain; This entry represents an NTF2-like domain found in bacterial proteins.


Pssm-ID: 465498  Cd Length: 99  Bit Score: 147.71  E-value: 4.90e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504406727   29 SAEQLMRSRYCAYVKHDVNYLVSTWHPTRRDPALAGLLSESFAGTEWLSLNITQREPGRDDDESFVTFFARYRENGADRA 108
Cdd:pfam17775   1 TAEALMRSRYSAYVLGDIDYLLATTHPDTRPALDRAELEEWAQSTKWLGLEILSTEAGPDDDEGFVEFKARYREGGQLQT 80

                          90
                  ....*....|....*....
gi 504406727  109 MYERSRFLREDQRWYYVDG 127
Cdd:pfam17775  81 LHERSRFVREDGRWYYVDG 99
SWIM_PBPRA1643 TIGR04102
SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Members of this protein family have ...
 129-151 3.18e-08

SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Members of this protein family have a SWIM, or SEC-C, domain (see pfam02810), a 21-amino acid putative Zn-binding domain that is shared with SecA, plant MuDR transposases, etc. This small protein family of unknown function occurs primarily in marine bacteria.


Pssm-ID: 200353 [Multi-domain]  Cd Length: 108  Bit Score: 48.84  E-value: 3.18e-08
                          10        20
                  ....*....|....*....|...
gi 504406727  129 TPaiGRNDRCPCGADKKYKKCCG 151
Cdd:TIGR04102  88 TP--NRNDPCPCGSGKKYKKCCG 108
 
Name Accession Description Interval E-value
PRK01617 PRK01617
hypothetical protein; Provisional
 1-151 1.55e-80

hypothetical protein; Provisional


Pssm-ID: 234966  Cd Length: 154  Bit Score: 234.54  E-value: 1.55e-80
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504406727   1 MSESCPCCSGKQYSLCCQPFVKGAEIPLSAEQLMRSRYCAYVKHDVNYLVSTWHPTRRDPALAGLLSESFAGTEWLSLNI 80
Cdd:PRK01617   1 MSQLCPCGSALEYSLCCQPYLSGEKVAPDPEHLMRSRYCAFVMKDADYLIKTWHPDCHAAAWRAEIIAGFANTEWLGLTV 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 504406727  81 TQREPGRDDDESFVTFFARYRENGAD--RAMYERSRFLREDQRWYYVDGVTPAIGRNDRCPCGADKKYKKCCG 151
Cdd:PRK01617  81 FEHTWGDADNEGFVEFVARFTEGGKTgrTAIIERSRFLKENGQWYYIDGTRPQFGRNDPCPCGSGKKFKKCCG 153
YchJ COG3012
Uncharacterized conserved protein YchJ, contains N- and C-terminal SEC-C domains [Function ...
 3-148 6.23e-72

Uncharacterized conserved protein YchJ, contains N- and C-terminal SEC-C domains [Function unknown];


Pssm-ID: 442249  Cd Length: 144  Bit Score: 212.40  E-value: 6.23e-72
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504406727   3 ESCPCCSGKQYSLCCQPFVKGAEIPLSAEQLMRSRYCAYVKHDVNYLVSTWHPTRRDPALAGLLSESFAGTEWLSLNITQ 82
Cdd:COG3012    4 SPCPCGSGKPYADCCGPYHAGAAPAPTAEALMRSRYSAFVLGDADYLLATWHPSTRPALLRLEIEAWAPGTQWLGLEILA 83

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 504406727  83 REPGRDDDESFVTFFARYRENGADRAMYERSRFLREDQRWYYVDG-VTPAIGRndrcpcGADKKYKK 148
Cdd:COG3012   84 TEAGPDDDEGTVEFVARYREGGRAGRLHERSRFVREDGRWYYVDGeVAPKPGR------GSGKKFKK 144
UPF0225 pfam17775
UPF0225 domain; This entry represents an NTF2-like domain found in bacterial proteins.
 29-127 4.90e-47

UPF0225 domain; This entry represents an NTF2-like domain found in bacterial proteins.


Pssm-ID: 465498  Cd Length: 99  Bit Score: 147.71  E-value: 4.90e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504406727   29 SAEQLMRSRYCAYVKHDVNYLVSTWHPTRRDPALAGLLSESFAGTEWLSLNITQREPGRDDDESFVTFFARYRENGADRA 108
Cdd:pfam17775   1 TAEALMRSRYSAYVLGDIDYLLATTHPDTRPALDRAELEEWAQSTKWLGLEILSTEAGPDDDEGFVEFKARYREGGQLQT 80

                          90
                  ....*....|....*....
gi 504406727  109 MYERSRFLREDQRWYYVDG 127
Cdd:pfam17775  81 LHERSRFVREDGRWYYVDG 99
PRK02250 PRK02250
hypothetical protein; Provisional
 4-151 1.36e-43

hypothetical protein; Provisional


Pssm-ID: 179393 [Multi-domain]  Cd Length: 166  Bit Score: 141.17  E-value: 1.36e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504406727   4 SCPCCSGKQYSLCCQPFVKGAEIPLSAEQLMRSRYCAYVKHDVNYLVSTWHPTRRDPALAGLLSESFAgTEWLSLNITQR 83
Cdd:PRK02250   3 SCPCGSTQTYSQCCEPIHLNHASAQTPEQLMRSRYSAHVLGLVDYVVETYHPSCNAEEQREGIAESIH-SDWLKLEVIKT 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504406727  84 EPGRDDDESFVTFFARYRENGADRAMYERSRFLREDQRWYYVDGVTPA-----------------IGRNDRCPCGADKKY 146
Cdd:PRK02250  82 EAGSTPNEGFVEFKAYFDEEGKRYCLEERSRFLKENGLWYYIDGTFPEeepeqdprlnqsvsslkQGRNDPCICGSGKKF 161


                 ....*
gi 504406727 147 KKCCG 151
Cdd:PRK02250 162 KKCCG 166
PRK01752 PRK01752
YchJ family protein;
1-151 5.34e-37

YchJ family protein;


Pssm-ID: 179332  Cd Length: 156  Bit Score: 124.13  E-value: 5.34e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504406727   1 MSESCPCCSGKQYSLCCQPFVKGAEIPLSAEQLMRSRYCAYVKHDVNYLVSTWHPTRRDPALAGLLSESFAGTEWLSLNI 80
Cdd:PRK01752   4 LLEACPCQSGKHYADCCGPFHLRQAFPETAEQLMRSRYAAYVLKNIDYIVETTVPSQQTLLDPAALQTWAENTTWLGLEI 83

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 504406727  81 TQREpGRDDDESFVTFFARYRENGADRAMYERSRFLREDQRWYYVDGVTPAIGRNDRCPCGADKKYKKCCG 151
Cdd:PRK01752  84 LAHE-SLTKIHSAVEFKAIFQGEEGEQAHHERSLFVKIDNRWYFVDPTVPLPTMKQPCVCGSGKKFKHCCG 153
PRK00183 PRK00183
hypothetical protein; Provisional
 4-151 1.57e-35

hypothetical protein; Provisional


Pssm-ID: 166842  Cd Length: 157  Bit Score: 120.67  E-value: 1.57e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504406727   4 SCPCCSGKQYSLCCQPFVKGAEIPlSAEQLMRSRYCAYVKHDVNYLVSTWHPTRRdpalAGLLSESF----AGTEWLSLN 79
Cdd:PRK00183   5 ICPCGSGDLLDACCGRYHAGHPAP-CAEALMRSRYSAYVLGLVDYLVATTLPAQQ----AGLDRAAIaawsAQSTWLGLE 79

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 504406727  80 ITQREP-GRDDDESFVTFFARYRENGADRAMYERSRFLREDQRWYYVDGVTP-AIGRNDRCPCGADKKYKKCCG 151
Cdd:PRK00183  80 VESSEVlGGQPEHAFVTFTARWHDADGEHSHRERSAFVQHQGRWYFIDPTVPlKAGRNDPCPCGSGQKFKKCCA 153
PRK01842 PRK01842
hypothetical protein; Provisional
 3-127 7.81e-30

hypothetical protein; Provisional


Pssm-ID: 234985  Cd Length: 149  Bit Score: 105.66  E-value: 7.81e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504406727   3 ESCPCCSG----------KQYSLCCQPFVKGAEIPLSAEQLMRSRYCAYVKHDVNYLVSTWHPTR------RDPALAGll 66
Cdd:PRK01842  12 DACPCGGAapgaaanaraPRYAACCGRFIDGGAAAPTALELMRSRYSAYVLGATDYLRATWDPSTcpadldADPAAAD-- 89

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 504406727  67 sesfaGTEWLSLNItQREPGRDDDESFVTFFARYRENGADRAMYERSRFLR-EDQRWYYVDG 127
Cdd:PRK01842  90 -----APRWLGLAI-KRHAQLDATHAEVEFVARYKVGGRAHRLHETSRFVRdEQGRWRYVDG 145
PRK04233 PRK04233
hypothetical protein; Provisional
 2-128 5.40e-29

hypothetical protein; Provisional


Pssm-ID: 235261  Cd Length: 129  Bit Score: 103.08  E-value: 5.40e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504406727   2 SESCPCCSGKQYSLCCQPFVKGAEIPlSAEQLMRSRYCAYVKHDVNYLVSTWHPTRRDPALAglLSESfAGTEWLSLNIt 81
Cdd:PRK04233   7 TDPCPCGRPADYARCCGPYHAGAAAP-DAETLMRARYSAYVRRDADYLLASWHPSTRPAELS--LDEG-GRTTWLGLTV- 81

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 504406727  82 QREPGRDDDESFVTFFARYRENGADRA-MYERSRFLREDQRWYYVDGV 128
Cdd:PRK04233  82 QRTLETGADTAEVVFLARYRIGGGSAVrMTEHSRFVREDGRWYYLDAR 129
PRK05590 PRK05590
hypothetical protein; Provisional
 132-151 6.84e-10

hypothetical protein; Provisional


Pssm-ID: 235521  Cd Length: 166  Bit Score: 54.21  E-value: 6.84e-10
                         10        20
                 ....*....|....*....|
gi 504406727 132 IGRNDRCPCGADKKYKKCCG 151
Cdd:PRK05590 145 VGRNDPCPCGSGKKYKKCCG 164
SWIM_PBPRA1643 TIGR04102
SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Members of this protein family have ...
 129-151 3.18e-08

SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Members of this protein family have a SWIM, or SEC-C, domain (see pfam02810), a 21-amino acid putative Zn-binding domain that is shared with SecA, plant MuDR transposases, etc. This small protein family of unknown function occurs primarily in marine bacteria.


Pssm-ID: 200353 [Multi-domain]  Cd Length: 108  Bit Score: 48.84  E-value: 3.18e-08
                          10        20
                  ....*....|....*....|...
gi 504406727  129 TPaiGRNDRCPCGADKKYKKCCG 151
Cdd:TIGR04102  88 TP--NRNDPCPCGSGKKYKKCCG 108
SecA COG0653
Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking, ...
 132-151 3.98e-08

Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 440418 [Multi-domain]  Cd Length: 876  Bit Score: 51.19  E-value: 3.98e-08
                         10        20
                 ....*....|....*....|
gi 504406727 132 IGRNDRCPCGADKKYKKCCG 151
Cdd:COG0653  854 VGRNDPCPCGSGKKYKHCHG 873
YecA COG3318
Uncharacterized conserved protein YecA, UPF0149 family, contains C-terminal Zn-binding SEC-C ...
 129-151 3.04e-07

Uncharacterized conserved protein YecA, UPF0149 family, contains C-terminal Zn-binding SEC-C motif [Function unknown];


Pssm-ID: 442547 [Multi-domain]  Cd Length: 45  Bit Score: 44.51  E-value: 3.04e-07
                         10        20
                 ....*....|....*....|...
gi 504406727 129 TPAIGRNDRCPCGADKKYKKCCG 151
Cdd:COG3318   21 EPKVGRNDPCPCGSGKKYKKCCG 43
PRK10396 PRK10396
hypothetical protein; Provisional
 131-150 9.62e-06

hypothetical protein; Provisional


Pssm-ID: 236680 [Multi-domain]  Cd Length: 221  Bit Score: 43.58  E-value: 9.62e-06
                         10        20
                 ....*....|....*....|
gi 504406727 131 AIGRNDRCPCGADKKYKKCC 150
Cdd:PRK10396 200 KVGRNDPCPCGSGKKFKQCC 219
SEC-C pfam02810
SEC-C motif; The SEC-C motif found in the C-terminus of the SecA protein, in the middle of ...
 134-151 1.31e-05

SEC-C motif; The SEC-C motif found in the C-terminus of the SecA protein, in the middle of some SWI2 ATPases and also solo in several proteins. The motif is predicted to chelate zinc with the CXC and C[HC] pairs that constitute the most conserved feature of the motif. It is predicted to be a potential nucleic acid binding domain.


Pssm-ID: 460704 [Multi-domain]  Cd Length: 19  Bit Score: 39.77  E-value: 1.31e-05
                          10
                  ....*....|....*...
gi 504406727  134 RNDRCPCGADKKYKKCCG 151
Cdd:pfam02810   1 RNDPCPCGSGKKYKKCCG 18
PRK12904 PRK12904
preprotein translocase subunit SecA; Reviewed
 136-151 1.88e-04

preprotein translocase subunit SecA; Reviewed


Pssm-ID: 237259 [Multi-domain]  Cd Length: 830  Bit Score: 40.45  E-value: 1.88e-04
                         10
                 ....*....|....*.
gi 504406727 136 DRCPCGADKKYKKCCG 151
Cdd:PRK12904 812 DPCPCGSGKKYKHCHG 827
secA PRK12901
preprotein translocase subunit SecA; Reviewed
 130-151 4.92e-03

preprotein translocase subunit SecA; Reviewed


Pssm-ID: 237256 [Multi-domain]  Cd Length: 1112  Bit Score: 36.15  E-value: 4.92e-03
                          10        20
                  ....*....|....*....|....*..
gi 504406727  130 PAIGRNDRCPC-----GADKKYKKCCG 151
Cdd:PRK12901 1073 KKIGRNDPVPCqnvdgGSGKKYKFKHA 1099
SEC-C pfam02810
SEC-C motif; The SEC-C motif found in the C-terminus of the SecA protein, in the middle of ...
 1-19 8.20e-03

SEC-C motif; The SEC-C motif found in the C-terminus of the SecA protein, in the middle of some SWI2 ATPases and also solo in several proteins. The motif is predicted to chelate zinc with the CXC and C[HC] pairs that constitute the most conserved feature of the motif. It is predicted to be a potential nucleic acid binding domain.


Pssm-ID: 460704 [Multi-domain]  Cd Length: 19  Bit Score: 32.07  E-value: 8.20e-03
                          10
                  ....*....|....*....
gi 504406727    1 MSESCPCCSGKQYSLCCQP 19
Cdd:pfam02810   1 RNDPCPCGSGKKYKKCCGP 19
 
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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