Citrus Sinensis ID: 034685

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80-------
Protein Sequence
MEEPTAKGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFDTYQ
Secondary Structure (PSIPRED)
ccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHcccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHccccEEEccHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
meeptakgtvtslssmfSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEelhhgimassfwksSIFSWAFDTYQ
Flexible Loop (DISEMBL)
meeptakgtvtslssmfsvDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFDTYQ
Low Complexity Region (SEG)
MEEPTAKGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFDTYQ
Disordered region (IsUnstruct)
*****************************************RVKEFISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFDT**
Disordered Region (DISOPRED)
***********SLSSMFSVDD******************LERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFDT**
Disordered Region (DISEMBL)
***********SLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFDTYQ
Disordered Region (DISPRO)
*************SSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFDTYQ
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MEEPTAKGTVTSLSSMFSxxxxxxxxxxxxxxxxxxxxxxxxVKEFISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFDTYQ
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	87
449475773	375	PREDICTED: uncharacterized LOC101205427	0.896	0.208	0.620	2e-19
449444368	375	PREDICTED: uncharacterized protein LOC10	0.896	0.208	0.607	4e-19
225446402	340	PREDICTED: uncharacterized protein LOC10	0.885	0.226	0.582	1e-18
302143310	393	unnamed protein product [Vitis vinifera]	0.793	0.175	0.628	3e-18
356544982	374	PREDICTED: unconventional prefoldin RPB5	0.896	0.208	0.544	4e-17
255553697	346	conserved hypothetical protein [Ricinus	0.885	0.222	0.531	6e-16
297848594	399	prefoldin subunit family protein [Arabid	0.873	0.190	0.493	2e-14
4204311	275	Hypothetical protein [Arabidopsis thalia	0.850	0.269	0.480	2e-12
30678662	391	Prefoldin chaperone subunit family prote	0.850	0.189	0.480	2e-12
147857220	340	hypothetical protein VITISV_012794 [Viti	0.643	0.164	0.596	2e-11

>gi|449475773|ref|XP_004154547.1| PREDICTED: uncharacterized LOC101205427 [Cucumis sativus]

 Score =  100 bits (248), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 49/79 (62%), Positives = 60/79 (75%), Gaps = 1/79 (1%)

Query: 1  MEEPTAKGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60
          ME    KGTVTSLSS+F   D +KAA RVQDA+ EKQ+ELE+++ FI+DN NLI LVQKL
Sbjct: 1  MESGRVKGTVTSLSSLFPAQDARKAASRVQDAISEKQRELEQLRGFITDNDNLIKLVQKL 60

Query: 61 PEELHHGIMASSFWKSSIF 79
          PEELHH +M   F K++ F
Sbjct: 61 PEELHHEVMV-PFGKAAFF 78

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449444368|ref|XP_004139947.1| PREDICTED: uncharacterized protein LOC101205427 [Cucumis sativus]

 Score = 99.0 bits (245), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 48/79 (60%), Positives = 60/79 (75%), Gaps = 1/79 (1%)

Query: 1  MEEPTAKGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60
          ME    KGTVTSL+S+F   D +KAA RVQDA+ EKQ+ELE+++ FI+DN NLI LVQKL
Sbjct: 1  MESGRVKGTVTSLASLFPAQDARKAASRVQDAISEKQRELEQLRGFITDNDNLIKLVQKL 60

Query: 61 PEELHHGIMASSFWKSSIF 79
          PEELHH +M   F K++ F
Sbjct: 61 PEELHHEVMV-PFGKAAFF 78

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225446402|ref|XP_002274667.1| PREDICTED: uncharacterized protein LOC100254110 [Vitis vinifera]

 Score = 97.4 bits (241), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 46/79 (58%), Positives = 63/79 (79%), Gaps = 2/79 (2%)

Query: 1  MEEPTAKGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60
          M+EP  KGTVT L+S+F  ++ QKA+KRVQDAL ++Q EL+R++ FI+DNT L+NLVQ+L
Sbjct: 1  MQEPV-KGTVTPLASLFPPEEAQKASKRVQDALADRQSELDRLQGFIADNTALVNLVQRL 59

Query: 61 PEELHHGIMASSFWKSSIF 79
          P+ELHH IM   F K++ F
Sbjct: 60 PDELHHDIMV-PFGKAAFF 77

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302143310|emb|CBI21871.3| unnamed protein product [Vitis vinifera]

 Score = 95.9 bits (237), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 44/70 (62%), Positives = 59/70 (84%), Gaps = 1/70 (1%)

Query: 1  MEEPTAKGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60
          M+EP  KGTVT L+S+F  ++ QKA+KRVQDAL ++Q EL+R++ FI+DNT L+NLVQ+L
Sbjct: 1  MQEPV-KGTVTPLASLFPPEEAQKASKRVQDALADRQSELDRLQGFIADNTALVNLVQRL 59

Query: 61 PEELHHGIMA 70
          P+ELHH IMA
Sbjct: 60 PDELHHDIMA 69

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356544982|ref|XP_003540925.1| PREDICTED: unconventional prefoldin RPB5 interactor-like [Glycine max]

 Score = 92.0 bits (227), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 43/79 (54%), Positives = 61/79 (77%), Gaps = 1/79 (1%)

Query: 1  MEEPTAKGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60
          M+E T KG+VTSL+S+F V++ Q+AAKRV+D + +KQ EL+R++ F +DN +LINLV KL
Sbjct: 1  MDESTKKGSVTSLASLFPVEEAQRAAKRVEDTIADKQSELDRLRGFATDNNSLINLVHKL 60

Query: 61 PEELHHGIMASSFWKSSIF 79
          PE+L H IM   F K++ F
Sbjct: 61 PEQLSHDIMV-PFGKAAFF 78

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255553697|ref|XP_002517889.1| conserved hypothetical protein [Ricinus communis] gi|223542871|gb|EEF44407.1| conserved hypothetical protein [Ricinus communis]

 Score = 88.2 bits (217), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 42/79 (53%), Positives = 60/79 (75%), Gaps = 2/79 (2%)

Query: 1  MEEPTAKGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60
          MEE + KGTVTS +S+F V++  KAAKRV++A+ EKQ EL  + +FI+DN NLINL+ +L
Sbjct: 1  MEE-SRKGTVTSFASIFPVNEAHKAAKRVEEAISEKQNELVSLNQFIADNNNLINLITRL 59

Query: 61 PEELHHGIMASSFWKSSIF 79
          P++LHH +M   F K++ F
Sbjct: 60 PDQLHHDVMV-PFGKAAFF 77

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297848594|ref|XP_002892178.1| prefoldin subunit family protein [Arabidopsis lyrata subsp. lyrata] gi|297338020|gb|EFH68437.1| prefoldin subunit family protein [Arabidopsis lyrata subsp. lyrata]

 Score = 82.8 bits (203), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 38/77 (49%), Positives = 58/77 (75%), Gaps = 1/77 (1%)

Query: 3  EPTAKGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPE 62
          EP AKGTVT L+S+FS ++ +KAA  V++ + EK+ E+ R+++F+ +N NLINLV+KLP+
Sbjct: 2  EPPAKGTVTPLASLFSEEEARKAASYVEEKIGEKRVEMNRLQQFVDENDNLINLVKKLPD 61

Query: 63 ELHHGIMASSFWKSSIF 79
          +LHH +M   F K + F
Sbjct: 62 QLHHNVMV-PFGKMAFF 77

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|4204311|gb|AAD10692.1| Hypothetical protein [Arabidopsis thaliana]

 Score = 76.6 bits (187), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 37/77 (48%), Positives = 56/77 (72%), Gaps = 3/77 (3%)

Query: 3  EPTAKGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPE 62
          EP AKGTVT L   FS +DV+KAA  +++ + EK+ E+ R+++++ +N NLINLV+KLP+
Sbjct: 2  EPPAKGTVTPLG--FSEEDVRKAASYMEEKIGEKRVEMNRLQQYVDENDNLINLVKKLPD 59

Query: 63 ELHHGIMASSFWKSSIF 79
          +LHH +M   F K + F
Sbjct: 60 QLHHNVMV-PFGKMAFF 75

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30678662|ref|NP_171872.2| Prefoldin chaperone subunit family protein [Arabidopsis thaliana] gi|26452470|dbj|BAC43320.1| unknown protein [Arabidopsis thaliana] gi|28973459|gb|AAO64054.1| unknown protein [Arabidopsis thaliana] gi|332189486|gb|AEE27607.1| Prefoldin chaperone subunit family protein [Arabidopsis thaliana]

 Score = 76.3 bits (186), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 37/77 (48%), Positives = 56/77 (72%), Gaps = 3/77 (3%)

Query: 3  EPTAKGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPE 62
          EP AKGTVT L   FS +DV+KAA  +++ + EK+ E+ R+++++ +N NLINLV+KLP+
Sbjct: 2  EPPAKGTVTPLG--FSEEDVRKAASYMEEKIGEKRVEMNRLQQYVDENDNLINLVKKLPD 59

Query: 63 ELHHGIMASSFWKSSIF 79
          +LHH +M   F K + F
Sbjct: 60 QLHHNVMV-PFGKMAFF 75

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147857220|emb|CAN79217.1| hypothetical protein VITISV_012794 [Vitis vinifera]

 Score = 72.8 bits (177), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 34/57 (59%), Positives = 47/57 (82%), Gaps = 1/57 (1%)

Query: 1  MEEPTAKGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLV 57
          M+EP  KGTVT L+S+F  ++ QKA+KRVQDAL ++Q EL+R++ FI+DNT L+NLV
Sbjct: 1  MQEPV-KGTVTPLASLFPPEEAQKASKRVQDALADRQSELDRLQGFIADNTALVNLV 56

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	87
TAIR|locus:2024188	391	AT1G03760 [Arabidopsis thalian	0.850	0.189	0.480	6e-14

TAIR|locus:2024188 AT1G03760 [Arabidopsis thaliana (taxid:3702)]

 Score = 186 (70.5 bits), Expect = 6.0e-14, P = 6.0e-14
 Identities = 37/77 (48%), Positives = 56/77 (72%)

Query:     3 EPTAKGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPE 62
             EP AKGTVT L   FS +DV+KAA  +++ + EK+ E+ R+++++ +N NLINLV+KLP+
Sbjct:     2 EPPAKGTVTPLG--FSEEDVRKAASYMEEKIGEKRVEMNRLQQYVDENDNLINLVKKLPD 59

Query:    63 ELHHGIMASSFWKSSIF 79
             +LHH +M   F K + F
Sbjct:    60 QLHHNVMVP-FGKMAFF 75


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.314   0.126   0.350    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0       87        87   0.00091  102 3  11 23  0.47    29
                                                     29  0.48    30


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  1
  No. of states in DFA:  525 (56 KB)
  Total size of DFA:  105 KB (2073 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  15.62u 0.13s 15.75t   Elapsed:  00:00:01
  Total cpu time:  15.62u 0.13s 15.75t   Elapsed:  00:00:01
  Start:  Thu May  9 23:13:48 2013   End:  Thu May  9 23:13:49 2013

GO:0005634 "nucleus" evidence=ISM

GO:0006457 "protein folding" evidence=IEA;ISS

GO:0016272 "prefoldin complex" evidence=IEA;ISS

GO:0051082 "unfolded protein binding" evidence=IEA

GO:0009560 "embryo sac egg cell differentiation" evidence=RCA

GO:0048573 "photoperiodism, flowering" evidence=RCA

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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!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: gw1.64.634.1 annotation not avaliable (210 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	87
KOG3130	514	consensus Uncharacterized conserved protein [Funct	99.68
cd00584	129	Prefoldin_alpha Prefoldin alpha subunit; Prefoldin	98.87
PF02996	120	Prefoldin: Prefoldin subunit; InterPro: IPR004127	98.78
TIGR00293	126	prefoldin, archaeal alpha subunit/eukaryotic subun	98.43
cd00890	129	Prefoldin Prefoldin is a hexameric molecular chape	98.39
PRK14011	144	prefoldin subunit alpha; Provisional	98.05
PRK01203	130	prefoldin subunit alpha; Provisional	98.0
PRK03947	140	prefoldin subunit alpha; Reviewed	97.89
COG1730	145	GIM5 Predicted prefoldin, molecular chaperone impl	97.28
KOG3048	153	consensus Molecular chaperone Prefoldin, subunit 5	93.67
PF01920	106	Prefoldin_2: Prefoldin subunit; InterPro: IPR00277	90.01
PF14131	90	DUF4298: Domain of unknown function (DUF4298)	89.31
PF09278	65	MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015	85.76
PF13234	268	rRNA_proc-arch: rRNA-processing arch domain; PDB:	82.6
PF04340	225	DUF484: Protein of unknown function, DUF484; Inter	82.49

>KOG3130 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.68  E-value=3.9e-17  Score=135.24  Aligned_cols=61  Identities=18%  Similarity=0.134  Sum_probs=57.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcccccccccccccccccccccc
Q 034685           24 KAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFDT   85 (87)
Q Consensus        24 ~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~AfmPG~Lv~   85 (87)
                      +..++..+|+..|+.++++|+.|.+||+++++||.+||+|||++||| |||++|||||+||.
T Consensus         3 r~~~e~~~a~~~~~~ete~~~~v~~dye~~~erl~~~~kkLs~~Imv-pig~~a~mpG~lVh   63 (514)
T KOG3130|consen    3 RYVAECNAAKARLEVETECRKKVDNDYEALRERLSTLPKKLSYNIMV-PIGPFAFMPGKLVH   63 (514)
T ss_pred             hHHHHHHHHHHHhHHHHHHHHHHhhhHHHHHHHHHHhhhhcccceee-ecccccccccceee
Confidence            45677889999999999999999999999999999999999999999 99999999999984

>cd00584 Prefoldin_alpha Prefoldin alpha subunit; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly

Probab=98.87  E-value=6.6e-09  Score=70.21  Aligned_cols=65  Identities=15%  Similarity=0.200  Sum_probs=60.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchh-hcccccccccccccccccccccc
Q 034685           20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPE-ELHHGIMASSFWKSSIFSWAFDT   85 (87)
Q Consensus        20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPd-kLsh~IMV~PfGk~AfmPG~Lv~   85 (87)
                      +++......+++-+...+++++.|+...+||+.+++.|+.|++ +-++++|| |+|..+|+||+++.
T Consensus         2 ~~l~~~~~~l~~~i~~l~~~~~~l~~~~~e~~~~~~~l~~l~~~~~~~~~lv-plg~~~~~~~~i~~   67 (129)
T cd00584           2 EQLAAQLQVLQQEIEELQQELARLNEAIAEYEQAKETLETLKKADEGKETLV-PLGAGVFVKAKVKD   67 (129)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCeEEE-ECCCCeEEeEEeCC
Confidence            4667788899999999999999999999999999999999988 78999999 99999999998863

The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.

>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits

Probab=98.78  E-value=2.2e-09  Score=70.93  Aligned_cols=54  Identities=19%  Similarity=0.268  Sum_probs=47.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchh-hccccccccccccccccccccc
Q 034685           30 QDALLEKQQELERVKEFISDNTNLINLVQKLPE-ELHHGIMASSFWKSSIFSWAFD   84 (87)
Q Consensus        30 ~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPd-kLsh~IMV~PfGk~AfmPG~Lv   84 (87)
                      ++.+...+++++.|+...++|+.++++|..|++ +.++++|| |+|..+|+||++.
T Consensus         2 ~~~l~~l~~~~~~l~~~~~e~~~~~~~l~~l~~~~~~~~~lv-plg~~~~v~g~i~   56 (120)
T PF02996_consen    2 QEELENLQQQIEQLEEQIEEYEEAKETLEELKKEKKEHEILV-PLGSGVFVPGKIP   56 (120)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--TT-EEEE-EECTTEEEEEE-S
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCceeee-cCCCCeEEEEEeC
Confidence            345678899999999999999999999999999 99999999 9999999999984

Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.

>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5

Probab=98.43  E-value=8.6e-07  Score=59.67  Aligned_cols=65  Identities=9%  Similarity=0.129  Sum_probs=59.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcccccccccccccccccccccc
Q 034685           20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFDT   85 (87)
Q Consensus        20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~AfmPG~Lv~   85 (87)
                      ++.......+++-++..++.+.+++...++|+.+.+.|..|+++-++++|| |+|..+|+||++..
T Consensus         2 qql~~q~~ql~~~i~~l~~~i~~l~~~i~e~~~~~~~L~~l~~~~~~~~lv-~lg~~~~v~~~v~~   66 (126)
T TIGR00293         2 QQLAAELQILQQQVESLQAQIAALRALIAELETAIETLEDLKGAEGKETLV-PVGAGSFVKAKVKD   66 (126)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCeEEE-EcCCCeEEEEEeCC
Confidence            345666788999999999999999999999999999999999888899999 99999999999863

This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.

>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly

Probab=98.39  E-value=1.3e-06  Score=57.87  Aligned_cols=65  Identities=9%  Similarity=0.139  Sum_probs=59.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhccccccccccccccccccccc
Q 034685           20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFD   84 (87)
Q Consensus        20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~AfmPG~Lv   84 (87)
                      +++......+++.|...++++.+|+...++|+++++.|.+|++......|..|+|..+|+||++.
T Consensus         2 ~~l~~~~~~l~~~i~~l~~~~~~l~~~~~e~~~~~~~l~~l~~~~~~~~~l~~~g~~~~~~~~i~   66 (129)
T cd00890           2 QELAAQLQQLQQQLEALQQQLQKLEAQLTEYEKAKETLETLKKAEEEKELLVPLGAGLFVKAEVK   66 (129)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCeEEEecCCceEEEEEEC
Confidence            46777888999999999999999999999999999999999998888766559999999999985

The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.

>PRK14011 prefoldin subunit alpha; Provisional

Probab=98.05  E-value=1.6e-05  Score=57.11  Aligned_cols=57  Identities=11%  Similarity=0.099  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcccccccccccccccccccccc
Q 034685           26 AKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFDT   85 (87)
Q Consensus        26 ~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~AfmPG~Lv~   85 (87)
                      -..+++-+...++.+..++...++|.+.++.|+.+..  +.+||| |+|...|.||+|+.
T Consensus        12 l~~~~~qie~L~~si~~L~~a~~e~~~~ie~L~~l~~--~~eiLV-PLg~s~yV~g~i~d   68 (144)
T PRK14011         12 LEVYNQQVQKLQEELSSIDMMKMELLKSIESMEGLKT--SEEILI-PLGPGAFLKAKIVD   68 (144)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCC--CCeEEE-EcCCCcEEeEEecC
Confidence            3677888999999999999999999999999998874  799999 99999999999874

>PRK01203 prefoldin subunit alpha; Provisional

Probab=98.00  E-value=2.5e-05  Score=55.87  Aligned_cols=65  Identities=8%  Similarity=0.136  Sum_probs=57.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcccccccccccccccccccccc
Q 034685           20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFDT   85 (87)
Q Consensus        20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~AfmPG~Lv~   85 (87)
                      +|+..=..-+++-++..+++++.++...++|.+-++.|..+++.=..+|+| |+|..+|.||+|+.
T Consensus         3 ~~~~~~~~~~~~q~e~l~~ql~~L~~a~se~~~~ie~L~~~~~~~~~eiLV-PLg~slYV~gki~d   67 (130)
T PRK01203          3 RDVEAQLNYIESLISSVDSQIDSLNKTLSEVQQTISFLSDNELDNSKELLI-SIGSGIFADGNIKK   67 (130)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCeEEE-EccCCceEeEEecC
Confidence            455555667888999999999999999999999999999998777799999 99999999999874

>PRK03947 prefoldin subunit alpha; Reviewed

Probab=97.89  E-value=5.6e-05  Score=51.90  Aligned_cols=64  Identities=13%  Similarity=0.157  Sum_probs=56.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhh-ccccccccccccccccccccc
Q 034685           20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEE-LHHGIMASSFWKSSIFSWAFD   84 (87)
Q Consensus        20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdk-Lsh~IMV~PfGk~AfmPG~Lv   84 (87)
                      .+.......+++-+...++++.+++....++..+++.|..|+++ -+++++| |+|...|.||++.
T Consensus         9 ~~l~~~~~~l~~~~~~l~~~~~~l~~~~~e~~~~~e~l~~l~~~~~~~e~lv-plg~~~yv~~~v~   73 (140)
T PRK03947          9 EELAAQLQALQAQIEALQQQLEELQASINELDTAKETLEELKSKGEGKETLV-PIGAGSFVKAKVK   73 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCeEEE-EcCCCcEEEEEec
Confidence            34555667788899999999999999999999999999999964 6899999 9999999999984

>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]

Probab=97.28  E-value=0.0011  Score=48.03  Aligned_cols=68  Identities=9%  Similarity=0.106  Sum_probs=59.0

Q ss_pred             CChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhc-ccccccccccccccccccccc
Q 034685           17 FSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEEL-HHGIMASSFWKSSIFSWAFDT   85 (87)
Q Consensus        17 ~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkL-sh~IMV~PfGk~AfmPG~Lv~   85 (87)
                      -+++++......++.-|+..++++..++..+++++..+++|..+-..= +-+++| |.|.-+|.+|+++-
T Consensus         6 ~~le~l~a~lq~l~~qie~L~~~i~~l~~~~~e~~~~~~tl~~lk~~~~g~E~LV-pvGag~fv~~kv~~   74 (145)
T COG1730           6 QELEELAAQLQILQSQIESLQAQIAALNAAISELQTAIETLENLKGAGEGKEVLV-PVGAGLFVKAKVKD   74 (145)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCceEEE-EcCCCceEEEEecc
Confidence            356677777888899999999999999999999999999999885433 569999 99999999999863

>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]

Probab=93.67  E-value=0.55  Score=34.96  Aligned_cols=80  Identities=15%  Similarity=0.140  Sum_probs=66.8

Q ss_pred             CCCCCCCcccccccccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc-hhhcccccccccccccccc
Q 034685            1 MEEPTAKGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL-PEELHHGIMASSFWKSSIF   79 (87)
Q Consensus         1 ~~~~~~kgt~tpl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L-PdkLsh~IMV~PfGk~Afm   79 (87)
                      |.+.+.++-.|.|    |++++-.+.+...+.|.-.++-+..|....--|+.-+..|+.+ +..=.|.+.| |+-..=+.
T Consensus         1 ma~~s~~idltkL----sleQL~~lk~q~dqEl~~lq~Sl~~L~~aq~k~~~~~~aln~~~~~~eGk~~LV-PLTsSlYV   75 (153)
T KOG3048|consen    1 MAEESKGIDLTKL----SLEQLGALKKQFDQELNFLQDSLNALKGAQTKYEESIAALNDVQAANEGKKLLV-PLTSSLYV   75 (153)
T ss_pred             CCCcccCCChhhC----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCeEEE-ecccceec
Confidence            4555666665554    5889999999999999999999999999999999999999977 4556788999 99999999


Q ss_pred             cccccc
Q 034685           80 SWAFDT   85 (87)
Q Consensus        80 PG~Lv~   85 (87)
                      ||+|+-
T Consensus        76 PGkl~d   81 (153)
T KOG3048|consen   76 PGKLSD   81 (153)
T ss_pred             cceecc
Confidence            999863

>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea

Probab=90.01  E-value=2.2  Score=27.06  Aligned_cols=51  Identities=14%  Similarity=0.244  Sum_probs=42.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhccccccccccccc
Q 034685           23 QKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKS   76 (87)
Q Consensus        23 ~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~   76 (87)
                      ..-..++.+.+..+..++.+++.-.++++...+.|..+|+.  ..|+. .+|+.
T Consensus         4 ~~~~~~l~~~l~~~~~q~~~l~~~~~~~~~~~~eL~~l~~~--~~~y~-~vG~~   54 (106)
T PF01920_consen    4 QNKFQELNQQLQQLEQQIQQLERQLRELELTLEELEKLDDD--RKVYK-SVGKM   54 (106)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSTT---EEEE-EETTE
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc--chhHH-HHhHH
Confidence            34456777888899999999999999999999999999998  77777 77874

Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.

>PF14131 DUF4298: Domain of unknown function (DUF4298)

Probab=89.31  E-value=2.6  Score=27.77  Aligned_cols=50  Identities=22%  Similarity=0.319  Sum_probs=36.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH--------------hhchhhcccccc
Q 034685           20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLV--------------QKLPEELHHGIM   69 (87)
Q Consensus        20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L--------------~~LPdkLsh~IM   69 (87)
                      .+.++.-++..+.+.+..+-+++|++...+|..|.+==              ..+|+.+.+.||
T Consensus         3 ~eme~~y~~~~~~l~~le~~l~~~~~~~~~~~~L~~YY~s~~w~~d~e~~e~g~~~~~~~~gVL   66 (90)
T PF14131_consen    3 QEMEKIYNEWCELLEELEEALEKWQEAQPDYRKLRDYYGSEEWMEDYEASEQGDLPTDGKCGVL   66 (90)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCcHhHHHHHHHHhCCCCCCCcccCcc
Confidence            45667777777777888888888888887777776533              257888888887

>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR

Probab=85.76  E-value=5.3  Score=23.50  Aligned_cols=44  Identities=20%  Similarity=0.336  Sum_probs=29.4

Q ss_pred             CChhHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685           17 FSVDDVQKAA-------KRVQDALLEKQQELERVKEFISDNTNLINLVQKL   60 (87)
Q Consensus        17 ~~~~~~~~a~-------~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L   60 (87)
                      ||.+|.+...       ....+...-.+.+++++.+-+++.+.+.+.|+.|
T Consensus        15 fsL~eI~~~l~l~~~~~~~~~~~~~~l~~~~~~i~~~i~~L~~~~~~L~~l   65 (65)
T PF09278_consen   15 FSLEEIRELLELYDQGDPPCADRRALLEEKLEEIEEQIAELQALRAQLEHL   65 (65)
T ss_dssp             --HHHHHHHHHHCCSHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHhccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            7777777776       3344555566777777777888888888877754

They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....

>PF13234 rRNA_proc-arch: rRNA-processing arch domain; PDB: 4A4K_E 4A4Z_A 2XGJ_B 3L9O_A

Probab=82.60  E-value=0.69  Score=34.68  Aligned_cols=72  Identities=18%  Similarity=0.184  Sum_probs=58.2

Q ss_pred             ccCChhHHHHHHHHHHHHHHHHHHHHHHHHH----HHHhHHHHHHHHhhchhhccccccccccccccccccccccc
Q 034685           15 SMFSVDDVQKAAKRVQDALLEKQQELERVKE----FISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFDTY   86 (87)
Q Consensus        15 ~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~----~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~AfmPG~Lv~~   86 (87)
                      ..|+.-+.++..-.+++.|.+.++++..+..    -..+|-.+.+.|..+=.++..-||=++.+...+-||+||-.
T Consensus         6 rSF~qfq~~~~lP~~~~~~~~~e~~~~~i~~~~~~~v~~y~~l~~~l~~~~~~~~~~i~~p~~~~~fL~~GRlV~v   81 (268)
T PF13234_consen    6 RSFSQFQNQRKLPELEKKLKELEEELDAIKIEDEEDVEEYYDLRQELEELRKELRKIITSPKYCLPFLQPGRLVVV   81 (268)
T ss_dssp             CSHHHHHHHHHHHHHHHHHHHHHHHHHCS--TTCTCCHHHHHHHHHHHHHHHHHHHHHCTCCCHHHHS-TTEEEEE
T ss_pred             HhHHHHcccccCHHHHHHHHHHHHHHHhcccccHhHHHHHHHHHHHHHHHHHHHHHHHhCcHHHHHhCCCCCEEEE
Confidence            4577778888889999999999998887764    45678999999999999988888876788888999999854

>PF04340 DUF484: Protein of unknown function, DUF484; InterPro: IPR007435 This family consists of several proteins of uncharacterised function

Probab=82.49  E-value=5.7  Score=29.16  Aligned_cols=39  Identities=15%  Similarity=0.320  Sum_probs=34.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhch
Q 034685           23 QKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLP   61 (87)
Q Consensus        23 ~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LP   61 (87)
                      .+-..++++.+.+.+.+++++-....+|+++.+++..|-
T Consensus        46 erQ~~~LR~~~~~L~~~l~~Li~~Ar~Ne~~~~~~~~l~   84 (225)
T PF04340_consen   46 ERQLERLRERNRQLEEQLEELIENARENEAIFQRLHRLV   84 (225)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            566778889999999999999999999999999887654

; PDB: 3E98_B.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	87
1fxk_C	133	Protein (prefoldin); archaeal protein, chaperone;	98.77
2zdi_C	151	Prefoldin subunit alpha; chaperone, cytoplasm; 3.0	98.26
2zqm_A	117	Prefoldin beta subunit 1; chaperone; HET: CIT; 1.9	89.93
1fxk_A	107	Prefoldin; archaeal protein, chaperone; 2.30A {Met	84.82
3iv1_A	78	Tumor susceptibility gene 101 protein; coiled_COIL	84.54
3fx7_A	94	Putative uncharacterized protein; double helix, un	83.88
3nmd_A	72	CGMP dependent protein kinase; leucine zipper, coi	81.06

>1fxk_C Protein (prefoldin); archaeal protein, chaperone; 2.30A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: a.2.5.1

Probab=98.77  E-value=1.3e-08  Score=68.28  Aligned_cols=65  Identities=14%  Similarity=0.105  Sum_probs=60.6

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhccccccccccccccccccccc
Q 034685           19 VDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFD   84 (87)
Q Consensus        19 ~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~AfmPG~Lv   84 (87)
                      +++.......+++-+..+++++++|+...+||+.+++.|+.|+++-++++|| |+|..+|+||++.
T Consensus         3 ~~~l~~~~q~l~~~~~~l~~~~~~l~~~i~e~~~~~e~l~~l~~~~~~~~lv-plg~~~yv~a~i~   67 (133)
T 1fxk_C            3 LAEIVAQLNIYQSQVELIQQQMEAVRATISELEILEKTLSDIQGKDGSETLV-PVGAGSFIKAELK   67 (133)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCTTCEEEE-EEETTEEEEEECC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCCeEEE-EcCCCcEEEEEEC
Confidence            4567778889999999999999999999999999999999999877899999 9999999999986

>2zdi_C Prefoldin subunit alpha; chaperone, cytoplasm; 3.00A {Pyrococcus horikoshii}

Probab=98.26  E-value=8.7e-07  Score=60.95  Aligned_cols=62  Identities=15%  Similarity=0.093  Sum_probs=53.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH---HHHHHhHHHHHHHHhhchhhccccccccccccccccccccc
Q 034685           21 DVQKAAKRVQDALLEKQQELERV---KEFISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFD   84 (87)
Q Consensus        21 ~~~~a~~~~~~ai~~~~~el~~~---q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~AfmPG~Lv   84 (87)
                      ........+++-+..+.+.+.+|   +.-..||..+++.|..|++ -+++||| |+|..+|+||++.
T Consensus        13 ql~~~~qql~~~~~~l~~~~~~L~~a~~~~~e~~~~l~~l~~l~~-~~~~ilv-plg~~~yv~g~i~   77 (151)
T 2zdi_C           13 KLAYEYQVLQAQAQILAQNLELLNLAKAEVQTVRETLENLKKIEE-EKPEILV-PIGAGSFLKGVIV   77 (151)
T ss_dssp             HHHHHHHHHTTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCC-SSCEEEE-ECSSSCEEEEECS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc-CCceEEE-EcCCCeEEEEEEC
Confidence            34444566667778899999999   9999999999999999996 6799999 9999999999986

>2zqm_A Prefoldin beta subunit 1; chaperone; HET: CIT; 1.90A {Thermococcus SP} PDB: 2zdi_A

Probab=89.93  E-value=1.6  Score=27.56  Aligned_cols=49  Identities=12%  Similarity=0.190  Sum_probs=41.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhccccccccccccc
Q 034685           25 AAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKS   76 (87)
Q Consensus        25 a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~   76 (87)
                      -..++++.+....++++.++.-.++++.+.+.|..||+.  -.|.. ++|+.
T Consensus        14 ~~~~l~~~~~~l~~q~~~l~~~~~e~~~~~~eL~~l~~d--~~vy~-~iG~v   62 (117)
T 2zqm_A           14 QLESYQQQLQLVVQQKQKVQLELTEAKKALDEIESLPDD--AVVYK-TVGTL   62 (117)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSCTT--CCEEE-EETTE
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCC--cHhHH-HhhHH
Confidence            355677888999999999999999999999999999974  45788 88854

>1fxk_A Prefoldin; archaeal protein, chaperone; 2.30A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: a.2.5.1 PDB: 1fxk_B

Probab=84.82  E-value=4.9  Score=24.91  Aligned_cols=51  Identities=8%  Similarity=0.079  Sum_probs=41.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhccccccccccccc
Q 034685           23 QKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKS   76 (87)
Q Consensus        23 ~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~   76 (87)
                      ..-..++++.+....++++.++.-.++++.+.+.|..||+.  -.|.. ++|+.
T Consensus         7 i~~f~~lq~~~~~l~~q~~~l~~~~~e~~~~~~EL~~l~~d--~~vy~-~iG~v   57 (107)
T 1fxk_A            7 LAQFQQLQQQAQAISVQKQTVEMQINETQKALEELSRAADD--AEVYK-SSGNI   57 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCTT--CCEEE-EETTE
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCC--chHHH-HHhHH
Confidence            34456777888899999999999999999999999999984  44777 77864

>3iv1_A Tumor susceptibility gene 101 protein; coiled_COIL, tumorigenesis, CELL_cycle regulation, alternative splicing, cell cycle, cell division; HET: MSE; 2.50A {Homo sapiens}

Probab=84.54  E-value=2.9  Score=26.93  Aligned_cols=42  Identities=19%  Similarity=0.191  Sum_probs=35.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhc
Q 034685           23 QKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEEL   64 (87)
Q Consensus        23 ~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkL   64 (87)
                      .+++.|+++.+..++.|++.++...+|-..-...|+.+=.+|
T Consensus        10 DKLRrrl~E~~~q~qaEl~sLrrT~~EL~~G~~KL~~mi~~l   51 (78)
T 3iv1_A           10 DKLRWRMKEEMDRAQAELNALKRTEEDLKKGHQKLEEMVTRL   51 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            478899999999999999999999999988887777665444

>3fx7_A Putative uncharacterized protein; double helix, unknown function; 1.65A {Helicobacter pylori} SCOP: a.25.5.1 PDB: 2gts_A

Probab=83.88  E-value=4.9  Score=26.63  Aligned_cols=49  Identities=12%  Similarity=0.166  Sum_probs=40.8

Q ss_pred             ccCChhHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHhHHHHHHHHhhchhh
Q 034685           15 SMFSVDDVQKAAKRVQDALLEKQQELERVK---------------EFISDNTNLINLVQKLPEE   63 (87)
Q Consensus        15 ~~~~~~~~~~a~~~~~~ai~~~~~el~~~q---------------~~~~Dy~~l~~~L~~LPdk   63 (87)
                      ..+.++|+++-+..+++=.+..+++..+|.               +|.++|+.++++|+.+-+.
T Consensus         4 a~~dpeElr~Fa~~L~~F~d~Lq~~~~~L~~~f~~L~sWqDqkr~kFee~fe~l~s~l~~f~e~   67 (94)
T 3fx7_A            4 VQMDTEEVREFVGHLERFKELLREEVNSLSNHFHNLESWRDARRDKFSEVLDNLKSTFNEFDEA   67 (94)
T ss_dssp             -CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCSCCSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            357899999999999999999988887653               6888999999999887653

>3nmd_A CGMP dependent protein kinase; leucine zipper, coiled-coil, structural genomics, berkeley S genomics center, BSGC, dimerization; HET: MSE; 2.27A {Homo sapiens}

Probab=81.06  E-value=5.9  Score=25.19  Aligned_cols=48  Identities=17%  Similarity=0.289  Sum_probs=38.5

Q ss_pred             ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcc
Q 034685           18 SVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELH   65 (87)
Q Consensus        18 ~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLs   65 (87)
                      ++.+++.+..+-.+.|....+.|+.+++-.++.++.+..|+.--||+.
T Consensus        20 ti~eLq~~L~~K~eELr~kd~~I~eLEk~L~ekd~eI~~LqseLDKfr   67 (72)
T 3nmd_A           20 SLRDLQYALQEKIEELRQRDALIDELELELDQKDELIQMLQNELDKYR   67 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            366777777666666778888899999999999999999988777763

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	87
d1fxkc_	133	Prefoldin alpha subunit {Archaeon Methanobacterium	99.11

>d1fxkc_ a.2.5.1 (C:) Prefoldin alpha subunit {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: Prefoldin
family: Prefoldin
domain: Prefoldin alpha subunit
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=99.11  E-value=6e-11  Score=77.75  Aligned_cols=67  Identities=13%  Similarity=0.108  Sum_probs=62.7

Q ss_pred             ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcccccccccccccccccccccc
Q 034685           18 SVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFDT   85 (87)
Q Consensus        18 ~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~AfmPG~Lv~   85 (87)
                      +.+++......+++-|..+++++++|+...+||+.+++.|+.|+++-+++||| |+|..+|+||++..
T Consensus         2 ~L~eL~~~~~~l~~~l~~l~~~i~~l~~~~~e~~~~~~~L~~l~~~~~~e~lv-plg~~~~v~~~i~~   68 (133)
T d1fxkc_           2 ALAEIVAQLNIYQSQVELIQQQMEAVRATISELEILEKTLSDIQGKDGSETLV-PVGAGSFIKAELKD   68 (133)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCTTCEEEE-EEETTEEEEEECCS
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCeEEE-EcCCceEEEEEecC
Confidence            45678888888999999999999999999999999999999999999999999 99999999999864