Citrus Sinensis ID: 032554

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-------14
MGELEARKLKHPTTGTEAILMGILVEGTSLAAKFLWANGVTLFKVRDESVKIVGKGDFFFFSPEHPPLTEDAQRVIDWAVDHKLKSGNSGEVTASDLLLGIWSETDSPGHKILAALGFSDEKAKELESLSSEPGSVDD
cHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHHccccHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHccccHHHHHHHHHHHcccccccc
cHHHHHHHcccccccHHHHHHHHHHcccHHHHHHHHHccccHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHcccccHHHHHHHHccccHHHHHHHHHHccccccccc
mgelearklkhpttgtEAILMGILVEGTSLAAKFLWANGVTLFKVRDEsvkivgkgdffffspehppltedaQRVIDWAVDhklksgnsgevtasDLLLGiwsetdspgHKILAALGFSDEKAKELEslssepgsvdd
mgelearklkhpttgteAILMGILVEGTSLAAKFLWANGVTLFKVRDESVKIVGKGDFFFFSPEHPPLTEDAQRVIDWAVDHKlksgnsgevTASDLLLGIWSETDSPGHKILAALGFSDEKAKeleslssepgsvdd
MGELEARKLKHPTTGTEAILMGILVEGTSLAAKFLWANGVTLFKVRDESVKIVGKGDFFFFSPEHPPLTEDAQRVIDWAVDHKLKSGNSGEVTASDLLLGIWSETDSPGHKILAALGFSDEKAKeleslssePGSVDD
***************TEAILMGILVEGTSLAAKFLWANGVTLFKVRDESVKIVGKGDFFFFSPEHPPLTEDAQRVIDWAVDHKLKSGNSGEVTASDLLLGIWSETDSPGHKILAAL**********************
MGELEARKLKHPTTGTEAILMGILVEGTSLAAKFLWANGVTLFKVRDESVK******************EDAQRVIDWAVDHKLKSGNSGEVTASDLLLGIWSETDSPGHKILAALGFSDEKA***************
**********HPTTGTEAILMGILVEGTSLAAKFLWANGVTLFKVRDESVKIVGKGDFFFFSPEHPPLTEDAQRVIDWAVDHKLKSGNSGEVTASDLLLGIWSETDSPGHKILAALGFSDEK****************
MGELEARKLKHPTTGTEAILMGILVEGTSLAAKFLWANGVTLFKVRDESVKIVGKGDFFFFSPEHPPLTEDAQRVIDWAVDHKLKSGNSGEVTASDLLLGIWSETDSPGHKILAALGFSDEKAKELESLSS*******
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MGELEARKLKHPTTGTEAILMGILVEGTSLAAKFLWANGVTLFKVRDESVKIVGKGDFFFFSPEHPPLTEDAQRVIDWAVDHKLKSGNSGEVTASDLLLGIWSETDSPGHKILAALGFSDEKAKELESLSSEPGSVDD
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 ?
Query138 2.2.26 [Sep-21-2011]
Q8GW78241 Clp protease-related prot yes no 1.0 0.572 0.681 6e-52
Q9TM05 854 ATP-dependent Clp proteas N/A no 0.818 0.132 0.381 1e-11
O78410 819 ATP-dependent Clp proteas yes no 0.876 0.147 0.338 5e-11
P37571 810 Negative regulator of gen yes no 0.949 0.161 0.340 8e-10
Q8EU05 809 Chaperone protein ClpB OS yes no 0.876 0.149 0.328 2e-09
Q1XDF4 821 ATP-dependent Clp proteas N/A no 0.826 0.138 0.324 2e-09
P51332 821 ATP-dependent Clp proteas N/A no 0.826 0.138 0.324 2e-09
P0A522 848 Probable ATP-dependent Cl yes no 0.818 0.133 0.330 2e-09
P0A523 848 Probable ATP-dependent Cl yes no 0.818 0.133 0.330 2e-09
P24428 848 Probable ATP-dependent Cl yes no 0.818 0.133 0.330 4e-09
>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 =  202 bits (513), Expect = 6e-52,   Method: Compositional matrix adjust.
 Identities = 94/138 (68%), Positives = 116/138 (84%)

Query: 1   MGELEARKLKHPTTGTEAILMGILVEGTSLAAKFLWANGVTLFKVRDESVKIVGKGDFFF 60
           MGELEARKLK+P TGTEA+LMGIL+EGTS  +KFL AN + L+KVR+E+VK++GK D +F
Sbjct: 104 MGELEARKLKYPNTGTEALLMGILIEGTSFTSKFLRANKIMLYKVREETVKLLGKADMYF 163

Query: 61  FSPEHPPLTEDAQRVIDWAVDHKLKSGNSGEVTASDLLLGIWSETDSPGHKILAALGFSD 120
           FSPEHPPLTEDAQR +D A+D  LK+G  GEV  + +LLGIWSE +SPGHKILA LGF+D
Sbjct: 164 FSPEHPPLTEDAQRALDSALDQNLKAGGIGEVMPAHILLGIWSEVESPGHKILATLGFTD 223

Query: 121 EKAKELESLSSEPGSVDD 138
           EK+KELES +SE G +D+
Sbjct: 224 EKSKELESFASESGFLDE 241

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|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|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
>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|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|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

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 ?
Query138
224058653160 predicted protein [Populus trichocarpa] 0.992 0.856 0.722 5e-54
224125070161 predicted protein [Populus trichocarpa] 0.992 0.850 0.724 3e-53
388506850230 unknown [Lotus japonicus] 1.0 0.6 0.710 3e-52
356495627220 PREDICTED: clp protease-related protein 1.0 0.627 0.695 1e-51
147837826231 hypothetical protein VITISV_006813 [Viti 0.913 0.545 0.746 4e-50
359490173231 PREDICTED: clp protease-related protein 0.913 0.545 0.746 4e-50
18413740 241 Double Clp-N motif protein [Arabidopsis 1.0 0.572 0.681 5e-50
21592785 241 unknown [Arabidopsis thaliana] 1.0 0.572 0.673 9e-50
297813723 244 hypothetical protein ARALYDRAFT_911590 [ 1.0 0.565 0.673 2e-49
255633360149 unknown [Glycine max] 0.978 0.906 0.688 2e-48
>gi|224058653|ref|XP_002299586.1| predicted protein [Populus trichocarpa] gi|222846844|gb|EEE84391.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
 Score =  215 bits (547), Expect = 5e-54,   Method: Compositional matrix adjust.
 Identities = 99/137 (72%), Positives = 121/137 (88%)

Query: 1   MGELEARKLKHPTTGTEAILMGILVEGTSLAAKFLWANGVTLFKVRDESVKIVGKGDFFF 60
           M ELEARKLK  TTGTEA+L+GIL+EGTS+AAK+LWANG+T+FKVR+E++K++GK D ++
Sbjct: 23  MAELEARKLKFATTGTEALLLGILIEGTSVAAKYLWANGITVFKVREETIKVLGKADMYY 82

Query: 61  FSPEHPPLTEDAQRVIDWAVDHKLKSGNSGEVTASDLLLGIWSETDSPGHKILAALGFSD 120
           F PE PPLT+DAQ+V+DWA+DHKLKSG  GEVT SDLLLGIWSE + PGHKILA LGF+D
Sbjct: 83  FPPERPPLTDDAQKVLDWALDHKLKSGYGGEVTTSDLLLGIWSEVECPGHKILAVLGFND 142

Query: 121 EKAKELESLSSEPGSVD 137
           EKAKELE+ SS PG +D
Sbjct: 143 EKAKELEASSSGPGFID 159

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224125070|ref|XP_002329884.1| predicted protein [Populus trichocarpa] gi|222871121|gb|EEF08252.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|388506850|gb|AFK41491.1| unknown [Lotus japonicus] Back     alignment and taxonomy information
>gi|356495627|ref|XP_003516676.1| PREDICTED: clp protease-related protein At4g12060, chloroplastic [Glycine max] Back     alignment and taxonomy information
>gi|147837826|emb|CAN60931.1| hypothetical protein VITISV_006813 [Vitis vinifera] Back     alignment and taxonomy information
>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|18413740|ref|NP_567386.1| Double Clp-N motif protein [Arabidopsis thaliana] gi|75150907|sp|Q8GW78.1|CLP41_ARATH RecName: Full=Clp protease-related protein At4g12060, chloroplastic; Flags: Precursor gi|26453060|dbj|BAC43606.1| unknown protein [Arabidopsis thaliana] gi|332657692|gb|AEE83092.1| Double Clp-N motif protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|21592785|gb|AAM64734.1| unknown [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|297813723|ref|XP_002874745.1| hypothetical protein ARALYDRAFT_911590 [Arabidopsis lyrata subsp. lyrata] gi|297320582|gb|EFH51004.1| hypothetical protein ARALYDRAFT_911590 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|255633360|gb|ACU17037.1| unknown [Glycine max] 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 ?
Query138
TAIR|locus:2118066241 AT4G12060 "AT4G12060" [Arabido 1.0 0.572 0.637 9.1e-45
TAIR|locus:2138048238 AT4G25370 "AT4G25370" [Arabido 0.898 0.521 0.685 4e-42
UNIPROTKB|Q3A9N1 811 CHY_2348 "Negative regulator o 0.963 0.163 0.323 2.6e-11
TIGR_CMR|CHY_2348 811 CHY_2348 "negative regulator o 0.963 0.163 0.323 2.6e-11
TAIR|locus:2157383 929 CLPC1 "CLPC homologue 1" [Arab 0.826 0.122 0.358 5.1e-11
TAIR|locus:2099433 952 HSP93-III [Arabidopsis thalian 0.826 0.119 0.358 8.6e-11
UNIPROTKB|Q724I0 820 LMOf2365_0244 "ClpC ATPase" [L 0.869 0.146 0.322 2.4e-10
UNIPROTKB|P0A522 848 clpC "Probable ATP-dependent C 0.818 0.133 0.330 1.4e-09
UNIPROTKB|Q81VV9 811 BAS0081 "Negative regulator of 0.869 0.147 0.330 7.5e-09
TIGR_CMR|BA_0080 811 BA_0080 "negative regulator of 0.869 0.147 0.330 7.5e-09
TAIR|locus:2118066 AT4G12060 "AT4G12060" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 471 (170.9 bits), Expect = 9.1e-45, P = 9.1e-45
 Identities = 88/138 (63%), Positives = 109/138 (78%)

Query:     1 MGELEARKLKHPTTGTEAILMGILVEGTSLAAKFLWANGVTLFKVRDESVKIVGKGDFFF 60
             MGELEARKLK+P TGTEA+LMGIL+EGTS  +KFL AN + L+KVR+E+VK++GK D +F
Sbjct:   104 MGELEARKLKYPNTGTEALLMGILIEGTSFTSKFLRANKIMLYKVREETVKLLGKADMYF 163

Query:    61 FSPEHPPLTEDAQRVIDWAVDHKLKSGNSGEVTASDLLLGIWSETDSPGHKILAALGFSD 120
             FSPEHPPLTEDAQR +D A+D  LK+G  GEV  + +LLGIWSE +SPGHKILA LGF+D
Sbjct:   164 FSPEHPPLTEDAQRALDSALDQNLKAGGIGEVMPAHILLGIWSEVESPGHKILATLGFTD 223

Query:   121 EKAKXXXXXXXXPGSVDD 138
             EK+K         G +D+
Sbjct:   224 EKSKELESFASESGFLDE 241
GO:0005524 "ATP binding" evidence=ISS
GO:0009507 "chloroplast" evidence=ISM;IDA
GO:0019538 "protein metabolic process" evidence=IEA
GO:0009941 "chloroplast envelope" evidence=IDA
GO:0009532 "plastid stroma" evidence=IDA
GO:0009570 "chloroplast stroma" evidence=IDA
GO:0043424 "protein histidine kinase binding" evidence=IPI
GO:0006569 "tryptophan catabolic process" evidence=RCA
GO:0009684 "indoleacetic acid biosynthetic process" evidence=RCA
TAIR|locus:2138048 AT4G25370 "AT4G25370" [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

Your Input:
gw1.I.9317.1
hypothetical protein (138 aa)
(Populus trichocarpa)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

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 ?
Query138
CHL00095 821 CHL00095, clpC, Clp protease ATP binding subunit 5e-13
COG0542 786 COG0542, clpA, ATP-binding subunits of Clp proteas 2e-08
pfam0286153 pfam02861, Clp_N, Clp amino terminal domain 2e-06
CHL00095 821 CHL00095, clpC, Clp protease ATP binding subunit 0.002
>gnl|CDD|214361 CHL00095, clpC, Clp protease ATP binding subunit Back     alignment and domain information 
 Score = 64.3 bits (157), Expect = 5e-13
 Identities = 40/113 (35%), Positives = 61/113 (53%), Gaps = 3/113 (2%)

Query: 5   EARKLKHPTTGTEAILMGILVEGTSLAAKFLWANGVTLFKVRDESVKIVGKGDFFFFSPE 64
           EAR+L H   GTE IL+G++ EGT +AA+ L + GVTL   R E  KI+G+G  F     
Sbjct: 19  EARRLGHNFVGTEQILLGLIGEGTGIAARALKSMGVTLKDARIEVEKIIGRGTGFVAV-- 76

Query: 65  HPPLTEDAQRVIDWAVDHKLKSGNSGEVTASDLLLGIWSETDSPGHKILAALG 117
             P T  A+RV++ ++  + +      +    LLL +  E +    ++L  LG
Sbjct: 77  EIPFTPRAKRVLEMSL-EEARDLGHNYIGTEHLLLALLEEGEGVAARVLENLG 128

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|214361 CHL00095, clpC, Clp protease ATP binding subunit Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 138
TIGR03346 852 chaperone_ClpB ATP-dependent chaperone ClpB. Membe 99.85
CHL00095 821 clpC Clp protease ATP binding subunit 99.84
TIGR02639 731 ClpA ATP-dependent Clp protease ATP-binding subuni 99.82
PRK10865 857 protein disaggregation chaperone; Provisional 99.81
COG0542 786 clpA ATP-binding subunits of Clp protease and DnaK 99.8
TIGR03345 852 VI_ClpV1 type VI secretion ATPase, ClpV1 family. M 99.79
PRK11034 758 clpA ATP-dependent Clp protease ATP-binding subuni 99.71
PF0286153 Clp_N: Clp amino terminal domain; InterPro: IPR004 99.53
KOG1051 898 consensus Chaperone HSP104 and related ATP-depende 99.52
PF0286153 Clp_N: Clp amino terminal domain; InterPro: IPR004 99.35
TIGR03346 852 chaperone_ClpB ATP-dependent chaperone ClpB. Membe 98.51
CHL00095 821 clpC Clp protease ATP binding subunit 98.48
TIGR03345 852 VI_ClpV1 type VI secretion ATPase, ClpV1 family. M 98.45
TIGR02639 731 ClpA ATP-dependent Clp protease ATP-binding subuni 98.28
PRK10865 857 protein disaggregation chaperone; Provisional 98.26
COG0542 786 clpA ATP-binding subunits of Clp protease and DnaK 98.06
PRK11034 758 clpA ATP-dependent Clp protease ATP-binding subuni 97.97
KOG1051 898 consensus Chaperone HSP104 and related ATP-depende 97.34
PLN00154136 histone H2A; Provisional 86.69
PTZ00017134 histone H2A; Provisional 86.32
cd00074115 H2A Histone 2A; H2A is a subunit of the nucleosome 86.08
PLN00157132 histone H2A; Provisional 83.99
PLN00153129 histone H2A; Provisional 83.63
PLN00156139 histone H2AX; Provisional 83.09
smart00414106 H2A Histone 2A. 82.98
KOG0871156 consensus Class 2 transcription repressor NC2, bet 82.11
KOG1756131 consensus Histone 2A [Chromatin structure and dyna 80.96
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB Back     alignment and domain information 
Probab=99.85  E-value=3.4e-20  Score=155.51  Aligned_cols=129  Identities=19%  Similarity=0.178  Sum_probs=115.4

Q ss_pred             hHHHHHhcCCCCcCHHHHHHHHhhcCCcHHHHHHHHCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCCCHHHHHHHHHHHH
Q 032554            2 GELEARKLKHPTTGTEAILMGILVEGTSLAAKFLWANGVTLFKVRDESVKIVGKGDFFFFSPEHPPLTEDAQRVIDWAVD   81 (138)
Q Consensus         2 A~~~A~~~~~~~i~~eHlLlall~~~~~~~~~il~~~g~~~~~l~~~l~~~l~~~~~~~~~~~~~~~S~~l~~~l~~A~~   81 (138)
                      |+.+|.+++|.+|++||||++|+.++++.+.++|+++|+|++.++..+++.+++.|...+.++.+.+|+.++++|+.|+.
T Consensus        12 A~~~A~~~~h~~V~~EHLLlaLl~~~~g~a~~iL~~~Gvd~~~l~~~l~~~l~~~~~~~~~~~~~~~S~~~~~vLe~A~~   91 (852)
T TIGR03346        12 AQSLALGRDHQQIEPEHLLKALLDQEGGLARRLLQKAGVNVGALRQALEKELEKLPKVSGPGGQVYLSPELNRLLNLAEK   91 (852)
T ss_pred             HHHHHHHcCCCcccHHHHHHHHHhCCccHHHHHHHHcCCCHHHHHHHHHHHhcccccCCCCCCCCCcCHHHHHHHHHHHH
Confidence            78899999999999999999999999889999999999999999999999998766532222457899999999999999


Q ss_pred             HHHhcCCCCCCCHHHHHHHHhcCCCcHHHHHHHHcCCCHHHHHHHHHhhcC
Q 032554           82 HKLKSGNSGEVTASDLLLGIWSETDSPGHKILAALGFSDEKAKELESLSSE  132 (138)
Q Consensus        82 ~A~~~~~~~~I~~~hlLlall~~~~~~~~~~l~~~gi~~~~l~~~i~~~r~  132 (138)
                      +|..+++ .+|+++|||+||+.++++ +..+|..+|++.+.+.+.+..+++
T Consensus        92 ~A~~~g~-~~I~teHLLlALl~e~~~-a~~iL~~~gi~~~~l~~~l~~~~~  140 (852)
T TIGR03346        92 LAQKRGD-EFISSEHLLLALLDDKGT-LGKLLKEAGATADALEAAINAVRG  140 (852)
T ss_pred             HHHHcCC-CcccHHHHHHHHHcCCcc-HHHHHHHcCCCHHHHHHHHHhhcc
Confidence            9999999 999999999999998765 578999999999999999877654

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
>CHL00095 clpC Clp protease ATP binding subunit 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
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family Back     alignment and domain information
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional 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
>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
>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
>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
>PLN00154 histone H2A; Provisional Back     alignment and domain information
>PTZ00017 histone H2A; Provisional Back     alignment and domain information
>cd00074 H2A Histone 2A; H2A is a subunit of the nucleosome Back     alignment and domain information
>PLN00157 histone H2A; Provisional Back     alignment and domain information
>PLN00153 histone H2A; Provisional Back     alignment and domain information
>PLN00156 histone H2AX; Provisional Back     alignment and domain information
>smart00414 H2A Histone 2A Back     alignment and domain information
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription] Back     alignment and domain information
>KOG1756 consensus Histone 2A [Chromatin structure and dynamics] 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 ?
Query138
2y1r_A149 Structure Of Meca121 & Clpc N-Domain Complex Length 3e-11
2k77_A146 Nmr Solution Structure Of The Bacillus Subtilis Clp 3e-11
3fh2_A146 The Crystal Structure Of The Probable Atp-Dependent 4e-11
3pxi_A 758 Structure Of Meca108:clpc Length = 758 2e-10
2y1q_A150 Crystal Structure Of Clpc N-Terminal Domain Length 2e-10
3pxg_A 468 Structure Of Meca121 And Clpc1-485 Complex Length = 1e-09
3fes_A145 Crystal Structure Of The Atp-Dependent Clp Protease 7e-04
>pdb|2Y1R|A Chain A, Structure Of Meca121 & Clpc N-Domain Complex Length = 149 Back     alignment and structure 
Iteration: 1

 Score = 63.9 bits (154), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 41/120 (34%), Positives = 66/120 (55%), Gaps = 4/120 (3%)
Query: 5   EARKLKHPTTGTEAILMGILVEGTSLAAKFLWANGVTLFKVRDESVKIVGKGDFFFFSPE 64
           EA +L H   GTE IL+G++ EG  +AAK L A G+   K++ E   ++G+G     +  
Sbjct: 20  EALRLGHNNIGTEHILLGLVREGEGIAAKALQALGLGSEKIQKEVESLIGRGQEMSQTIH 79
Query: 65  HPPLTEDAQRVIDWAVDHKLKSGNSGEVTASDLLLGIWSETDSPGHKILAALGFSDEKAK 124
           + P    A++VI+ ++D   K G+S  V    +LLG+  E +    ++L  LG S  KA+
Sbjct: 80  YTP---RAKKVIELSMDEARKLGHS-YVGTEHILLGLIREGEGVAARVLNNLGVSLNKAR 135
>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|3PXI|A Chain A, Structure Of Meca108:clpc Length = 758 Back     alignment and structure
>pdb|2Y1Q|A Chain A, Crystal Structure Of Clpc N-Terminal Domain Length = 150 Back     alignment and structure
>pdb|3PXG|A Chain A, Structure Of Meca121 And Clpc1-485 Complex Length = 468 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 ?
Query138
3fh2_A146 Probable ATP-dependent protease (heat shock prote; 4e-24
3fh2_A146 Probable ATP-dependent protease (heat shock prote; 6e-09
2y1q_A150 CLPC N-domain, negative regulator of genetic compe 5e-21
2y1q_A150 CLPC N-domain, negative regulator of genetic compe 1e-09
3fes_A145 ATP-dependent CLP endopeptidase; alpha-helical bun 4e-20
3fes_A145 ATP-dependent CLP endopeptidase; alpha-helical bun 1e-09
3pxi_A 758 Negative regulator of genetic competence CLPC/MEC; 1e-19
3pxi_A 758 Negative regulator of genetic competence CLPC/MEC; 6e-09
1r6b_X 758 CLPA protein; AAA+, N-terminal domain, CLPS, cryst 3e-18
1r6b_X 758 CLPA protein; AAA+, N-terminal domain, CLPS, cryst 1e-05
3pxg_A 468 Negative regulator of genetic competence CLPC/MEC; 3e-18
3pxg_A 468 Negative regulator of genetic competence CLPC/MEC; 4e-09
1k6k_A143 ATP-dependent CLP protease ATP-binding subunit CLP 7e-13
>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 = 89.7 bits (223), Expect = 4e-24
 Identities = 40/121 (33%), Positives = 67/121 (55%), Gaps = 3/121 (2%)

Query: 5   EARKLKHPTTGTEAILMGILVEGTSLAAKFLWANGVTLFKVRDESVKIVGKGDFFFFSPE 64
           EAR L H   GTE IL+G++ EG  +AAK L + G++L  VR E  +I+G+G     +  
Sbjct: 21  EARMLNHNYIGTEHILLGLIHEGEGVAAKALESMGISLDAVRQEVEEIIGQGS--QPTTG 78

Query: 65  HPPLTEDAQRVIDWAVDHKLKSGNSGEVTASDLLLGIWSETDSPGHKILAALGFSDEKAK 124
           H P T  A++V++ ++   L+ G+   +    LLLG+  E +    ++L  LG    + +
Sbjct: 79  HIPFTPRAKKVLELSLREGLQMGHK-YIGTEFLLLGLIREGEGVAAQVLVKLGADLPRVR 137

Query: 125 E 125
           +
Sbjct: 138 Q 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
>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
>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
>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
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query138
3fh2_A146 Probable ATP-dependent protease (heat shock prote; 99.98
1khy_A148 CLPB protein; alpha helix, chaperone; 1.95A {Esche 99.97
3fes_A145 ATP-dependent CLP endopeptidase; alpha-helical bun 99.97
2y1q_A150 CLPC N-domain, negative regulator of genetic compe 99.97
1k6k_A143 ATP-dependent CLP protease ATP-binding subunit CLP 99.95
3pxg_A 468 Negative regulator of genetic competence CLPC/MEC; 99.94
3zri_A171 CLPB protein, CLPV; chaperone, HSP100 proteins, AA 99.93
3pxi_A 758 Negative regulator of genetic competence CLPC/MEC; 99.92
1r6b_X 758 CLPA protein; AAA+, N-terminal domain, CLPS, cryst 99.87
1qvr_A 854 CLPB protein; coiled coil, AAA ATPase, chaperone; 99.86
3fh2_A146 Probable ATP-dependent protease (heat shock prote; 99.36
3fes_A145 ATP-dependent CLP endopeptidase; alpha-helical bun 99.31
1khy_A148 CLPB protein; alpha helix, chaperone; 1.95A {Esche 99.26
2y1q_A150 CLPC N-domain, negative regulator of genetic compe 99.24
3zri_A171 CLPB protein, CLPV; chaperone, HSP100 proteins, AA 99.23
1k6k_A143 ATP-dependent CLP protease ATP-binding subunit CLP 99.07
3pxg_A 468 Negative regulator of genetic competence CLPC/MEC; 98.92
3pxi_A 758 Negative regulator of genetic competence CLPC/MEC; 98.79
1qvr_A 854 CLPB protein; coiled coil, AAA ATPase, chaperone; 98.65
1r6b_X 758 CLPA protein; AAA+, N-terminal domain, CLPS, cryst 98.49
1f1e_A154 Histone fold protein; archaeal histone protein, DN 94.59
2f8n_G120 Core histone macro-H2A.1; nucleosome, NCP, macroh2 86.09
2nqb_C123 Histone H2A; nucleosome, NCP, chromatin, structura 86.07
1id3_C131 Histone H2A.1; nucleosome core particle, chromatin 85.8
1tzy_A129 Histone H2A-IV; histone-fold, tetramer-dimer-dimer 85.56
1f66_C128 Histone H2A.Z; nucleosome, chromatin, histone vari 85.44
1tzy_D103 Histone H4-VI; histone-fold, tetramer-dimer-dimer, 82.44
2yfw_B103 Histone H4, H4; cell cycle, kinetochore, centromer 82.27
2f8n_K149 Histone H2A type 1; nucleosome, NCP, macroh2A, his 82.16
>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=99.98  E-value=4.4e-31  Score=178.64  Aligned_cols=129  Identities=31%  Similarity=0.435  Sum_probs=121.6

Q ss_pred             hHHHHHhcCCCCcCHHHHHHHHhhcCCcHHHHHHHHCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCCCHHHHHHHHHHHH
Q 032554            2 GELEARKLKHPTTGTEAILMGILVEGTSLAAKFLWANGVTLFKVRDESVKIVGKGDFFFFSPEHPPLTEDAQRVIDWAVD   81 (138)
Q Consensus         2 A~~~A~~~~~~~i~~eHlLlall~~~~~~~~~il~~~g~~~~~l~~~l~~~l~~~~~~~~~~~~~~~S~~l~~~l~~A~~   81 (138)
                      |+++|.+++|++|+|||||++|++++++.+.++|+++|+|++.+++.+++.+++.|...  ++.|++|+.++++|+.|+.
T Consensus        18 A~~~A~~~~~~~i~~eHLLlaLl~~~~~~~~~iL~~~gv~~~~l~~~l~~~l~~~~~~~--~~~~~~s~~~~~vL~~A~~   95 (146)
T 3fh2_A           18 AQEEARMLNHNYIGTEHILLGLIHEGEGVAAKALESMGISLDAVRQEVEEIIGQGSQPT--TGHIPFTPRAKKVLELSLR   95 (146)
T ss_dssp             HHHHHHHTTCSSBCHHHHHHHHHHHCCSHHHHHHHHTTCCHHHHHHHHHHHHCCCSCCC--CSCCCBCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCchHHHHHHHHHhCCCChHHHHHHHcCCCHHHHHHHHHHHhccCCCCC--cCCCcCCHHHHHHHHHHHH
Confidence            78999999999999999999999998899999999999999999999999999888642  4568999999999999999


Q ss_pred             HHHhcCCCCCCCHHHHHHHHhcCCCcHHHHHHHHcCCCHHHHHHHHHhhcCC
Q 032554           82 HKLKSGNSGEVTASDLLLGIWSETDSPGHKILAALGFSDEKAKELESLSSEP  133 (138)
Q Consensus        82 ~A~~~~~~~~I~~~hlLlall~~~~~~~~~~l~~~gi~~~~l~~~i~~~r~~  133 (138)
                      +|+++++ +||+++|||+||++++++.+.++|+.+|++++.+++.+.++++|
T Consensus        96 ~a~~~~~-~~i~~eHlLlall~~~~~~a~~iL~~~gv~~~~l~~~l~~~~g~  146 (146)
T 3fh2_A           96 EGLQMGH-KYIGTEFLLLGLIREGEGVAAQVLVKLGADLPRVRQQVIQLLSG  146 (146)
T ss_dssp             HHHHTTC-SSBCHHHHHHHHHHHCSSHHHHHHHHHTCCHHHHHHHHHHHHCC
T ss_pred             HHHHcCC-CcCcHHHHHHHHHhCCCcHHHHHHHHcCCCHHHHHHHHHHHhcC
Confidence            9999999 99999999999999888899999999999999999999999875
>1khy_A CLPB protein; alpha helix, chaperone; 1.95A {Escherichia coli} SCOP: a.174.1.1 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
>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
>2f8n_G Core histone macro-H2A.1; nucleosome, NCP, macroh2A, histone variant, chromatin, X- RAY structure, crystallography, structural protein/DNA complex; 2.90A {Homo sapiens} SCOP: a.22.1.1 PDB: 1u35_C Back     alignment and structure
>2nqb_C Histone H2A; nucleosome, NCP, chromatin, structural protein/DNA complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_C* Back     alignment and structure
>1id3_C Histone H2A.1; nucleosome core particle, chromatin, protein/DNA interaction, nucleoprotein, supercoiled DNA; 3.10A {Saccharomyces cerevisiae} SCOP: a.22.1.1 Back     alignment and structure
>1tzy_A Histone H2A-IV; histone-fold, tetramer-dimer-dimer, DNA binding protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB: 1eqz_A 1hq3_A 2aro_A 2hio_A 3c9k_A 3azg_C 3a6n_C 3an2_C 3av1_C 3av2_C 3ayw_C 3aze_C 3azf_C 3afa_C 3azh_C 3azi_C 3azj_C 3azk_C 3azl_C 3azm_C ... Back     alignment and structure
>1f66_C Histone H2A.Z; nucleosome, chromatin, histone variant, protein DNA interaction, nucleoprotein, supercoiled DNA, complex (nucleosome core/DNA); 2.60A {Homo sapiens} SCOP: a.22.1.1 Back     alignment and structure
>1tzy_D Histone H4-VI; histone-fold, tetramer-dimer-dimer, DNA binding protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB: 1f66_B 1eqz_D 1hq3_D 1u35_B 2aro_D 2cv5_B* 2f8n_B 3nqu_B 3r45_B 3azg_B 3a6n_B 3an2_B 3av1_B 3av2_B 3ayw_B 3aze_B 3azf_B 3afa_B 3azh_B 3azk_B ... Back     alignment and structure
>2yfw_B Histone H4, H4; cell cycle, kinetochore, centromere, histone chaperone, BUDD; 2.60A {Kluyveromyces lactis nrrl y-1140} Back     alignment and structure
>2f8n_K Histone H2A type 1; nucleosome, NCP, macroh2A, histone variant, chromatin, X- RAY structure, crystallography, structural protein/DNA complex; 2.90A {Mus musculus} SCOP: 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 138
d1khya_139 a.174.1.1 (A:) N-terminal domain of ClpB (heat sho 3e-12
d1k6ka_142 a.174.1.1 (A:) N-terminal, ClpS-binding domain of 3e-08
d1qvra1145 a.174.1.1 (A:4-148) N-terminal domain of ClpB (hea 1e-06
>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 = 57.8 bits (139), Expect = 3e-12
 Identities = 16/121 (13%), Positives = 44/121 (36%), Gaps = 2/121 (1%)

Query: 5   EARKLKHPTTGTEAILMGILVEGTSLAAKFLWANGVTLFKVRDESVKIVGKGDFFFFSPE 64
            A    +       ++  +L +     +  L + G+   ++R +  + + +      +  
Sbjct: 17  LALGHDNQFIEPLHLMSALLNQEGGSVSPLLTSAGINAGQLRTDINQALNRLPQVEGTGG 76

Query: 65  HPPLTEDAQRVIDWAVDHKLKSGNSGEVTASDLLLGIWSETDSPGHKILAALGFSDEKAK 124
               ++D  RV++       K G++  +++   +L    E+      IL A G +     
Sbjct: 77  DVQPSQDLVRVLNLCDKLAQKRGDN-FISSELFVLAAL-ESRGTLADILKAAGATTANIT 134

Query: 125 E 125
           +
Sbjct: 135 Q 135
>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
>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

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query138
d1qvra1145 N-terminal domain of ClpB (heat shock protein F84. 99.97
d1khya_139 N-terminal domain of ClpB (heat shock protein F84. 99.96
d1k6ka_142 N-terminal, ClpS-binding domain of ClpA, an Hsp100 99.94
d1khya_139 N-terminal domain of ClpB (heat shock protein F84. 99.26
d1qvra1145 N-terminal domain of ClpB (heat shock protein F84. 99.21
d1k6ka_142 N-terminal, ClpS-binding domain of ClpA, an Hsp100 98.93
d1tzya_106 Histone H2A {Chicken (Gallus gallus), erythrocytes 90.48
d1u35c1106 macro-H2A.1, histone domain {Human (Homo sapiens) 88.31
d1f1ea_151 Archaeal histone {Archaeon Methanopyrus kandleri [ 88.0
d1f66c_103 Histone H2A {Human (Homo sapiens), variant H2A.Z [ 85.73
d1q9ca_172 Histone domain of Son of sevenless protein {Human 84.19
d1htaa_68 Archaeal histone {Archaeon Methanothermus fervidus 83.61
d1u35c1106 macro-H2A.1, histone domain {Human (Homo sapiens) 80.65
>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
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: Thermus thermophilus [TaxId: 274]

Probab=99.97  E-value=5.8e-30  Score=171.47  Aligned_cols=127  Identities=15%  Similarity=0.047  Sum_probs=116.8

Q ss_pred             hHHHHHhcCCCCcCHHHHHHHHhhcCCcHHHHHHHHCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCCCHHHHHHHHHHHH
Q 032554            2 GELEARKLKHPTTGTEAILMGILVEGTSLAAKFLWANGVTLFKVRDESVKIVGKGDFFFFSPEHPPLTEDAQRVIDWAVD   81 (138)
Q Consensus         2 A~~~A~~~~~~~i~~eHlLlall~~~~~~~~~il~~~g~~~~~l~~~l~~~l~~~~~~~~~~~~~~~S~~l~~~l~~A~~   81 (138)
                      |+++|.+++|++|+|+|||++||+++++.+..+|+++|+|++.++..++..+.+.|+..+.+..+++|+.+.++|+.|+.
T Consensus        14 A~~~A~~~~~~~i~~~HlL~all~~~~~~~~~iL~~~gvd~~~l~~~l~~~l~~~p~~~~~~~~~~~s~~l~~il~~A~~   93 (145)
T d1qvra1          14 AQVLAQRMKHQAIDLPHLWAVLLKDERSLAWRLLEKAGADPKALKELQERELARLPKVEGAEVGQYLTSRLSGALNRAEG   93 (145)
T ss_dssp             HHHHHHHTTCSEECHHHHHHHHCCSSSSHHHHHHHTTSSCHHHHHHHHHHHHHTSCCCCGGGTTCEECHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCcccHHHHHHHHHcCCcchHHHHHHHcCCCHHHHHHHHHHHhhcccccCCCcccCCCCHHHHHHHHHHHH
Confidence            78899999999999999999999999999999999999999999999999999999865445568899999999999999


Q ss_pred             HHHhcCCCCCCCHHHHHHHHhcCCCcHHHHHHHHcCCCHHHHHHHHHhhcCCCCCCC
Q 032554           82 HKLKSGNSGEVTASDLLLGIWSETDSPGHKILAALGFSDEKAKELESLSSEPGSVDD  138 (138)
Q Consensus        82 ~A~~~~~~~~I~~~hlLlall~~~~~~~~~~l~~~gi~~~~l~~~i~~~r~~~~~~~  138 (138)
                      +|+++|+ +||+++|||+||+++.++         +.+.+.+++.+.++|+|++||+
T Consensus        94 ~a~~~gd-~~Is~ehLllal~~~~~~---------~~~l~~l~~~i~~~R~g~~v~s  140 (145)
T d1qvra1          94 LMEELKD-RYVAVDTLVLALAEATPG---------LPGLEALKGALKELRGGRTVQT  140 (145)
T ss_dssp             HHHTTTC-SSCCHHHHHHHHHHHSTT---------SCCHHHHHHHHTSSCSCCSSCS
T ss_pred             HHHHcCC-ccccHHHHHHHHHhcccc---------hhhHHHHHHHHHHHHCCCCCCC
Confidence            9999999 999999999999987643         4466889999999999999985
>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
>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
>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
>d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]} 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
>d1q9ca_ a.22.1.3 (A:) Histone domain of Son of sevenless protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1htaa_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanothermus fervidus, histone A [TaxId: 2180]} 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