Citrus Sinensis ID: 026790

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---
MAANTFSFPANLLRYSQSFDAKRSSAPSFLPSSSMFGNKLLIRPQLNSSRFVTKYHRSSATATVSFSLPTTVKPETASPDKIPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLGKSDLFFFSPERPPLTEQAQRALDWAFNEKLKSGESGEITTNHLLLGIWSEKESAGHKILATLGFNDEKAKEIAKSINEDTILSFK
cccccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccccccHHccccccccccccccccccccccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHcccccHHHHHHHHccccHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHHHHccccccccHHHHHHHHHcccccHHHHHHHHccccHHHHHHHHHHHccccccccc
cccHHHHcccHHccccccccccccccccccccccccccHHEEcccccccccccccccccEEEEEEEEcccccccccccccccccccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHcccHHHHHHHHHccccHHHHHHHHHHHHccccccEcccccccccHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHcccccHHHHHHHHccccHHHHHHHHHHccccccEccc
maantfsfpanLLRYSQSfdakrssapsflpsssmfgnkllirpqlnssrfvtkyhrssatatvsfslpttvkpetaspdkipkWSARAIRSFAMAELEARklkypntgtEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLlgksdlfffsperppltEQAQRALDWAFNeklksgesgeittNHLLLGIWSEKESAGHKILATLGFNDEKAKEIAKSINedtilsfk
maantfsfpaNLLRYSQSFDAKRSSAPSFLPSSSMFGNKLLIRPQLNSSRFVTKYHrssatatvsfslpttvkpetaspdkipkwSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLGKSDLFFFSPERPPLTEQAQRALDWAFNEKlksgesgeiTTNHLLLGIWSEKESAGHKILATLGFNDEKAKEIAksinedtilsfk
MAANTFSFPANLLRYSQSFDAKRssapsflpsssMFGNKLLIRPQLNSSRFVTKYHRSSATATVSFSLPTTVKPETASPDKIPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLGKSDLFFFSPERPPLTEQAQRALDWAFNEKLKSGESGEITTNHLLLGIWSEKESAGHKILATLGFNDEKAKEIAKSINEDTILSFK
***************************************LLIR******RFVTKY*****************************WSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLGKSDLFFFS***********RALDWAFNEKL*****GEITTNHLLLGIWSEKESAGHKILATLGFN********************
********PANLLRY*********************************************************************WSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLN*****************TEQAQRALDWAFNEKLKSGESGEITTNHLLLGIWSEKESAGHKILATLGFNDEKAKEIA************
MAANTFSFPANLLRYSQSFDAKRSSAPSFLPSSSMFGNKLLIRPQLNSSRFVTKYHRSSATATVSFSLPTTVKPETASPDKIPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLGKSDLFFFSPERPPLTEQAQRALDWAFNEKLKSGESGEITTNHLLLGIWSEKESAGHKILATLGFNDEKAKEIAKSINEDTILSFK
*************R**QSF***RSSAPSFLPSSSMFGNKLLIRPQLNSSRFVTKYHRSSATATVSFSLPTTV******PDKIPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLGKSDLFFFSPERPPLTEQAQRALDWAFNEKLKSGESGEITTNHLLLGIWSEKESAGHKILATLGFNDEKAKEIAKSIN********
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooo
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MAANTFSFPANLLRYSQSFDAKRSSAPSFLPSSSMFGNKLLIRPQLNSSRFVTKYHRSSATATVSFSLPTTVKPETASPDKIPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLGKSDLFFFSPERPPLTEQAQRALDWAFNEKLKSGESGEITTNHLLLGIWSEKESAGHKILATLGFNDEKAKEIAKSINEDTILSFK
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

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query233 2.2.26 [Sep-21-2011]
Q8GW78241 Clp protease-related prot no no 0.695 0.672 0.664 8e-58
Q9TM05 854 ATP-dependent Clp proteas N/A no 0.545 0.148 0.338 2e-12
O78410 819 ATP-dependent Clp proteas yes no 0.566 0.161 0.318 6e-12
Q1XDF4 821 ATP-dependent Clp proteas N/A no 0.545 0.154 0.3 3e-11
P51332 821 ATP-dependent Clp proteas N/A no 0.545 0.154 0.3 3e-11
P37571 810 Negative regulator of gen yes no 0.549 0.158 0.307 8e-11
P24428 848 Probable ATP-dependent Cl yes no 0.532 0.146 0.333 2e-10
P0A522 848 Probable ATP-dependent Cl yes no 0.532 0.146 0.333 2e-10
P0A523 848 Probable ATP-dependent Cl yes no 0.532 0.146 0.333 2e-10
Q8EU05 809 Chaperone protein ClpB OS yes no 0.566 0.163 0.308 8e-10
>sp|Q8GW78|CLP41_ARATH Clp protease-related protein At4g12060, chloroplastic OS=Arabidopsis thaliana GN=At4g12060 PE=1 SV=1 Back     alignment and function desciption
 Score =  223 bits (568), Expect = 8e-58,   Method: Compositional matrix adjust.
 Identities = 111/167 (66%), Positives = 130/167 (77%), Gaps = 5/167 (2%)

Query: 54  KYHRSSATATVSFSLPTTVKPETASPDKIPKWSARAIRSFAMAELEARKLKYPNTGTEAF 113
           + H+S+ +     SLPT       S  K PKWS RAI+SFAM ELEARKLKYPNTGTEA 
Sbjct: 68  RIHKSAIS-----SLPTANPDLVVSDAKKPKWSWRAIKSFAMGELEARKLKYPNTGTEAL 122

Query: 114 LMGILVEGTSTTAKFLRANGITLFKVREETLNLLGKSDLFFFSPERPPLTEQAQRALDWA 173
           LMGIL+EGTS T+KFLRAN I L+KVREET+ LLGK+D++FFSPE PPLTE AQRALD A
Sbjct: 123 LMGILIEGTSFTSKFLRANKIMLYKVREETVKLLGKADMYFFSPEHPPLTEDAQRALDSA 182

Query: 174 FNEKLKSGESGEITTNHLLLGIWSEKESAGHKILATLGFNDEKAKEI 220
            ++ LK+G  GE+   H+LLGIWSE ES GHKILATLGF DEK+KE+
Sbjct: 183 LDQNLKAGGIGEVMPAHILLGIWSEVESPGHKILATLGFTDEKSKEL 229

Arabidopsis thaliana (taxid: 3702)
>sp|Q9TM05|CLPC_CYACA ATP-dependent Clp protease ATP-binding subunit clpA homolog OS=Cyanidium caldarium GN=clpC PE=3 SV=1 Back     alignment and function description
>sp|O78410|CLPC_GUITH ATP-dependent Clp protease ATP-binding subunit clpA homolog OS=Guillardia theta GN=clpC PE=3 SV=1 Back     alignment and function description
>sp|Q1XDF4|CLPC_PORYE ATP-dependent Clp protease ATP-binding subunit clpA homolog OS=Porphyra yezoensis GN=clpC PE=3 SV=1 Back     alignment and function description
>sp|P51332|CLPC_PORPU ATP-dependent Clp protease ATP-binding subunit clpA homolog OS=Porphyra purpurea GN=clpC PE=3 SV=1 Back     alignment and function description
>sp|P37571|CLPC_BACSU Negative regulator of genetic competence ClpC/MecB OS=Bacillus subtilis (strain 168) GN=clpC PE=1 SV=1 Back     alignment and function description
>sp|P24428|CLPC_MYCLE Probable ATP-dependent Clp protease ATP-binding subunit OS=Mycobacterium leprae (strain TN) GN=clpC PE=3 SV=2 Back     alignment and function description
>sp|P0A522|CLPC_MYCTU Probable ATP-dependent Clp protease ATP-binding subunit OS=Mycobacterium tuberculosis GN=clpC PE=1 SV=1 Back     alignment and function description
>sp|P0A523|CLPC_MYCBO Probable ATP-dependent Clp protease ATP-binding subunit OS=Mycobacterium bovis (strain ATCC BAA-935 / AF2122/97) GN=clpC PE=3 SV=1 Back     alignment and function description
>sp|Q8EU05|CLPB_OCEIH Chaperone protein ClpB OS=Oceanobacillus iheyensis (strain DSM 14371 / JCM 11309 / KCTC 3954 / HTE831) GN=clpB PE=3 SV=1 Back     alignment and function description

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 ?
Query233
147837826231 hypothetical protein VITISV_006813 [Viti 0.845 0.852 0.755 4e-79
359490173231 PREDICTED: clp protease-related protein 0.845 0.852 0.755 6e-79
255539683227 ATP-dependent clp protease, putative [Ri 0.974 1.0 0.686 1e-77
449460786234 PREDICTED: clp protease-related protein 0.974 0.970 0.666 1e-76
356530947252 PREDICTED: clp protease-related protein 0.871 0.805 0.705 8e-76
363808208260 uncharacterized protein LOC100786582 [Gl 0.871 0.780 0.700 4e-75
359806749252 uncharacterized protein LOC100786069 [Gl 0.845 0.781 0.696 8e-73
18416540238 Double Clp-N motif protein [Arabidopsis 0.987 0.966 0.590 1e-67
297803584239 clp amino terminal domain-containing pro 0.866 0.845 0.632 2e-67
224122572158 predicted protein [Populus trichocarpa] 0.643 0.949 0.8 4e-65
>gi|147837826|emb|CAN60931.1| hypothetical protein VITISV_006813 [Vitis vinifera] Back     alignment and taxonomy information
 Score =  300 bits (767), Expect = 4e-79,   Method: Compositional matrix adjust.
 Identities = 151/200 (75%), Positives = 169/200 (84%), Gaps = 3/200 (1%)

Query: 33  SSMFGNKLLIRPQLNSSRFVTKYHRSSATATVSFSLPTTVKPETASPDKIPKWSARAIRS 92
           SS+ G KL I  Q + SR V      S  ATV  SLPT  KPE  S +K+PKWSARAI+S
Sbjct: 35  SSLIGQKLSI--QSSHSRLVVSTRYRSTVATVLLSLPT-AKPERTSSEKVPKWSARAIKS 91

Query: 93  FAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLGKSDL 152
           F+MAELEARKLKYPNTGTEA LMGILVEGTS  AKFLRANGITLFKVREET+NLLGKSDL
Sbjct: 92  FSMAELEARKLKYPNTGTEALLMGILVEGTSLAAKFLRANGITLFKVREETVNLLGKSDL 151

Query: 153 FFFSPERPPLTEQAQRALDWAFNEKLKSGESGEITTNHLLLGIWSEKESAGHKILATLGF 212
           +FFSPE PPLTE AQRALDWA +EK+KSGE GEITT+HLLLGIW+E+ESAGHKILATLGF
Sbjct: 152 YFFSPEHPPLTEPAQRALDWAVDEKIKSGEEGEITTSHLLLGIWAEEESAGHKILATLGF 211

Query: 213 NDEKAKEIAKSINEDTILSF 232
           ND++AKE+AKSIN++T LSF
Sbjct: 212 NDDQAKELAKSINKETDLSF 231

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|359490173|ref|XP_002268037.2| PREDICTED: clp protease-related protein At4g12060, chloroplastic-like [Vitis vinifera] gi|296084123|emb|CBI24511.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|255539683|ref|XP_002510906.1| ATP-dependent clp protease, putative [Ricinus communis] gi|223550021|gb|EEF51508.1| ATP-dependent clp protease, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|449460786|ref|XP_004148125.1| PREDICTED: clp protease-related protein At4g12060, chloroplastic-like [Cucumis sativus] gi|449499662|ref|XP_004160878.1| PREDICTED: clp protease-related protein At4g12060, chloroplastic-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|356530947|ref|XP_003534040.1| PREDICTED: clp protease-related protein At4g12060, chloroplastic-like [Glycine max] Back     alignment and taxonomy information
>gi|363808208|ref|NP_001242487.1| uncharacterized protein LOC100786582 [Glycine max] gi|255639105|gb|ACU19852.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|359806749|ref|NP_001241043.1| uncharacterized protein LOC100786069 [Glycine max] gi|255641314|gb|ACU20934.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|18416540|ref|NP_567718.1| Double Clp-N motif protein [Arabidopsis thaliana] gi|14334924|gb|AAK59640.1| unknown protein [Arabidopsis thaliana] gi|16323364|gb|AAL15176.1| unknown protein [Arabidopsis thaliana] gi|21555497|gb|AAM63872.1| unknown [Arabidopsis thaliana] gi|195604812|gb|ACG24236.1| ATP-dependent Clp protease ATP-binding subunit clpA [Zea mays] gi|332659648|gb|AEE85048.1| Double Clp-N motif protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|297803584|ref|XP_002869676.1| clp amino terminal domain-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297315512|gb|EFH45935.1| clp amino terminal domain-containing protein [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|224122572|ref|XP_002318870.1| predicted protein [Populus trichocarpa] gi|222859543|gb|EEE97090.1| predicted protein [Populus trichocarpa] 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 ?
Query233
TAIR|locus:2138048238 AT4G25370 "AT4G25370" [Arabido 0.987 0.966 0.569 3.8e-62
TAIR|locus:2118066241 AT4G12060 "AT4G12060" [Arabido 0.703 0.680 0.676 1.9e-53
UNIPROTKB|Q3A9N1 811 CHY_2348 "Negative regulator o 0.596 0.171 0.363 1.6e-14
TIGR_CMR|CHY_2348 811 CHY_2348 "negative regulator o 0.596 0.171 0.363 1.6e-14
TAIR|locus:2157383 929 CLPC1 "CLPC homologue 1" [Arab 0.605 0.151 0.310 1.3e-12
TAIR|locus:2099433 952 HSP93-III [Arabidopsis thalian 0.721 0.176 0.295 3.5e-12
UNIPROTKB|Q724I0 820 LMOf2365_0244 "ClpC ATPase" [L 0.566 0.160 0.301 1.6e-11
UNIPROTKB|P0A522 848 clpC "Probable ATP-dependent C 0.532 0.146 0.333 5.8e-11
UNIPROTKB|Q81VV9 811 BAS0081 "Negative regulator of 0.566 0.162 0.301 1.1e-09
TIGR_CMR|BA_0080 811 BA_0080 "negative regulator of 0.566 0.162 0.301 1.1e-09
TAIR|locus:2138048 AT4G25370 "AT4G25370" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 635 (228.6 bits), Expect = 3.8e-62, P = 3.8e-62
 Identities = 135/237 (56%), Positives = 168/237 (70%)

Query:     1 MAANTFSFPANLLRYSQSFDAKRXXXXXXXX----XXXMFGNKLLIRPQLNSSRFVTKYH 56
             MA+ T SF    L   + F +++               + G KLL   Q +   FV K  
Sbjct:     1 MASYTVSFIPLTLSNPRIFVSRQNGSPSSSSRIPLTSSLLGKKLLAT-QPSHRCFVPKLR 59

Query:    57 RSSATATVSFSLPTTVKPETASPDKIPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMG 116
               ++ +TV  ++P   +PE  S DKIPKWSARAI+S AM ELEARKLKYP+TGTEA LMG
Sbjct:    60 CLTSASTV-LNVPIA-QPENGSSDKIPKWSARAIKSLAMGELEARKLKYPSTGTEAILMG 117

Query:   117 ILVEGTSTTAKFLRANGITLFKVREETLNLLGKSDLFFFSPERPPLTEQAQRALDWAFNE 176
             ILVEGTST AKFLR NG+TLFKVR+ETL+LLGKSD++FFSPE PPLTE AQ+A+ WA +E
Sbjct:   118 ILVEGTSTVAKFLRGNGVTLFKVRDETLSLLGKSDMYFFSPEHPPLTEPAQKAIAWAIDE 177

Query:   177 KLKSGESGEITTNHLLLGIWSEKESAGHKILATLGFNDEKAKEIAKSINEDTILSFK 233
             K KS   GE+TT +LLLG+WS+K+SAG +IL  LGFN++KAKE+ KS+NED  LSFK
Sbjct:   178 KNKSDVDGELTTAYLLLGVWSQKDSAGRQILEKLGFNEDKAKEVEKSMNEDVDLSFK 234
GO:0005524 "ATP binding" evidence=ISS
GO:0009507 "chloroplast" evidence=ISM;IDA
GO:0019538 "protein metabolic process" evidence=IEA
GO:0009579 "thylakoid" evidence=IDA
GO:0009941 "chloroplast envelope" evidence=IDA
GO:0009532 "plastid stroma" evidence=IDA
GO:0009570 "chloroplast stroma" evidence=IDA
TAIR|locus:2118066 AT4G12060 "AT4G12060" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|Q3A9N1 CHY_2348 "Negative regulator of genetic competence clpC/mecB" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)] Back     alignment and assigned GO terms
TIGR_CMR|CHY_2348 CHY_2348 "negative regulator of genetic competence clpC/mecB" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)] Back     alignment and assigned GO terms
TAIR|locus:2157383 CLPC1 "CLPC homologue 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2099433 HSP93-III [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|Q724I0 LMOf2365_0244 "ClpC ATPase" [Listeria monocytogenes serotype 4b str. F2365 (taxid:265669)] Back     alignment and assigned GO terms
UNIPROTKB|P0A522 clpC "Probable ATP-dependent Clp protease ATP-binding subunit" [Mycobacterium tuberculosis (taxid:1773)] Back     alignment and assigned GO terms
UNIPROTKB|Q81VV9 BAS0081 "Negative regulator of genetic competence ClpC/MecB" [Bacillus anthracis (taxid:1392)] Back     alignment and assigned GO terms
TIGR_CMR|BA_0080 BA_0080 "negative regulator of genetic competence ClpC/MecB" [Bacillus anthracis str. Ames (taxid:198094)] 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

Fail to connect to STRING server

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 ?
Query233
CHL00095 821 CHL00095, clpC, Clp protease ATP binding subunit 4e-13
COG0542 786 COG0542, clpA, ATP-binding subunits of Clp proteas 2e-12
pfam0286153 pfam02861, Clp_N, Clp amino terminal domain 3e-07
pfam0286153 pfam02861, Clp_N, Clp amino terminal domain 2e-04
COG0542 786 COG0542, clpA, ATP-binding subunits of Clp proteas 0.003
>gnl|CDD|214361 CHL00095, clpC, Clp protease ATP binding subunit Back     alignment and domain information 
 Score = 67.8 bits (166), Expect = 4e-13
 Identities = 45/149 (30%), Positives = 75/149 (50%), Gaps = 4/149 (2%)

Query: 84  KWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREET 143
           +++ +AI+   +++ EAR+L +   GTE  L+G++ EGT   A+ L++ G+TL   R E 
Sbjct: 4   RFTEKAIKVIMLSQEEARRLGHNFVGTEQILLGLIGEGTGIAARALKSMGVTLKDARIEV 63

Query: 144 LNLLGKSDLFFFSPERPPLTEQAQRALDWAFNEKLKSGESGEITTNHLLLGIWSEKESAG 203
             ++G+   F       P T +A+R L+ +  E    G +  I T HLLL +  E E   
Sbjct: 64  EKIIGRGTGFVAV--EIPFTPRAKRVLEMSLEEARDLGHN-YIGTEHLLLALLEEGEGVA 120

Query: 204 HKILATLGFNDEKAK-EIAKSINEDTILS 231
            ++L  LG +  K +  I   I E     
Sbjct: 121 ARVLENLGVDLSKIRSLILNLIGEIIEAI 149

Length = 821
>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>gnl|CDD|217254 pfam02861, Clp_N, Clp amino terminal domain Back     alignment and domain information
>gnl|CDD|217254 pfam02861, Clp_N, Clp amino terminal domain Back     alignment and domain information
>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 233
CHL00095 821 clpC Clp protease ATP binding subunit 99.84
TIGR03346 852 chaperone_ClpB ATP-dependent chaperone ClpB. Membe 99.82
TIGR02639 731 ClpA ATP-dependent Clp protease ATP-binding subuni 99.81
PRK10865 857 protein disaggregation chaperone; Provisional 99.76
TIGR03345 852 VI_ClpV1 type VI secretion ATPase, ClpV1 family. M 99.75
COG0542 786 clpA ATP-binding subunits of Clp protease and DnaK 99.74
PRK11034 758 clpA ATP-dependent Clp protease ATP-binding subuni 99.64
KOG1051 898 consensus Chaperone HSP104 and related ATP-depende 99.54
PF0286153 Clp_N: Clp amino terminal domain; InterPro: IPR004 99.22
PF0286153 Clp_N: Clp amino terminal domain; InterPro: IPR004 99.07
TIGR03346 852 chaperone_ClpB ATP-dependent chaperone ClpB. Membe 98.22
CHL00095 821 clpC Clp protease ATP binding subunit 98.16
TIGR03345 852 VI_ClpV1 type VI secretion ATPase, ClpV1 family. M 98.14
TIGR02639 731 ClpA ATP-dependent Clp protease ATP-binding subuni 97.98
PRK10865 857 protein disaggregation chaperone; Provisional 97.88
PRK11034 758 clpA ATP-dependent Clp protease ATP-binding subuni 97.59
COG0542 786 clpA ATP-binding subunits of Clp protease and DnaK 97.48
KOG1051 898 consensus Chaperone HSP104 and related ATP-depende 96.62
cd00074115 H2A Histone 2A; H2A is a subunit of the nucleosome 81.74
PLN00154136 histone H2A; Provisional 80.97
PTZ00017134 histone H2A; Provisional 80.93
KOG1756131 consensus Histone 2A [Chromatin structure and dyna 80.7
PLN00154136 histone H2A; Provisional 80.68
>CHL00095 clpC Clp protease ATP binding subunit Back     alignment and domain information 
Probab=99.84  E-value=4.5e-20  Score=185.42  Aligned_cols=141  Identities=30%  Similarity=0.495  Sum_probs=129.4

Q ss_pred             CchhhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCChHHHHHHHcCCCHHHHHHHHHHHhCCCCCCCCCCCCC
Q 026790           81 KIPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLGKSDLFFFSPERP  160 (233)
Q Consensus        81 ~~~rfT~~a~~vl~~A~~eA~~~~~~~I~~eHLLlaLL~e~~~~a~~iL~~~Gvd~~~lr~~l~~~L~~~~~~~~~~~~~  160 (233)
                      ||++||++++++|..|+.+|++++|.+|++||||+||+.++++.+.++|+++|++++.++.+++..+++.+..  .+..+
T Consensus         1 m~~rfT~~a~~vL~~A~~~A~~~~h~~V~~EHLLLaLL~~~~~~a~~iL~~~gid~~~l~~~l~~~l~~~~~~--~~~~~   78 (821)
T CHL00095          1 MFERFTEKAIKVIMLSQEEARRLGHNFVGTEQILLGLIGEGTGIAARALKSMGVTLKDARIEVEKIIGRGTGF--VAVEI   78 (821)
T ss_pred             ChhhHhHHHHHHHHHHHHHHHHhCCCcCcHHHHHHHHHhCCCchHHHHHHHcCCCHHHHHHHHHHHHhcCCCC--Ccccc
Confidence            5889999999999999999999999999999999999999999999999999999999999999988764431  23468


Q ss_pred             cCCHHHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHhhCCCchHHHHHHhCCCCHHHHHHHHHHh
Q 026790          161 PLTEQAQRALDWAFNEKLKSGESGEITTNHLLLGIWSEKESAGHKILATLGFNDEKAKEIAKSI  224 (233)
Q Consensus       161 ~~S~~~~kvLe~A~~~A~~~g~~~~I~teHLLLALl~~~~~~~~~iL~~lGvd~~~l~~~i~~~  224 (233)
                      +||+.++++|+.|+.+|..+|+ ++|+++|||+||+.++++.+.++|+.+|++.+.+++.+...
T Consensus        79 ~~S~~~~~vL~~A~~~A~~~~~-~~I~~eHLLlALL~~~ds~a~~iL~~~gvd~~~L~~~l~~~  141 (821)
T CHL00095         79 PFTPRAKRVLEMSLEEARDLGH-NYIGTEHLLLALLEEGEGVAARVLENLGVDLSKIRSLILNL  141 (821)
T ss_pred             ccCHHHHHHHHHHHHHHHHhCC-CcccHHHHHHHHHhCCCchHHHHHHHcCCCHHHHHHHHHHH
Confidence            8999999999999999999999 99999999999999988888899999999999998887653

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB Back     alignment and domain information
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA Back     alignment and domain information
>PRK10865 protein disaggregation chaperone; Provisional Back     alignment and domain information
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family Back     alignment and domain information
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional Back     alignment and domain information
>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>PF02861 Clp_N: Clp amino terminal domain; InterPro: IPR004176 This short domain is found in one or two copies at the amino terminus of ClpA and ClpB proteins from bacteria and eukaryotes Back     alignment and domain information
>PF02861 Clp_N: Clp amino terminal domain; InterPro: IPR004176 This short domain is found in one or two copies at the amino terminus of ClpA and ClpB proteins from bacteria and eukaryotes Back     alignment and domain information
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB Back     alignment and domain information
>CHL00095 clpC Clp protease ATP binding subunit Back     alignment and domain information
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family Back     alignment and domain information
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA Back     alignment and domain information
>PRK10865 protein disaggregation chaperone; Provisional Back     alignment and domain information
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional Back     alignment and domain information
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>cd00074 H2A Histone 2A; H2A is a subunit of the nucleosome Back     alignment and domain information
>PLN00154 histone H2A; Provisional Back     alignment and domain information
>PTZ00017 histone H2A; Provisional Back     alignment and domain information
>KOG1756 consensus Histone 2A [Chromatin structure and dynamics] Back     alignment and domain information
>PLN00154 histone H2A; Provisional Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query233
3pxi_A 758 Structure Of Meca108:clpc Length = 758 6e-13
3pxg_A 468 Structure Of Meca121 And Clpc1-485 Complex Length = 6e-13
2y1q_A150 Crystal Structure Of Clpc N-Terminal Domain Length 1e-12
2y1r_A149 Structure Of Meca121 & Clpc N-Domain Complex Length 1e-12
2k77_A146 Nmr Solution Structure Of The Bacillus Subtilis Clp 1e-12
3fh2_A146 The Crystal Structure Of The Probable Atp-Dependent 3e-12
3fes_A145 Crystal Structure Of The Atp-Dependent Clp Protease 7e-06
>pdb|3PXI|A Chain A, Structure Of Meca108:clpc Length = 758 Back     alignment and structure 
Iteration: 1

 Score = 70.9 bits (172), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 43/140 (30%), Positives = 79/140 (56%), Gaps = 12/140 (8%)
Query: 84  KWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREET 143
           +++ RA +  A+A+ EA +L + N GTE  L+G++ EG    AK L+A G+   K+++E 
Sbjct: 5   RFTERAQKVLALAQEEALRLGHNNIGTEHILLGLVREGEGIAAKALQALGLGSEKIQKEV 64
Query: 144 LNLLGK----SDLFFFSPERPPLTEQAQRALDWAFNEKLKSGESGEITTNHLLLGIWSEK 199
            +L+G+    S    ++P       +A++ ++ + +E  K G S  + T H+LLG+  E 
Sbjct: 65  ESLIGRGQEMSQTIHYTP-------RAKKVIELSMDEARKLGHS-YVGTEHILLGLIREG 116
Query: 200 ESAGHKILATLGFNDEKAKE 219
           E    ++L  LG +  KA++
Sbjct: 117 EGVAARVLNNLGVSLNKARQ 136
>pdb|3PXG|A Chain A, Structure Of Meca121 And Clpc1-485 Complex Length = 468 Back     alignment and structure
>pdb|2Y1Q|A Chain A, Crystal Structure Of Clpc N-Terminal Domain Length = 150 Back     alignment and structure
>pdb|2Y1R|A Chain A, Structure Of Meca121 & Clpc N-Domain Complex Length = 149 Back     alignment and structure
>pdb|2K77|A Chain A, Nmr Solution Structure Of The Bacillus Subtilis Clpc N- Domain Length = 146 Back     alignment and structure
>pdb|3FH2|A Chain A, The Crystal Structure Of The Probable Atp-Dependent Protease (Heat Shock Protein) From Corynebacterium Glutamicum Length = 146 Back     alignment and structure
>pdb|3FES|A Chain A, Crystal Structure Of The Atp-Dependent Clp Protease Clpc From Clostridium Difficile Length = 145 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query233
3fh2_A146 Probable ATP-dependent protease (heat shock prote; 6e-29
3fh2_A146 Probable ATP-dependent protease (heat shock prote; 3e-10
3fh2_A146 Probable ATP-dependent protease (heat shock prote; 1e-06
2y1q_A150 CLPC N-domain, negative regulator of genetic compe 9e-25
2y1q_A150 CLPC N-domain, negative regulator of genetic compe 1e-10
3fes_A145 ATP-dependent CLP endopeptidase; alpha-helical bun 2e-24
3fes_A145 ATP-dependent CLP endopeptidase; alpha-helical bun 5e-11
3pxi_A 758 Negative regulator of genetic competence CLPC/MEC; 2e-22
3pxi_A 758 Negative regulator of genetic competence CLPC/MEC; 4e-10
3pxi_A 758 Negative regulator of genetic competence CLPC/MEC; 3e-06
3pxg_A 468 Negative regulator of genetic competence CLPC/MEC; 2e-21
3pxg_A 468 Negative regulator of genetic competence CLPC/MEC; 4e-10
1r6b_X 758 CLPA protein; AAA+, N-terminal domain, CLPS, cryst 3e-19
1r6b_X 758 CLPA protein; AAA+, N-terminal domain, CLPS, cryst 2e-06
1k6k_A143 ATP-dependent CLP protease ATP-binding subunit CLP 1e-10
1k6k_A143 ATP-dependent CLP protease ATP-binding subunit CLP 8e-04
3zri_A171 CLPB protein, CLPV; chaperone, HSP100 proteins, AA 7e-05
>3fh2_A Probable ATP-dependent protease (heat shock prote; struct genomics, PSI2, MCSG, protein structure initiative; 1.60A {Corynebacterium glutamicum} Length = 146 Back     alignment and structure
 Score =  105 bits (264), Expect = 6e-29
 Identities = 43/136 (31%), Positives = 72/136 (52%), Gaps = 3/136 (2%)

Query: 84  KWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREET 143
           +++ RA R   +A+ EAR L +   GTE  L+G++ EG    AK L + GI+L  VR+E 
Sbjct: 6   RFTDRARRVIVLAQEEARMLNHNYIGTEHILLGLIHEGEGVAAKALESMGISLDAVRQEV 65

Query: 144 LNLLGKSDLFFFSPERPPLTEQAQRALDWAFNEKLKSGESGEITTNHLLLGIWSEKESAG 203
             ++G+      +    P T +A++ L+ +  E L+ G    I T  LLLG+  E E   
Sbjct: 66  EEIIGQGSQ--PTTGHIPFTPRAKKVLELSLREGLQMG-HKYIGTEFLLLGLIREGEGVA 122

Query: 204 HKILATLGFNDEKAKE 219
            ++L  LG +  + ++
Sbjct: 123 AQVLVKLGADLPRVRQ 138
>3fh2_A Probable ATP-dependent protease (heat shock prote; struct genomics, PSI2, MCSG, protein structure initiative; 1.60A {Corynebacterium glutamicum} Length = 146 Back     alignment and structure
>3fh2_A Probable ATP-dependent protease (heat shock prote; struct genomics, PSI2, MCSG, protein structure initiative; 1.60A {Corynebacterium glutamicum} Length = 146 Back     alignment and structure
>2y1q_A CLPC N-domain, negative regulator of genetic competence CLPC/MEC; transcription, proteolysis; 1.50A {Bacillus subtilis} PDB: 2y1r_A* 2k77_A Length = 150 Back     alignment and structure
>2y1q_A CLPC N-domain, negative regulator of genetic competence CLPC/MEC; transcription, proteolysis; 1.50A {Bacillus subtilis} PDB: 2y1r_A* 2k77_A Length = 150 Back     alignment and structure
>3fes_A ATP-dependent CLP endopeptidase; alpha-helical bundles, structural genomics, PSI-2, protein S initiative; HET: PG4 EPE; 1.82A {Clostridium difficile} Length = 145 Back     alignment and structure
>3fes_A ATP-dependent CLP endopeptidase; alpha-helical bundles, structural genomics, PSI-2, protein S initiative; HET: PG4 EPE; 1.82A {Clostridium difficile} Length = 145 Back     alignment and structure
>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis} Length = 758 Back     alignment and structure
>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis} Length = 758 Back     alignment and structure
>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis} Length = 758 Back     alignment and structure
>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis} Length = 468 Back     alignment and structure
>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis} Length = 468 Back     alignment and structure
>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X* Length = 758 Back     alignment and structure
>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X* Length = 758 Back     alignment and structure
>1k6k_A ATP-dependent CLP protease ATP-binding subunit CLPA; chaperone, ATPase, adaptor binding, X-RAY, structure, N-domain, hydrolase; 1.80A {Escherichia coli} SCOP: a.174.1.1 PDB: 1r6c_X 1r6o_A* 1r6q_A* 1mg9_B* 1lzw_B* 1mbx_A* 1mbv_A 1mbu_A* Length = 143 Back     alignment and structure
>1k6k_A ATP-dependent CLP protease ATP-binding subunit CLPA; chaperone, ATPase, adaptor binding, X-RAY, structure, N-domain, hydrolase; 1.80A {Escherichia coli} SCOP: a.174.1.1 PDB: 1r6c_X 1r6o_A* 1r6q_A* 1mg9_B* 1lzw_B* 1mbx_A* 1mbv_A 1mbu_A* Length = 143 Back     alignment and structure
>3zri_A CLPB protein, CLPV; chaperone, HSP100 proteins, AAA+ proteins, T6SS, secretion,; 1.80A {Vibrio cholerae} PDB: 3zrj_A Length = 171 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query233
3fh2_A146 Probable ATP-dependent protease (heat shock prote; 99.97
3fes_A145 ATP-dependent CLP endopeptidase; alpha-helical bun 99.97
1khy_A148 CLPB protein; alpha helix, chaperone; 1.95A {Esche 99.97
2y1q_A150 CLPC N-domain, negative regulator of genetic compe 99.97
1k6k_A143 ATP-dependent CLP protease ATP-binding subunit CLP 99.94
3pxg_A 468 Negative regulator of genetic competence CLPC/MEC; 99.94
3zri_A171 CLPB protein, CLPV; chaperone, HSP100 proteins, AA 99.94
3pxi_A 758 Negative regulator of genetic competence CLPC/MEC; 99.93
1r6b_X 758 CLPA protein; AAA+, N-terminal domain, CLPS, cryst 99.86
1qvr_A 854 CLPB protein; coiled coil, AAA ATPase, chaperone; 99.85
3fh2_A146 Probable ATP-dependent protease (heat shock prote; 99.12
3fes_A145 ATP-dependent CLP endopeptidase; alpha-helical bun 99.08
1khy_A148 CLPB protein; alpha helix, chaperone; 1.95A {Esche 99.04
2y1q_A150 CLPC N-domain, negative regulator of genetic compe 99.01
3zri_A171 CLPB protein, CLPV; chaperone, HSP100 proteins, AA 99.0
1k6k_A143 ATP-dependent CLP protease ATP-binding subunit CLP 98.83
3pxg_A 468 Negative regulator of genetic competence CLPC/MEC; 98.61
3pxi_A 758 Negative regulator of genetic competence CLPC/MEC; 98.48
1qvr_A 854 CLPB protein; coiled coil, AAA ATPase, chaperone; 98.34
1r6b_X 758 CLPA protein; AAA+, N-terminal domain, CLPS, cryst 98.23
1f1e_A154 Histone fold protein; archaeal histone protein, DN 94.55
2jss_A192 Chimera of histone H2B.1 and histone H2A.Z; histon 81.74
>3fh2_A Probable ATP-dependent protease (heat shock prote; struct genomics, PSI2, MCSG, protein structure initiative; 1.60A {Corynebacterium glutamicum} Back     alignment and structure
Probab=99.97  E-value=1.2e-30  Score=209.34  Aligned_cols=144  Identities=30%  Similarity=0.456  Sum_probs=135.0

Q ss_pred             CCchhhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCChHHHHHHHcCCCHHHHHHHHHHHhCCCCCCCCCCCC
Q 026790           80 DKIPKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLGKSDLFFFSPER  159 (233)
Q Consensus        80 ~~~~rfT~~a~~vl~~A~~eA~~~~~~~I~~eHLLlaLL~e~~~~a~~iL~~~Gvd~~~lr~~l~~~L~~~~~~~~~~~~  159 (233)
                      .||++||++++++|..|+++|++++|++|+|||||+||+.++++.+.++|+++|+|++.++++++..+++.+..  .+..
T Consensus         2 ~m~~~~t~~~~~~l~~A~~~A~~~~~~~i~~eHLLlaLl~~~~~~~~~iL~~~gv~~~~l~~~l~~~l~~~~~~--~~~~   79 (146)
T 3fh2_A            2 AMFERFTDRARRVIVLAQEEARMLNHNYIGTEHILLGLIHEGEGVAAKALESMGISLDAVRQEVEEIIGQGSQP--TTGH   79 (146)
T ss_dssp             GGGGGBCHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHHCCSHHHHHHHHTTCCHHHHHHHHHHHHCCCSCC--CCSC
T ss_pred             chhhhcCHHHHHHHHHHHHHHHHcCCCCchHHHHHHHHHhCCCChHHHHHHHcCCCHHHHHHHHHHHhccCCCC--CcCC
Confidence            36899999999999999999999999999999999999999999999999999999999999999999987753  3456


Q ss_pred             CcCCHHHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHhhCCCchHHHHHHhCCCCHHHHHHHHHHhcC
Q 026790          160 PPLTEQAQRALDWAFNEKLKSGESGEITTNHLLLGIWSEKESAGHKILATLGFNDEKAKEIAKSINE  226 (233)
Q Consensus       160 ~~~S~~~~kvLe~A~~~A~~~g~~~~I~teHLLLALl~~~~~~~~~iL~~lGvd~~~l~~~i~~~~~  226 (233)
                      +++|+.++++|+.|+.+|.++|+ +||++||||+||++++++.+.++|+++|||++++++.+..+.|
T Consensus        80 ~~~s~~~~~vL~~A~~~a~~~~~-~~i~~eHlLlall~~~~~~a~~iL~~~gv~~~~l~~~l~~~~g  145 (146)
T 3fh2_A           80 IPFTPRAKKVLELSLREGLQMGH-KYIGTEFLLLGLIREGEGVAAQVLVKLGADLPRVRQQVIQLLS  145 (146)
T ss_dssp             CCBCHHHHHHHHHHHHHHHHTTC-SSBCHHHHHHHHHHHCSSHHHHHHHHHTCCHHHHHHHHHHHHC
T ss_pred             CcCCHHHHHHHHHHHHHHHHcCC-CcCcHHHHHHHHHhCCCcHHHHHHHHcCCCHHHHHHHHHHHhc
Confidence            89999999999999999999999 9999999999999988888999999999999999999887664
>3fes_A ATP-dependent CLP endopeptidase; alpha-helical bundles, structural genomics, PSI-2, protein S initiative; HET: PG4 EPE; 1.82A {Clostridium difficile} Back     alignment and structure
>1khy_A CLPB protein; alpha helix, chaperone; 1.95A {Escherichia coli} SCOP: a.174.1.1 Back     alignment and structure
>2y1q_A CLPC N-domain, negative regulator of genetic competence CLPC/MEC; transcription, proteolysis; 1.50A {Bacillus subtilis} PDB: 2y1r_A* 2k77_A Back     alignment and structure
>1k6k_A ATP-dependent CLP protease ATP-binding subunit CLPA; chaperone, ATPase, adaptor binding, X-RAY, structure, N-domain, hydrolase; 1.80A {Escherichia coli} SCOP: a.174.1.1 PDB: 1r6c_X 1r6o_A* 1r6q_A* 1mg9_B* 1lzw_B* 1mbx_A* 1mbv_A 1mbu_A* Back     alignment and structure
>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis} Back     alignment and structure
>3zri_A CLPB protein, CLPV; chaperone, HSP100 proteins, AAA+ proteins, T6SS, secretion,; 1.80A {Vibrio cholerae} PDB: 3zrj_A Back     alignment and structure
>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis} Back     alignment and structure
>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X* Back     alignment and structure
>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 Back     alignment and structure
>3fh2_A Probable ATP-dependent protease (heat shock prote; struct genomics, PSI2, MCSG, protein structure initiative; 1.60A {Corynebacterium glutamicum} Back     alignment and structure
>3fes_A ATP-dependent CLP endopeptidase; alpha-helical bundles, structural genomics, PSI-2, protein S initiative; HET: PG4 EPE; 1.82A {Clostridium difficile} Back     alignment and structure
>1khy_A CLPB protein; alpha helix, chaperone; 1.95A {Escherichia coli} SCOP: a.174.1.1 Back     alignment and structure
>2y1q_A CLPC N-domain, negative regulator of genetic competence CLPC/MEC; transcription, proteolysis; 1.50A {Bacillus subtilis} PDB: 2y1r_A* 2k77_A Back     alignment and structure
>3zri_A CLPB protein, CLPV; chaperone, HSP100 proteins, AAA+ proteins, T6SS, secretion,; 1.80A {Vibrio cholerae} PDB: 3zrj_A Back     alignment and structure
>1k6k_A ATP-dependent CLP protease ATP-binding subunit CLPA; chaperone, ATPase, adaptor binding, X-RAY, structure, N-domain, hydrolase; 1.80A {Escherichia coli} SCOP: a.174.1.1 PDB: 1r6c_X 1r6o_A* 1r6q_A* 1mg9_B* 1lzw_B* 1mbx_A* 1mbv_A 1mbu_A* Back     alignment and structure
>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis} Back     alignment and structure
>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis} Back     alignment and structure
>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 Back     alignment and structure
>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X* Back     alignment and structure
>1f1e_A Histone fold protein; archaeal histone protein, DNA binding protein; HET: MSE; 1.37A {Methanopyrus kandleri} SCOP: a.22.1.2 Back     alignment and structure
>2jss_A Chimera of histone H2B.1 and histone H2A.Z; histone/chaperone complex, intrinsically unfolded protein, chaperone/structural protein complex; NMR {Saccharomyces cerevisiae} SCOP: a.22.1.1 a.22.1.1 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 233
d1khya_139 a.174.1.1 (A:) N-terminal domain of ClpB (heat sho 1e-12
d1khya_139 a.174.1.1 (A:) N-terminal domain of ClpB (heat sho 7e-04
d1qvra1145 a.174.1.1 (A:4-148) N-terminal domain of ClpB (hea 8e-09
d1qvra1145 a.174.1.1 (A:4-148) N-terminal domain of ClpB (hea 0.002
d1k6ka_142 a.174.1.1 (A:) N-terminal, ClpS-binding domain of 1e-06
d1k6ka_142 a.174.1.1 (A:) N-terminal, ClpS-binding domain of 4e-04
>d1khya_ a.174.1.1 (A:) N-terminal domain of ClpB (heat shock protein F84.1) {Escherichia coli [TaxId: 562]} Length = 139 Back     information, alignment and structure

class: All alpha proteins
fold: Double Clp-N motif
superfamily: Double Clp-N motif
family: Double Clp-N motif
domain: N-terminal domain of ClpB (heat shock protein F84.1)
species: Escherichia coli [TaxId: 562]

 Score = 60.9 bits (147), Expect = 1e-12
 Identities = 21/143 (14%), Positives = 48/143 (33%), Gaps = 5/143 (3%)

Query: 84  KWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREET 143
           + + +   + A A+  A             +  +L +   + +  L + GI   ++R + 
Sbjct: 2   RLTNKFQLALADAQSLALGHDNQFIEPLHLMSALLNQEGGSVSPLLTSAGINAGQLRTDI 61

Query: 144 LNLLGKSDLFFFSPERPPLTEQAQRALDWAFNEKLKSGESGEITTNHLLLGIWSEKESAG 203
              L +      +      ++   R L+       K G++  I++   +L    E     
Sbjct: 62  NQALNRLPQVEGTGGDVQPSQDLVRVLNLCDKLAQKRGDN-FISSELFVLAAL-ESRGTL 119

Query: 204 HKILATLGFNDEKAKEIAKSINE 226
             IL   G        I ++I +
Sbjct: 120 ADILKAAGATTAN---ITQAIEQ 139
>d1khya_ a.174.1.1 (A:) N-terminal domain of ClpB (heat shock protein F84.1) {Escherichia coli [TaxId: 562]} Length = 139 Back     information, alignment and structure
>d1qvra1 a.174.1.1 (A:4-148) N-terminal domain of ClpB (heat shock protein F84.1) {Thermus thermophilus [TaxId: 274]} Length = 145 Back     information, alignment and structure
>d1qvra1 a.174.1.1 (A:4-148) N-terminal domain of ClpB (heat shock protein F84.1) {Thermus thermophilus [TaxId: 274]} Length = 145 Back     information, alignment and structure
>d1k6ka_ a.174.1.1 (A:) N-terminal, ClpS-binding domain of ClpA, an Hsp100 chaperone {Escherichia coli [TaxId: 562]} Length = 142 Back     information, alignment and structure
>d1k6ka_ a.174.1.1 (A:) N-terminal, ClpS-binding domain of ClpA, an Hsp100 chaperone {Escherichia coli [TaxId: 562]} Length = 142 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 ?
Query233
d1khya_139 N-terminal domain of ClpB (heat shock protein F84. 99.96
d1qvra1145 N-terminal domain of ClpB (heat shock protein F84. 99.95
d1k6ka_142 N-terminal, ClpS-binding domain of ClpA, an Hsp100 99.93
d1khya_139 N-terminal domain of ClpB (heat shock protein F84. 98.94
d1qvra1145 N-terminal domain of ClpB (heat shock protein F84. 98.93
d1k6ka_142 N-terminal, ClpS-binding domain of ClpA, an Hsp100 98.87
d1f1ea_151 Archaeal histone {Archaeon Methanopyrus kandleri [ 88.38
d1tzya_106 Histone H2A {Chicken (Gallus gallus), erythrocytes 85.94
d1u35c1106 macro-H2A.1, histone domain {Human (Homo sapiens) 85.83
d1u35c1106 macro-H2A.1, histone domain {Human (Homo sapiens) 83.82
d1tzya_106 Histone H2A {Chicken (Gallus gallus), erythrocytes 83.73
d1f66c_103 Histone H2A {Human (Homo sapiens), variant H2A.Z [ 81.02
>d1khya_ a.174.1.1 (A:) N-terminal domain of ClpB (heat shock protein F84.1) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
class: All alpha proteins
fold: Double Clp-N motif
superfamily: Double Clp-N motif
family: Double Clp-N motif
domain: N-terminal domain of ClpB (heat shock protein F84.1)
species: Escherichia coli [TaxId: 562]

Probab=99.96  E-value=5.4e-29  Score=195.19  Aligned_cols=139  Identities=13%  Similarity=0.101  Sum_probs=125.3

Q ss_pred             hhhcHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHhhcCCChHHHHHHHcCCCHHHHHHHHHHHhCCCCCCCCCCCCCcC
Q 026790           83 PKWSARAIRSFAMAELEARKLKYPNTGTEAFLMGILVEGTSTTAKFLRANGITLFKVREETLNLLGKSDLFFFSPERPPL  162 (233)
Q Consensus        83 ~rfT~~a~~vl~~A~~eA~~~~~~~I~~eHLLlaLL~e~~~~a~~iL~~~Gvd~~~lr~~l~~~L~~~~~~~~~~~~~~~  162 (233)
                      +|||++++++|..|+.+|++++|++|+|+|||++||.++++.+..+|+.+|+|.+.++.++...+...+...+.+..+++
T Consensus         1 ~kfT~~~~~~l~~A~~~A~~~~h~~v~~eHlL~all~~~~~~~~~iL~~~g~d~~~~~~~~~~~l~~~p~~~~~~~~~~~   80 (139)
T d1khya_           1 DRLTNKFQLALADAQSLALGHDNQFIEPLHLMSALLNQEGGSVSPLLTSAGINAGQLRTDINQALNRLPQVEGTGGDVQP   80 (139)
T ss_dssp             CCBCHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHTCTTCSHHHHHHHHTCCHHHHHHHHHHHHTTSCCC-------CB
T ss_pred             CccCHHHHHHHHHHHHHHHHcCCCcccHHHHHHHHHhCcccHHHHHHHHcCCcHHHHHHHHHHHhhccccccCccccccc
Confidence            48999999999999999999999999999999999999999999999999999999999999999988776545567899


Q ss_pred             CHHHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHhhCCCchHHHHHHhCCCCHHHHHHHHHH
Q 026790          163 TEQAQRALDWAFNEKLKSGESGEITTNHLLLGIWSEKESAGHKILATLGFNDEKAKEIAKS  223 (233)
Q Consensus       163 S~~~~kvLe~A~~~A~~~g~~~~I~teHLLLALl~~~~~~~~~iL~~lGvd~~~l~~~i~~  223 (233)
                      |++++++|+.|..+|..+|+ +||++||||+||+++ ++.+.++|+++||+++.+++.+++
T Consensus        81 s~~~~~vl~~A~~~a~~~~d-~~I~~ehlLlall~~-~~~~~~~L~~~gi~~~~l~~~i~~  139 (139)
T d1khya_          81 SQDLVRVLNLCDKLAQKRGD-NFISSELFVLAALES-RGTLADILKAAGATTANITQAIEQ  139 (139)
T ss_dssp             CHHHHHHHHHHHHHHHHHTC-SSBCHHHHHHHHHTS-CHHHHHHHHHTTCCHHHHHHHHHC
T ss_pred             cHHHHHHHHHHHHHHHHcCC-CeecHHHHHHHHHcC-CcHHHHHHHHcCCCHHHHHHHhcC
Confidence            99999999999999999999 999999999999975 567889999999999999998863
>d1qvra1 a.174.1.1 (A:4-148) N-terminal domain of ClpB (heat shock protein F84.1) {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1k6ka_ a.174.1.1 (A:) N-terminal, ClpS-binding domain of ClpA, an Hsp100 chaperone {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1khya_ a.174.1.1 (A:) N-terminal domain of ClpB (heat shock protein F84.1) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1qvra1 a.174.1.1 (A:4-148) N-terminal domain of ClpB (heat shock protein F84.1) {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1k6ka_ a.174.1.1 (A:) N-terminal, ClpS-binding domain of ClpA, an Hsp100 chaperone {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]} Back     information, alignment and structure
>d1tzya_ a.22.1.1 (A:) Histone H2A {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]} Back     information, alignment and structure
>d1u35c1 a.22.1.1 (C:814-919) macro-H2A.1, histone domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1u35c1 a.22.1.1 (C:814-919) macro-H2A.1, histone domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1tzya_ a.22.1.1 (A:) Histone H2A {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]} Back     information, alignment and structure
>d1f66c_ a.22.1.1 (C:) Histone H2A {Human (Homo sapiens), variant H2A.Z [TaxId: 9606]} Back     information, alignment and structure