Citrus Sinensis ID: 040777

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380
MSSSLIPLSLNPPLLSFHLHRTTCSPPLLISFSRASKFPIRATSSSSDHEEIRWLREEQRWLREEQRWFREEQRWIRERESLLREISELKLQIKALENRNLSDGASVSVSDTISNIAGLLQMLKEKNMIAERATVAEKEKFEEEEQQKEVVKVLEGEKKKRKALRVGSEGEDVKAMQEELLKLGFFSGEEDMEYSSFSTGTERAVKTWQAAMGVTEDGIMTSELLESLYMEHRVEDNDTNMNADQKGIIQTIPPKEGTNGAPIASITEISEIKQTVVKEGATEVDLSERRVFLLGENRWEEPSRLAGRGNQDAGSKAKKATTQCLTCRGEGRLMCLECDGTGEPNIEPQFIEWVDEGMKCPYCEGLGYTICDVCEGKAVV
cccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHccccccccccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEccccccccccccccccccccccccccccccEEEccccccEEEEEccccccccccccccccccccccccccccccEEEcccccccccc
ccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccHHHHHHHHcccccccccccEEEEEEEEEEEEEEEEEEEcccccccccEEEcccccHHHHHHHHHHHHccccccccccEEcccccHHHHHHHHHHHHccccccccccHHHHHHHccccccEEccccccccccccEEEccccccccccccccccccccccccEEcccccEEEccccEEEEEcccccccccHcccccccccccccccccEEEEEEccccEEEEEEccccccccccHHHHHHccccccccccccccEEEEEcccccEEc
msssliplslnppllsfhlhrttcsppllisfsraskfpiratssssdhEEIRWLREEQRWLREEQRWFREEQRWIRERESLLREISELKLQIKALEnrnlsdgasvsVSDTISNIAGLLQMLKEKNMIAERATVAEKEKFEEEEQQKEVVKVLEGEKKKRKALrvgsegedVKAMQEELLKLGffsgeedmeyssfstGTERAVKTWQAAMGVTEDGIMTSELLESLYMEHrvedndtnmnadqkgiiqtippkegtngapiasiTEISEIKQTVVKegatevdlSERRVFLLgenrweepsrlagrgnqdagskakkattqcltcrgegrlmclecdgtgepniepqFIEWvdegmkcpyceglgyticdvcegkavv
msssliplslnpPLLSFHLHRTTCSPPLLISFSRASKFPIratssssdheeirWLREEQRWLREEQRWFREEQRWIRERESLLREISELKLQIKALenrnlsdgasvsvSDTISNIAGLLQMLKEKNMIAERATVAekekfeeeeqqkevvkvlegekkkrkalrvgsegedvkaMQEELLKLGFFSGEEDMEYSSFSTGTERAVKTWQAAMGVTEDGIMTSELLESLYMEHRVEDNDTNMNADQKGIIqtippkegtngaPIASITEISEIKqtvvkegatevdlserrvfllgenrweepsrlagrgnqdagskakkattqcltcrgeGRLMCLECDGTGEPNIEPQFIEWVDEGMKCPYCEGLGYTICDVCEGKAVV
MsssliplslnppllsFHLHRTTCSPPLLISFSRASKFPIRATSSSSDHeeirwlreeqrwlreeqrwfreeqrwireresllreiselKLQIKALENRNLSDGASVSVSDTISNIAGLLQMLKEKNMIAERATVAekekfeeeeqqkevvkvlegekkkrkALRVGSEGEDVKAMQEELLKLGFFSGEEDMEYSSFSTGTERAVKTWQAAMGVTEDGIMTSELLESLYMEHRVEDNDTNMNADQKGIIQTIPPKEGTNGAPIASITEISEIKQTVVKEGATEVDLSERRVFLLGENRWEEPSRLAGRGNQDAGSKAKKATTQCLTCRGEGRLMCLECDGTGEPNIEPQFIEWVDEGMKCPYCEGLGYTICDVCEGKAVV
***********PPLLSFHLHRTTCSPPLLISFSR*****************IRWLREEQRWLREEQRWFREEQRWIRERESLLREISELKLQIKALE**********SVSDTISNIAGLLQMLK********************************************************LKLGFF***************ERAVKTWQAAMGVTEDGIMTSELLESLYM*********************************ASITEISEIKQTVVKEGATEVDLSERRVFLLGEN************************TQCLTCRGEGRLMCLECDGTGEPNIEPQFIEWVDEGMKCPYCEGLGYTICDVCEG****
****LIP*SLNPPLLSFHLHRTTCSP************************************************************SELKLQIKALENRNLSDGASVSVSDTISNI**********************************************ALRVGSEGEDVKAMQEELLKLGFFSGEEDMEYSSFSTGTERAVKTWQAAMGVTEDGIMTSELLESLY*****************************************************EVDLSERRVFLLGENRW***************************CRGEGRLMCLECDGTGEPNIEPQFIEWVDEGMKCPYCEGLGYTICDVCEGKAV*
MSSSLIPLSLNPPLLSFHLHRTTCSPPLLISFSRASKFP************IRWLREEQRWLREEQRWFREEQRWIRERESLLREISELKLQIKALENRNLSDGASVSVSDTISNIAGLLQMLKEKNMIAERATVAE************VVKVLEG****************VKAMQEELLKLGFFSGEED**********ERAVKTWQAAMGVTEDGIMTSELLESLYMEHRVEDNDTNMNADQKGIIQTIPPKEGTNGAPIASITEISEIKQTVVKEGATEVDLSERRVFLLGENRWEEP********************QCLTCRGEGRLMCLECDGTGEPNIEPQFIEWVDEGMKCPYCEGLGYTICDVCEGKAVV
*****IPLSLNPPLLSFHLHRTTCSPPLLISFSRAS************HEEIRWLREEQRWLREEQRWFREEQRWIRERESLLREISELKLQIKALEN*******SVSVSDTISNIAGLLQMLKEKNMIAERATVAEKEKFEEEEQQKEVVKVLEGEKKKRKALRVGSEGEDVKAMQEELLKLGFFSGEEDMEYSSFSTGTERAVKTWQAAMGVTEDGIMTSELLESLYMEHRVEDNDT********IIQTIP***GTNGAPIASITEISEIKQTVVKEGATEVDLSERRVFLLGENRWEEPSRLA************KATTQCLTCRGEGRLMCLECDGTGEPNIEPQFIEWVDEGMKCPYCEGLGYTICDVCEGKAVV
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
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MSSSLIPLSLNPPLLSFHLHRTTCSPPLLISFSRASKFPIRATSSSSDHEEIRWLREEQRWLREEQRWFRExxxxxxxxxxxxxxxxxxxxxxxxxxxxNLSDGASVSVSDTISNIAGLLQMLKEKNMIAERATVAEKEKFEEEEQQKEVVKVLEGEKKKRKALRVGSEGEDVKAMQEELLKLGFFSGEEDMEYSSFSTGTERAVKTWQAAMGVTEDGIMTSELLESLYMEHRVEDNDTNMNADQKGIIQTIPPKEGTNGAPIASITEISEIKQTVVKEGATEVDLSERRVFLLGENRWEEPSRLAGRGNQDAGSKAKKATTQCLTCRGEGRLMCLECDGTGEPNIEPQFIEWVDEGMKCPYCEGLGYTICDVCEGKAVV
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query380
225433438372 PREDICTED: uncharacterized protein LOC10 0.963 0.983 0.608 1e-118
255554154386 conserved hypothetical protein [Ricinus 0.973 0.958 0.581 1e-116
30682566387 protein plastid transcriptionally active 0.957 0.940 0.564 1e-112
224053424395 predicted protein [Populus trichocarpa] 0.963 0.926 0.587 1e-111
356574718380 PREDICTED: uncharacterized protein LOC10 0.973 0.973 0.574 1e-109
4455296432 hypothetical protein [Arabidopsis thalia 0.978 0.861 0.527 1e-109
297804958394 predicted protein [Arabidopsis lyrata su 0.947 0.913 0.551 1e-108
449432436392 PREDICTED: uncharacterized protein LOC10 0.973 0.943 0.562 1e-106
356533836385 PREDICTED: uncharacterized protein LOC10 0.971 0.958 0.540 1e-105
449487526392 PREDICTED: uncharacterized LOC101215886 0.973 0.943 0.559 1e-105
>gi|225433438|ref|XP_002285669.1| PREDICTED: uncharacterized protein LOC100259626 [Vitis vinifera] Back     alignment and taxonomy information
 Score =  432 bits (1110), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 235/386 (60%), Positives = 286/386 (74%), Gaps = 20/386 (5%)

Query: 1   MSSSLIPLSLNPPLLSFHLHRTTCSPPLLISFSRASKFPIRATSSSSD--HEEIRWLREE 58
           M+SSL PL  NPPL   + HR     P  ++ +   KF I A+SSSS+   EE RWLREE
Sbjct: 1   MTSSL-PLPSNPPLTPLN-HRPRTRLPFTLNLTPTPKFHISASSSSSNWEREEARWLREE 58

Query: 59  QRWLREEQRWFREEQRWIRERESLLREISELKLQIKALENRNLSDGASVSVSDTISNIAG 118
           QRWLREEQRW REE RW  ER+SLLREISELK +I+ LE+++       SVS +I +IA 
Sbjct: 59  QRWLREEQRWLREESRWTTERQSLLREISELKFRIQQLEHQS-------SVSASIPDIAA 111

Query: 119 LLQMLK---EKNMIAERATVAEKEKFEEEEQQKEVVKVLEGEKKKRKALRVGSEGEDVKA 175
           LLQ+ K   E   IAE  + A     E +E ++E V    G++KKRK LRVGSEGE+V+A
Sbjct: 112 LLQLPKDSAEVARIAESGSSALPMVLESKEVKEEKV----GDQKKRKTLRVGSEGEEVRA 167

Query: 176 MQEELLKLGFFSGEEDMEYSSFSTGTERAVKTWQAAMGVTEDGIMTSELLESLYMEHRVE 235
           MQE L  LGF+SGEED+E+SSFS+GTERAVKTWQA++G  E+GIMT+ELLE L+ME  +E
Sbjct: 168 MQEALQNLGFYSGEEDVEFSSFSSGTERAVKTWQASLGAPENGIMTAELLERLFMEQHIE 227

Query: 236 DNDTNMNADQKGIIQTIPPKEGTNGAPIASITEISEIKQTVVKE-GATEVDLSERRVFLL 294
                 N D K    + PPKEG NGA +AS+TEISEI+Q V+KE G TEV++S++RVFLL
Sbjct: 228 AAGLKRNIDPKENDAS-PPKEGVNGALVASVTEISEIQQKVLKEEGFTEVEVSQQRVFLL 286

Query: 295 GENRWEEPSRLAGRGNQDAGSKAKKATTQCLTCRGEGRLMCLECDGTGEPNIEPQFIEWV 354
           GENRWEEPSRL GR  +  G+K K ATT+CLTCRGEGRLMC ECDGTGEPNIEPQF++WV
Sbjct: 287 GENRWEEPSRLVGRDKKGGGNKPKDATTKCLTCRGEGRLMCTECDGTGEPNIEPQFLDWV 346

Query: 355 DEGMKCPYCEGLGYTICDVCEGKAVV 380
           DEG+KCPYCEGLG+TICD CEGK  +
Sbjct: 347 DEGVKCPYCEGLGHTICDACEGKTTI 372

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255554154|ref|XP_002518117.1| conserved hypothetical protein [Ricinus communis] gi|223542713|gb|EEF44250.1| conserved hypothetical protein [Ricinus communis] Back     alignment and taxonomy information
>gi|30682566|ref|NP_193103.2| protein plastid transcriptionally active 5 [Arabidopsis thaliana] gi|119360137|gb|ABL66797.1| At4g13670 [Arabidopsis thaliana] gi|332657911|gb|AEE83311.1| protein plastid transcriptionally active 5 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|224053424|ref|XP_002297812.1| predicted protein [Populus trichocarpa] gi|222845070|gb|EEE82617.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356574718|ref|XP_003555492.1| PREDICTED: uncharacterized protein LOC100808436 [Glycine max] Back     alignment and taxonomy information
>gi|4455296|emb|CAB36831.1| hypothetical protein [Arabidopsis thaliana] gi|7268071|emb|CAB78409.1| hypothetical protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|297804958|ref|XP_002870363.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297316199|gb|EFH46622.1| predicted protein [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|449432436|ref|XP_004134005.1| PREDICTED: uncharacterized protein LOC101215886 [Cucumis sativus] Back     alignment and taxonomy information
>gi|356533836|ref|XP_003535464.1| PREDICTED: uncharacterized protein LOC100810184 [Glycine max] Back     alignment and taxonomy information
>gi|449487526|ref|XP_004157670.1| PREDICTED: uncharacterized LOC101215886 [Cucumis sativus] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query380
TAIR|locus:2119475387 PTAC5 "plastid transcriptional 0.731 0.718 0.524 3.5e-75
UNIPROTKB|G4N8Z459 MGG_17224 "Uncharacterized pro 0.136 0.881 0.4 9.1e-05
TAIR|locus:2044812186 EDA3 "embryo sac development a 0.173 0.354 0.358 0.0002
TAIR|locus:2119475 PTAC5 "plastid transcriptionally active 5" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 758 (271.9 bits), Expect = 3.5e-75, P = 3.5e-75
 Identities = 160/305 (52%), Positives = 204/305 (66%)

Query:    90 KLQIKALENRNLSDGASVSVSDTISNIAGLLQMLKEKNMIAERATVAXXXXXXXXXXXXX 149
             +L+I++LE+RN   G S+   DTISNIA LLQ+LKEKN I+E    A             
Sbjct:    90 QLRIQSLESRNSQLGNSIP--DTISNIAALLQVLKEKNRISESGLSATPMVLESTREQIV 147

Query:   150 XXXXXXXXXXXXXA----------------LRVGSEGEDVKAMQEELLKLGFFSGEEDME 193
                                           L+VGSEG+DV+A+QE LLKLGF+SGEEDME
Sbjct:   148 EEVEEEEKRVIIAEEKVRVSEPVKKIKRRILKVGSEGDDVQALQEALLKLGFYSGEEDME 207

Query:   194 YSSFSTGTERAVKTWQAAMGVTEDGIMTSELLESLYMEHRVEDNDTNMNADQKGIIQTIP 253
             +SSFS+GT  AVKTWQA++GV EDG+MT+ELL+ L+M+   ED +T+     K    T+ 
Sbjct:   208 FSSFSSGTASAVKTWQASLGVREDGVMTAELLQRLFMD---EDVETD-----KDEASTMK 259

Query:   254 PKEGTNGAPIASITEISEIKQTVVKEGAT-EVDLSERRVFLLGENRWEEPSRLAGRGNQD 312
              +E  NGA   S+T++ E KQ++VK+ +  EVD+++ RVFLLGENRWE+PSRL GR    
Sbjct:   260 KEEAGNGAVFTSVTQVPEKKQSIVKDQSDREVDVTQNRVFLLGENRWEDPSRLIGRNKPV 319

Query:   313 AGSKAKKATTQCLTCRGEGRLMCLECDGTGEPNIEPQFIEWVDEGMKCPYCEGLGYTICD 372
               S++    T+C+TCRGEGRLMCLECDGTGEPNIEPQF+EWV E  KCPYCEGLGYT+CD
Sbjct:   320 DRSESTNTKTRCITCRGEGRLMCLECDGTGEPNIEPQFMEWVGEDTKCPYCEGLGYTVCD 379

Query:   373 VCEGK 377
             VC+GK
Sbjct:   380 VCDGK 384
GO:0008152 "metabolic process" evidence=IEA
GO:0009507 "chloroplast" evidence=ISM;IDA
GO:0031072 "heat shock protein binding" evidence=IEA
GO:0051082 "unfolded protein binding" evidence=IEA
GO:0009941 "chloroplast envelope" evidence=IDA
GO:0009535 "chloroplast thylakoid membrane" evidence=IDA
GO:0009295 "nucleoid" evidence=IDA
GO:0009508 "plastid chromosome" evidence=IDA
GO:0009534 "chloroplast thylakoid" evidence=IDA
UNIPROTKB|G4N8Z4 MGG_17224 "Uncharacterized protein" [Magnaporthe oryzae 70-15 (taxid:242507)] Back     alignment and assigned GO terms
TAIR|locus:2044812 EDA3 "embryo sac development arrest 3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
PTAC5
PTAC5 (PLASTID TRANSCRIPTIONALLY ACTIVE5); heat shock protein binding / unfolded protein binding; PLASTID TRANSCRIPTIONALLY ACTIVE5 (PTAC5); FUNCTIONS IN- unfolded protein binding, heat shock protein binding; INVOLVED IN- protein folding, metabolic process; LOCATED IN- plastid chromosome, chloroplast thylakoid membrane, chloroplast, nucleoid, chloroplast envelope; EXPRESSED IN- 21 plant structures; EXPRESSED DURING- 13 growth stages; CONTAINS InterPro DOMAIN/s- Peptidoglycan binding-like (InterPro-IPR002477), Heat shock protein DnaJ, cysteine-rich region (InterPro-IPR001305); Has 536 B [...] (387 aa)
(Arabidopsis thaliana)
Predicted Functional Partners:
PTAC17
PTAC17 (PLASTID TRANSCRIPTIONALLY ACTIVE17); PLASTID TRANSCRIPTIONALLY ACTIVE17 (PTAC17); LOCAT [...] (444 aa)
   •  • 0.794
PDE312
RNA binding; PIGMENT DEFECTIVE 312 (PDE312); FUNCTIONS IN- RNA binding; LOCATED IN- plastid chr [...] (697 aa)
      • 0.790
AT1G51110
plastid-lipid associated protein PAP / fibrillin family protein; plastid-lipid associated prote [...] (409 aa)
   •  • 0.778
PTAC4
PTAC4 (PLASTID TRANSCRIPTIONALLY ACTIVE4); PLASTID TRANSCRIPTIONALLY ACTIVE4 (PTAC4); INVOLVED [...] (330 aa)
   •  • 0.761
DEG5
DEG5 (DEGP PROTEASE 5); catalytic/ serine-type endopeptidase/ serine-type peptidase; Encodes DE [...] (323 aa)
   •    0.752
AT1G55480
binding / protein binding; binding / protein binding; FUNCTIONS IN- protein binding, binding; L [...] (335 aa)
   •  • 0.750
AT1G14345
oxidoreductase; oxidoreductase; FUNCTIONS IN- oxidoreductase activity; INVOLVED IN- oxidation r [...] (196 aa)
   •  • 0.742
PTAC16
PTAC16 (PLASTID TRANSCRIPTIONALLY ACTIVE 16); binding / catalytic; PLASTID TRANSCRIPTIONALLY AC [...] (510 aa)
   •  • 0.739
PTAC18
PTAC18 (PLASTID TRANSCRIPTIONALLY ACTIVE 18); PLASTID TRANSCRIPTIONALLY ACTIVE 18 (PTAC18); FUN [...] (139 aa)
      • 0.718
PTAC13
PTAC13 (PLASTID TRANSCRIPTIONALLY ACTIVE13); transcription elongation regulator; PLASTID TRANSC [...] (333 aa)
   •  • 0.705

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query380
pfam0147157 pfam01471, PG_binding_1, Putative peptidoglycan bi 6e-12
COG3409185 COG3409, COG3409, Putative peptidoglycan-binding d 2e-06
TIGR02869200 TIGR02869, spore_SleB, spore cortex-lytic enzyme 6e-06
pfam0068465 pfam00684, DnaJ_CXXCXGXG, DnaJ central domain 9e-05
PLN03165111 PLN03165, PLN03165, chaperone protein dnaJ-related 3e-04
cd1071965 cd10719, DnaJ_zf, Zinc finger domain of DnaJ and H 6e-04
>gnl|CDD|216518 pfam01471, PG_binding_1, Putative peptidoglycan binding domain Back     alignment and domain information 
 Score = 59.9 bits (146), Expect = 6e-12
 Identities = 24/60 (40%), Positives = 32/60 (53%), Gaps = 3/60 (5%)

Query: 169 EGEDVKAMQEELLKLGFFSGEEDMEYSSFSTGTERAVKTWQAAMGVTEDGIMTSELLESL 228
            GEDVK +Q  L +LG++ G  D     F   TE AVK +Q   G+   GI+  E L +L
Sbjct: 1   SGEDVKELQRYLKRLGYYPGPVD---GVFGPSTEAAVKAFQRFFGLPVTGIVDPETLAAL 57

This domain is composed of three alpha helices. This domain is found at the N or C terminus of a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function. This family is found N-terminal to the catalytic domain of matrixins. The domain is found to bind peptidoglycan experimentally. Length = 57
>gnl|CDD|225943 COG3409, COG3409, Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane] Back     alignment and domain information
>gnl|CDD|213747 TIGR02869, spore_SleB, spore cortex-lytic enzyme Back     alignment and domain information
>gnl|CDD|216058 pfam00684, DnaJ_CXXCXGXG, DnaJ central domain Back     alignment and domain information
>gnl|CDD|178709 PLN03165, PLN03165, chaperone protein dnaJ-related; Provisional Back     alignment and domain information
>gnl|CDD|199908 cd10719, DnaJ_zf, Zinc finger domain of DnaJ and HSP40 Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 380
PF0147157 PG_binding_1: Putative peptidoglycan binding domai 99.54
TIGR02869201 spore_SleB spore cortex-lytic enzyme. Members of t 99.38
COG0484 371 DnaJ DnaJ-class molecular chaperone with C-termina 99.17
PRK14282 369 chaperone protein DnaJ; Provisional 99.09
TIGR02349 354 DnaJ_bact chaperone protein DnaJ. This model repre 99.04
PRK14276 380 chaperone protein DnaJ; Provisional 99.03
PF0068466 DnaJ_CXXCXGXG: DnaJ central domain; InterPro: IPR0 99.03
PRK14296 372 chaperone protein DnaJ; Provisional 99.01
PRK14277 386 chaperone protein DnaJ; Provisional 99.01
PRK14278 378 chaperone protein DnaJ; Provisional 99.0
PRK14280 376 chaperone protein DnaJ; Provisional 99.0
PRK14298 377 chaperone protein DnaJ; Provisional 98.98
PRK14297 380 chaperone protein DnaJ; Provisional 98.94
PRK14287 371 chaperone protein DnaJ; Provisional 98.93
PRK14293 374 chaperone protein DnaJ; Provisional 98.91
PRK14289 386 chaperone protein DnaJ; Provisional 98.9
PRK14281 397 chaperone protein DnaJ; Provisional 98.9
PTZ00037 421 DnaJ_C chaperone protein; Provisional 98.89
PRK14279 392 chaperone protein DnaJ; Provisional 98.88
PRK14300 372 chaperone protein DnaJ; Provisional 98.87
PRK14286 372 chaperone protein DnaJ; Provisional 98.87
COG3409185 Putative peptidoglycan-binding domain-containing p 98.86
PLN03165111 chaperone protein dnaJ-related; Provisional 98.86
PRK14284 391 chaperone protein DnaJ; Provisional 98.86
PRK14285 365 chaperone protein DnaJ; Provisional 98.85
PRK14301 373 chaperone protein DnaJ; Provisional 98.84
PRK14294 366 chaperone protein DnaJ; Provisional 98.82
PRK14283 378 chaperone protein DnaJ; Provisional 98.82
PRK10767 371 chaperone protein DnaJ; Provisional 98.81
KOG0712 337 consensus Molecular chaperone (DnaJ superfamily) [ 98.8
PRK14288 369 chaperone protein DnaJ; Provisional 98.79
PRK14291 382 chaperone protein DnaJ; Provisional 98.78
PRK14295 389 chaperone protein DnaJ; Provisional 98.77
PRK10594 608 murein L,D-transpeptidase; Provisional 98.76
PRK14290 365 chaperone protein DnaJ; Provisional 98.73
PRK14292 371 chaperone protein DnaJ; Provisional 98.69
COG2989 561 Uncharacterized protein conserved in bacteria [Fun 98.52
COG3409185 Putative peptidoglycan-binding domain-containing p 98.29
PF0882374 PG_binding_2: Putative peptidoglycan binding domai 98.11
COG1107 715 Archaea-specific RecJ-like exonuclease, contains D 98.02
KOG2813 406 consensus Predicted molecular chaperone, contains 97.95
KOG2813 406 consensus Predicted molecular chaperone, contains 97.83
COG1107 715 Archaea-specific RecJ-like exonuclease, contains D 97.78
PLN03165111 chaperone protein dnaJ-related; Provisional 97.72
COG3023257 ampD N-acetyl-anhydromuramyl-L-alanine amidase [Ce 97.26
COG0484 371 DnaJ DnaJ-class molecular chaperone with C-termina 97.12
PF0068466 DnaJ_CXXCXGXG: DnaJ central domain; InterPro: IPR0 97.1
KOG2824281 consensus Glutaredoxin-related protein [Posttransl 96.84
PRK14279 392 chaperone protein DnaJ; Provisional 96.62
TIGR02349 354 DnaJ_bact chaperone protein DnaJ. This model repre 96.51
PRK14301 373 chaperone protein DnaJ; Provisional 96.36
PRK14286 372 chaperone protein DnaJ; Provisional 96.28
PRK14300 372 chaperone protein DnaJ; Provisional 96.28
PRK14284 391 chaperone protein DnaJ; Provisional 96.22
PRK14282 369 chaperone protein DnaJ; Provisional 96.22
PRK14276 380 chaperone protein DnaJ; Provisional 96.16
PRK14287 371 chaperone protein DnaJ; Provisional 96.15
PRK14296 372 chaperone protein DnaJ; Provisional 96.15
PRK10767 371 chaperone protein DnaJ; Provisional 96.14
PRK14278 378 chaperone protein DnaJ; Provisional 96.11
PRK14297 380 chaperone protein DnaJ; Provisional 96.08
PRK14285 365 chaperone protein DnaJ; Provisional 96.08
PRK14298 377 chaperone protein DnaJ; Provisional 96.07
PRK14295 389 chaperone protein DnaJ; Provisional 96.04
PRK14294 366 chaperone protein DnaJ; Provisional 96.0
PRK14280 376 chaperone protein DnaJ; Provisional 95.98
PRK14291 382 chaperone protein DnaJ; Provisional 95.95
PRK14277 386 chaperone protein DnaJ; Provisional 95.94
cd03031147 GRX_GRX_like Glutaredoxin (GRX) family, GRX-like d 95.86
PRK14288 369 chaperone protein DnaJ; Provisional 95.78
PRK14289 386 chaperone protein DnaJ; Provisional 95.68
PRK14283 378 chaperone protein DnaJ; Provisional 95.52
PF0937472 PG_binding_3: Predicted Peptidoglycan domain; Inte 95.45
PRK14281 397 chaperone protein DnaJ; Provisional 95.42
PTZ00037 421 DnaJ_C chaperone protein; Provisional 95.34
PRK14290 365 chaperone protein DnaJ; Provisional 95.31
TIGR02642186 phage_xxxx uncharacterized phage protein. This unc 95.2
PRK14293 374 chaperone protein DnaJ; Provisional 94.79
PRK14292 371 chaperone protein DnaJ; Provisional 93.99
TIGR02642186 phage_xxxx uncharacterized phage protein. This unc 93.76
KOG0715288 consensus Molecular chaperone (DnaJ superfamily) [ 93.38
COG1198 730 PriA Primosomal protein N' (replication factor Y) 86.14
KOG0712 337 consensus Molecular chaperone (DnaJ superfamily) [ 86.05
TIGR00595 505 priA primosomal protein N'. All proteins in this f 85.34
PF0937472 PG_binding_3: Predicted Peptidoglycan domain; Inte 84.74
PF0234432 Myc-LZ: Myc leucine zipper domain; InterPro: IPR00 84.43
TIGR00630 924 uvra excinuclease ABC, A subunit. This family is b 83.63
PRK05580 679 primosome assembly protein PriA; Validated 81.78
>PF01471 PG_binding_1: Putative peptidoglycan binding domain; InterPro: IPR002477 This entry represents peptidoglycan binding domain (PGBD), as well as related domains that share the same structure Back     alignment and domain information 
Probab=99.54  E-value=1.6e-14  Score=107.65  Aligned_cols=57  Identities=39%  Similarity=0.612  Sum_probs=52.9

Q ss_pred             ChHhHHHHHHHHHHcCCCCCCCCCcccCCCHHHHHHHHHHHHHcCCCCCCccCHHHHHHH
Q 040777          169 EGEDVKAMQEELLKLGFFSGEEDMEYSSFSTGTERAVKTWQAAMGVTEDGIMTSELLESL  228 (380)
Q Consensus       169 ~g~~V~~LQ~~L~~lGy~~g~vDG~f~~Fg~~T~~AVk~FQ~~~GL~~DGivg~~T~~~L  228 (380)
                      ++++|.+||.+|..+||+.+.+||.|   |+.|++||++||+.+||++||++|+.||++|
T Consensus         1 ~~~~v~~lq~~L~~~gy~~~~~~g~~---~~~t~~Av~~fQ~~~gL~~tG~~d~~T~~~L   57 (57)
T PF01471_consen    1 SGPDVKALQQYLNRLGYYPGPVDGIF---DPETREAVKAFQKANGLPVTGVVDPETWEAL   57 (57)
T ss_dssp             BSHHHHHHHHHHHHTTTT-SSTTSBS---HHHHHHHHHHHHHHTTS-SSSSBCHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCCCCCCCCc---CHHHHHHHHHHHHHcCcCCCCccCHHHHhcC
Confidence            47899999999999999999999998   9999999999999999999999999999987

PGBD may have a general peptidoglycan binding function, has a core structure consisting of a closed, three-helical bundle with a left-handed twist. It is found at the N or C terminus of a variety of enzymes involved in bacterial cell wall degradation [, , ]. Examples are: Muramoyl-pentapeptide carboxypeptidase (3.4.17.8 from EC) N-acetylmuramoyl-L-alanine amidase cwlA precursor (cell wall hydrolase, autolysin, 3.5.1.28 from EC) Autolytic lysozyme (1,4-beta-N-acetylmuramidase, autolysin, 3.2.1.17 from EC) Membrane-bound lytic murein transglycosylase B Zinc-containing D-alanyl-D-alanine-cleaving carboxypeptidase, VanX []. Many of the proteins having this domain are as yet uncharacterised. However, some are known to belong to MEROPS peptidase family M15 (clan MD), subfamily M15A metallopeptidases. A number of the proteins belonging to subfamily M15A are non-peptidase homologues as they either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity. Eukaryotic enzymes can contain structurally similar PGBD-like domains. Matrix metalloproteinases (MMP), which catalyse extracellular matrix degradation, have N-terminal domains that resemble PGBD. Examples are gelatinase A (MMP-2), which degrades type IV collagen [], stromelysin-1 (MMP-3), which plays a role in arthritis and tumour invasion [, ], and gelatinase B (MMP-9) secreted by neutrophils as part of the innate immune defence mechanism []. Several MMPs are implicated in cancer progression, since degradation of the extracellular matrix is an essential step in the cascade of metastasis [].; GO: 0008152 metabolic process; PDB: 1L6J_A 3BKH_A 3BKV_A 1GXD_A 1EAK_D 1CK7_A 1SLM_A 1LBU_A 1SU3_B.
>TIGR02869 spore_SleB spore cortex-lytic enzyme Back     alignment and domain information
>COG0484 DnaJ DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>PRK14282 chaperone protein DnaJ; Provisional Back     alignment and domain information
>TIGR02349 DnaJ_bact chaperone protein DnaJ Back     alignment and domain information
>PRK14276 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PF00684 DnaJ_CXXCXGXG: DnaJ central domain; InterPro: IPR001305 The hsp70 chaperone machine performs many diverse roles in the cell, including folding of nascent proteins, translocation of polypeptides across organelle membranes, coordinating responses to stress, and targeting selected proteins for degradation Back     alignment and domain information
>PRK14296 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14277 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14278 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14280 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14298 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14297 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14287 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14293 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14289 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14281 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PTZ00037 DnaJ_C chaperone protein; Provisional Back     alignment and domain information
>PRK14279 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14300 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14286 chaperone protein DnaJ; Provisional Back     alignment and domain information
>COG3409 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane] Back     alignment and domain information
>PLN03165 chaperone protein dnaJ-related; Provisional Back     alignment and domain information
>PRK14284 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14285 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14301 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14294 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14283 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK10767 chaperone protein DnaJ; Provisional Back     alignment and domain information
>KOG0712 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>PRK14288 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14291 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14295 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK10594 murein L,D-transpeptidase; Provisional Back     alignment and domain information
>PRK14290 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14292 chaperone protein DnaJ; Provisional Back     alignment and domain information
>COG2989 Uncharacterized protein conserved in bacteria [Function unknown] Back     alignment and domain information
>COG3409 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane] Back     alignment and domain information
>PF08823 PG_binding_2: Putative peptidoglycan binding domain; InterPro: IPR014927 This entry may be a peptidoglycan binding domain Back     alignment and domain information
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair] Back     alignment and domain information
>KOG2813 consensus Predicted molecular chaperone, contains DnaJ domain [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>KOG2813 consensus Predicted molecular chaperone, contains DnaJ domain [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair] Back     alignment and domain information
>PLN03165 chaperone protein dnaJ-related; Provisional Back     alignment and domain information
>COG3023 ampD N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane] Back     alignment and domain information
>COG0484 DnaJ DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>PF00684 DnaJ_CXXCXGXG: DnaJ central domain; InterPro: IPR001305 The hsp70 chaperone machine performs many diverse roles in the cell, including folding of nascent proteins, translocation of polypeptides across organelle membranes, coordinating responses to stress, and targeting selected proteins for degradation Back     alignment and domain information
>KOG2824 consensus Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>PRK14279 chaperone protein DnaJ; Provisional Back     alignment and domain information
>TIGR02349 DnaJ_bact chaperone protein DnaJ Back     alignment and domain information
>PRK14301 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14286 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14300 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14284 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14282 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14276 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14287 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14296 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK10767 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14278 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14297 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14285 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14298 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14295 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14294 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14280 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14291 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14277 chaperone protein DnaJ; Provisional Back     alignment and domain information
>cd03031 GRX_GRX_like Glutaredoxin (GRX) family, GRX-like domain containing protein subfamily; composed of uncharacterized eukaryotic proteins containing a GRX-like domain having only one conserved cysteine, aligning to the C-terminal cysteine of the CXXC motif of GRXs Back     alignment and domain information
>PRK14288 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14289 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14283 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PF09374 PG_binding_3: Predicted Peptidoglycan domain; InterPro: IPR018537 This family contains a potential peptidoglycan binding domain Back     alignment and domain information
>PRK14281 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PTZ00037 DnaJ_C chaperone protein; Provisional Back     alignment and domain information
>PRK14290 chaperone protein DnaJ; Provisional Back     alignment and domain information
>TIGR02642 phage_xxxx uncharacterized phage protein Back     alignment and domain information
>PRK14293 chaperone protein DnaJ; Provisional Back     alignment and domain information
>PRK14292 chaperone protein DnaJ; Provisional Back     alignment and domain information
>TIGR02642 phage_xxxx uncharacterized phage protein Back     alignment and domain information
>KOG0715 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair] Back     alignment and domain information
>KOG0712 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>TIGR00595 priA primosomal protein N' Back     alignment and domain information
>PF09374 PG_binding_3: Predicted Peptidoglycan domain; InterPro: IPR018537 This family contains a potential peptidoglycan binding domain Back     alignment and domain information
>PF02344 Myc-LZ: Myc leucine zipper domain; InterPro: IPR003327 This family consists of the leucine zipper dimerisation domain found in both cellular c-Myc proto-oncogenes and viral v-Myc oncogenes Back     alignment and domain information
>TIGR00630 uvra excinuclease ABC, A subunit Back     alignment and domain information
>PRK05580 primosome assembly protein PriA; Validated Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query380
3bkh_A268 Phikz144, lytic transglycosylase; bacteriophage, e 4e-13
1lbu_A213 Muramoyl-pentapeptide carboxypeptidase; hydrolase, 2e-12
4fet_B222 Spore cortex-lytic enzyme prepeptide; transglycosy 3e-12
>3bkh_A Phikz144, lytic transglycosylase; bacteriophage, endolysin, peptidoglycan, cell WALL degradation, lysozyme, hydrolase; 2.50A {Pseudomonas phage phikz} PDB: 3bkv_A* Length = 268 Back     alignment and structure
 Score = 68.0 bits (165), Expect = 4e-13
 Identities = 18/79 (22%), Positives = 30/79 (37%), Gaps = 3/79 (3%)

Query: 164 LRVGSEGEDVKAMQEELLKLGFFSGEEDMEYSSFSTGTERAVKTWQAAMGVTEDGIMTSE 223
           LR G  G++V  +Q  L   G+  G+ D     F   T   V  +Q    +  DGI+   
Sbjct: 12  LRKGDRGDEVCQLQTLLNLCGYDVGKPD---GIFGNNTFNQVVKFQKDNCLDSDGIVGKN 68

Query: 224 LLESLYMEHRVEDNDTNMN 242
               L+ ++        + 
Sbjct: 69  TWAELFSKYSPPIPYKTIP 87
>1lbu_A Muramoyl-pentapeptide carboxypeptidase; hydrolase, nuclear receptor; 1.80A {Streptomyces albus} SCOP: a.20.1.1 d.65.1.1 Length = 213 Back     alignment and structure
>4fet_B Spore cortex-lytic enzyme prepeptide; transglycosylase, cortex hydrolase domain, sodium ION, seMet hydrolase; 1.91A {Bacillus anthracis} Length = 222 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query380
3bkh_A268 Phikz144, lytic transglycosylase; bacteriophage, e 99.44
1lbu_A213 Muramoyl-pentapeptide carboxypeptidase; hydrolase, 99.42
4fet_B222 Spore cortex-lytic enzyme prepeptide; transglycosy 99.4
2ctt_A104 DNAJ homolog subfamily A member 3; ZING finger, be 99.21
1nlt_A 248 Protein YDJ1, mitochondrial protein import protein 99.09
3d2y_A261 N-acetylmuramoyl-L-alanine amidase AMID; zinc amid 98.91
1exk_A79 DNAJ protein; extended beta-hairpin, CXXCXGXG, zin 98.79
1exk_A79 DNAJ protein; extended beta-hairpin, CXXCXGXG, zin 97.32
1l6j_A 425 Matrix metalloproteinase-9; twisted beta sheet fla 97.19
1eak_A 421 72 kDa type IV collagenase; hydrolase-hydrolase in 97.13
1slm_A255 Stromelysin-1; hydrolase, metalloprotease, fibrobl 97.12
3lcz_A53 YCZA, inhibitor of trap, regulated by T-box (Trp) 96.93
2ctt_A104 DNAJ homolog subfamily A member 3; ZING finger, be 96.74
1su3_A 450 Interstitial collagenase; prodomain, hemopexin dom 96.56
1ck7_A 631 Protein (gelatinase A); hydrolase (metalloprotease 96.55
2bx9_A53 Anti-trap, AT, tryptophan RNA-binding attenuator p 96.17
1nlt_A 248 Protein YDJ1, mitochondrial protein import protein 96.01
2ikb_A167 Hypothetical protein NMB1012; structural genomics, 95.78
2nr7_A195 Secretion activator protein, putative; APCC85792, 95.2
3lcz_A53 YCZA, inhibitor of trap, regulated by T-box (Trp) 94.03
2bx9_A53 Anti-trap, AT, tryptophan RNA-binding attenuator p 93.76
3pmq_A 669 Decaheme cytochrome C MTRF; greek KEY, C type cyto 91.92
>3bkh_A Phikz144, lytic transglycosylase; bacteriophage, endolysin, peptidoglycan, cell WALL degradation, lysozyme, hydrolase; 2.50A {Pseudomonas phage phikz} PDB: 3bkv_A* Back     alignment and structure
Probab=99.44  E-value=1.3e-13  Score=132.14  Aligned_cols=69  Identities=26%  Similarity=0.352  Sum_probs=65.5

Q ss_pred             CCccCCCCChHhHHHHHHHHHHcCCCCCCCCCcccCCCHHHHHHHHHHHHHcCCCCCCccCHHHHHHHhhCC
Q 040777          161 RKALRVGSEGEDVKAMQEELLKLGFFSGEEDMEYSSFSTGTERAVKTWQAAMGVTEDGIMTSELLESLYMEH  232 (380)
Q Consensus       161 ~~~Lk~G~~g~~V~~LQ~~L~~lGy~~g~vDG~f~~Fg~~T~~AVk~FQ~~~GL~~DGivg~~T~~~L~~~~  232 (380)
                      .++|+.|+++.+|..||++|..+||+.+.+||+|   |+.|++||++||+++||++||+||+.||.+|+...
T Consensus         9 ~~~l~~G~~g~~V~~lQ~~L~~~Gy~~g~~DG~f---g~~T~~AV~~FQ~~~gL~~dGivg~~T~~~L~~~~   77 (268)
T 3bkh_A            9 MKVLRKGDRGDEVCQLQTLLNLCGYDVGKPDGIF---GNNTFNQVVKFQKDNCLDSDGIVGKNTWAELFSKY   77 (268)
T ss_dssp             SCCBCTTCBSHHHHHHHHHHHTTTCCCCSCCSBC---CHHHHHHHHHHHHHTTSCCSSCBCHHHHHHHHHHC
T ss_pred             cccCcCCCchHHHHHHHHHHHHcCCCCCCCCCcc---CHHHHHHHHHHHHHhCCCCCCcCCHHHHHHHHHhh
Confidence            4679999999999999999999999999999998   99999999999999999999999999999998543
>1lbu_A Muramoyl-pentapeptide carboxypeptidase; hydrolase, nuclear receptor; 1.80A {Streptomyces albus} SCOP: a.20.1.1 d.65.1.1 Back     alignment and structure
>4fet_B Spore cortex-lytic enzyme prepeptide; transglycosylase, cortex hydrolase domain, sodium ION, seMet hydrolase; 1.91A {Bacillus anthracis} Back     alignment and structure
>2ctt_A DNAJ homolog subfamily A member 3; ZING finger, beta-hairpin, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>1nlt_A Protein YDJ1, mitochondrial protein import protein MAS5; beta-strands, chaperone, heat shock, mitochondrion; 2.70A {Saccharomyces cerevisiae} SCOP: b.4.1.1 b.4.1.1 g.54.1.1 Back     alignment and structure
>3d2y_A N-acetylmuramoyl-L-alanine amidase AMID; zinc amidase, PGRP, peptidoglycan recognizing protein, AMPD, acetylmuramyl-L-alanine amidase; HET: AH0; 1.75A {Escherichia coli} PDB: 2bh7_A 2wkx_A 2bgx_A* 3d2z_A Back     alignment and structure
>1exk_A DNAJ protein; extended beta-hairpin, CXXCXGXG, zinc-binding motif, chaperone; NMR {Escherichia coli} SCOP: g.54.1.1 Back     alignment and structure
>1exk_A DNAJ protein; extended beta-hairpin, CXXCXGXG, zinc-binding motif, chaperone; NMR {Escherichia coli} SCOP: g.54.1.1 Back     alignment and structure
>1l6j_A Matrix metalloproteinase-9; twisted beta sheet flanked by helices, hydrolase; 2.50A {Homo sapiens} SCOP: a.20.1.2 d.92.1.11 g.14.1.2 g.14.1.2 g.14.1.2 Back     alignment and structure
>1eak_A 72 kDa type IV collagenase; hydrolase-hydrolase inhibitor complex, hydrolyse, matrix metalloproteinase, gelatinase A, hydrolase- hydrolase inhib complex; 2.66A {Homo sapiens} SCOP: a.20.1.2 d.92.1.11 g.14.1.2 g.14.1.2 g.14.1.2 PDB: 1ks0_A 1cxw_A Back     alignment and structure
>1slm_A Stromelysin-1; hydrolase, metalloprotease, fibroblast, collagen degradation; 1.90A {Homo sapiens} SCOP: a.20.1.2 d.92.1.11 Back     alignment and structure
>3lcz_A YCZA, inhibitor of trap, regulated by T-box (Trp) seque; anti-trap, tryptophan RNA-binding attenuation PROT transcription attenuation; 2.06A {Bacillus licheniformis} PDB: 3ld0_A Back     alignment and structure
>2ctt_A DNAJ homolog subfamily A member 3; ZING finger, beta-hairpin, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>1su3_A Interstitial collagenase; prodomain, hemopexin domain, exocite, structural proteomics in europe, spine, structural genomics, hydrolase; HET: EPE; 2.20A {Homo sapiens} SCOP: a.20.1.2 b.66.1.1 d.92.1.11 PDB: 2clt_A 1fbl_A* Back     alignment and structure
>1ck7_A Protein (gelatinase A); hydrolase (metalloprotease), FULL-length, metalloproteinase; 2.80A {Homo sapiens} SCOP: a.20.1.2 b.66.1.1 d.92.1.11 g.14.1.2 g.14.1.2 g.14.1.2 PDB: 1gxd_A Back     alignment and structure
>2bx9_A Anti-trap, AT, tryptophan RNA-binding attenuator protein-inhibit protein; transcription regulation; 2.80A {Bacillus subtilis} PDB: 2ko8_A* 2zp8_E* 2zp9_C* Back     alignment and structure
>1nlt_A Protein YDJ1, mitochondrial protein import protein MAS5; beta-strands, chaperone, heat shock, mitochondrion; 2.70A {Saccharomyces cerevisiae} SCOP: b.4.1.1 b.4.1.1 g.54.1.1 Back     alignment and structure
>2ikb_A Hypothetical protein NMB1012; structural genomics, PSI-2, MCSG, PR structure initiative; 1.70A {Neisseria meningitidis} SCOP: d.2.1.9 PDB: 2is5_A* Back     alignment and structure
>2nr7_A Secretion activator protein, putative; APCC85792, porphyromonas gingivalis W83 structural genomics, PSI-2, protein structure initiative; 1.30A {Porphyromonas gingivalis} SCOP: d.2.1.9 Back     alignment and structure
>3lcz_A YCZA, inhibitor of trap, regulated by T-box (Trp) seque; anti-trap, tryptophan RNA-binding attenuation PROT transcription attenuation; 2.06A {Bacillus licheniformis} PDB: 3ld0_A Back     alignment and structure
>2bx9_A Anti-trap, AT, tryptophan RNA-binding attenuator protein-inhibit protein; transcription regulation; 2.80A {Bacillus subtilis} PDB: 2ko8_A* 2zp8_E* 2zp9_C* Back     alignment and structure
>3pmq_A Decaheme cytochrome C MTRF; greek KEY, C type cytochrome, outer membrane, electron trans; HET: HEC; 3.20A {Shewanella oneidensis} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 380
d1lbua183 a.20.1.1 (A:1-83) Zn2+ DD-carboxypeptidase, N-term 2e-11
d1nlta374 g.54.1.1 (A:139-212) Mitochondrial protein import 2e-04
d1exka_79 g.54.1.1 (A:) Cysteine-rich domain of the chaperon 0.002
>d1lbua1 a.20.1.1 (A:1-83) Zn2+ DD-carboxypeptidase, N-terminal domain {Streptomyces albus G [TaxId: 1962]} Length = 83 Back     information, alignment and structure

class: All alpha proteins
fold: PGBD-like
superfamily: PGBD-like
family: Peptidoglycan binding domain, PGBD
domain: Zn2+ DD-carboxypeptidase, N-terminal domain
species: Streptomyces albus G [TaxId: 1962]

 Score = 57.3 bits (138), Expect = 2e-11
 Identities = 20/75 (26%), Positives = 36/75 (48%), Gaps = 4/75 (5%)

Query: 164 LRVGSEGEDVKAMQEELLKLGFFSGEEDMEYSSFSTGTERAVKTWQAAMGVTEDGIMTSE 223
           L  GS GE V+ +Q  +        +  ++   F   T+ AV+ +Q+A G+  DGI    
Sbjct: 10  LSEGSSGEAVRQLQIRVAGYPGTGAQLAID-GQFGPATKAAVQRFQSAYGLAADGIAGPA 68

Query: 224 LLESLYMEHRVEDND 238
               +Y   +++D+D
Sbjct: 69  TFNKIY---QLQDDD 80
>d1nlta3 g.54.1.1 (A:139-212) Mitochondrial protein import protein mas5 (Hsp40, Ydj1), insert domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 74 Back     information, alignment and structure
>d1exka_ g.54.1.1 (A:) Cysteine-rich domain of the chaperone protein DnaJ {Escherichia coli [TaxId: 562]} Length = 79 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query380
d1lbua183 Zn2+ DD-carboxypeptidase, N-terminal domain {Strep 99.62
d1nlta374 Mitochondrial protein import protein mas5 (Hsp40, 99.06
d1exka_79 Cysteine-rich domain of the chaperone protein DnaJ 98.98
d1l6ja177 Gelatinase B (MMP-9) {Human (Homo sapiens) [TaxId: 98.61
d1slma165 Stromelysin-1 (MMP-3) {Human (Homo sapiens), fibro 98.17
d1su3a167 Fibroblast collagenase (MMP-1) {Human (Homo sapien 98.12
d1eaka176 Gelatinase A (MMP-2) {Human (Homo sapiens) [TaxId: 98.03
d2bgxa181 Probable N-acetylmuramoyl-L-alanine amidase YbjR, 97.51
d1nlta374 Mitochondrial protein import protein mas5 (Hsp40, 97.2
d1exka_79 Cysteine-rich domain of the chaperone protein DnaJ 97.19
d1m1qa_90 Flavocytochrome c3 (respiratory fumarate reductase 95.4
d2ikba1163 Hypothetical protein NMB1012 {Neisseria meningitid 92.75
d2nr7a1192 Putative secretion activator PG0293 {Porphyromonas 92.54
d1m1qa_90 Flavocytochrome c3 (respiratory fumarate reductase 88.2
>d1lbua1 a.20.1.1 (A:1-83) Zn2+ DD-carboxypeptidase, N-terminal domain {Streptomyces albus G [TaxId: 1962]} Back     information, alignment and structure
class: All alpha proteins
fold: PGBD-like
superfamily: PGBD-like
family: Peptidoglycan binding domain, PGBD
domain: Zn2+ DD-carboxypeptidase, N-terminal domain
species: Streptomyces albus G [TaxId: 1962]

Probab=99.62  E-value=3.5e-16  Score=123.16  Aligned_cols=66  Identities=27%  Similarity=0.411  Sum_probs=61.7

Q ss_pred             CccCCCCChHhHHHHHHHHHHcCCCCC--CCCCcccCCCHHHHHHHHHHHHHcCCCCCCccCHHHHHHHhh
Q 040777          162 KALRVGSEGEDVKAMQEELLKLGFFSG--EEDMEYSSFSTGTERAVKTWQAAMGVTEDGIMTSELLESLYM  230 (380)
Q Consensus       162 ~~Lk~G~~g~~V~~LQ~~L~~lGy~~g--~vDG~f~~Fg~~T~~AVk~FQ~~~GL~~DGivg~~T~~~L~~  230 (380)
                      .+|+.|++|++|++||++|+.+||..+  .+||+|   |+.|++||++||+.|||++||++|+.||.+|+.
T Consensus         8 ~~L~~G~~g~~V~~lQ~~L~~~g~~~~~~~~dg~f---g~~t~~AV~~FQ~~~gL~~dGivg~~T~~~L~~   75 (83)
T d1lbua1           8 GTLSEGSSGEAVRQLQIRVAGYPGTGAQLAIDGQF---GPATKAAVQRFQSAYGLAADGIAGPATFNKIYQ   75 (83)
T ss_dssp             SCBCTTCBSHHHHHHHHHTTTCSCTTCCCCCSSBC---CHHHHHHHHHHHHHTTSCCSSCBCHHHHHHHHH
T ss_pred             CCCCCCCCcHHHHHHHHHHHhcCCCCCCcCCCCcc---CHHHHHHHHHHHHHcCCCCCCcCCHHHHHHHHH
Confidence            489999999999999999999999653  579988   999999999999999999999999999999983
>d1nlta3 g.54.1.1 (A:139-212) Mitochondrial protein import protein mas5 (Hsp40, Ydj1), insert domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1exka_ g.54.1.1 (A:) Cysteine-rich domain of the chaperone protein DnaJ {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1l6ja1 a.20.1.2 (A:29-105) Gelatinase B (MMP-9) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1slma1 a.20.1.2 (A:16-80) Stromelysin-1 (MMP-3) {Human (Homo sapiens), fibroblast [TaxId: 9606]} Back     information, alignment and structure
>d1su3a1 a.20.1.2 (A:32-98) Fibroblast collagenase (MMP-1) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1eaka1 a.20.1.2 (A:32-107) Gelatinase A (MMP-2) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2bgxa1 a.20.1.1 (A:180-260) Probable N-acetylmuramoyl-L-alanine amidase YbjR, C-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1nlta3 g.54.1.1 (A:139-212) Mitochondrial protein import protein mas5 (Hsp40, Ydj1), insert domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1exka_ g.54.1.1 (A:) Cysteine-rich domain of the chaperone protein DnaJ {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1m1qa_ a.138.1.3 (A:) Flavocytochrome c3 (respiratory fumarate reductase), N-terminal domain {Shewanella oneidensis [TaxId: 70863]} Back     information, alignment and structure
>d2ikba1 d.2.1.9 (A:1-163) Hypothetical protein NMB1012 {Neisseria meningitidis [TaxId: 487]} Back     information, alignment and structure
>d2nr7a1 d.2.1.9 (A:1-192) Putative secretion activator PG0293 {Porphyromonas gingivalis [TaxId: 837]} Back     information, alignment and structure
>d1m1qa_ a.138.1.3 (A:) Flavocytochrome c3 (respiratory fumarate reductase), N-terminal domain {Shewanella oneidensis [TaxId: 70863]} Back     information, alignment and structure