Citrus Sinensis ID: 032838

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130--
Protein Sequence
MAGAKLCGGDTAFLLRSHSHSHSHFLEAATRRAAPFPGRVSSVSPNPKPSRYRILAMTVKRSPKRLKYSAPQFTKEGGLMYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR
Secondary Structure (PSIPRED)
ccccccccccccHHcccccccccHHHHHHHHHccccccccccccccccccHHHEEEEHHHccccccccccccccccccEEEEEEccccccHHcHHHHHHHHHcccEEEEcccccEEEEcccccHHHHHHHHc
Secondary Structure Prediction (SSPRO)
ccHEEEccccEEEEEccccccccccccccccccccccccccccccccccccEEEEEEEEEccccccEEccccccccccEEEEEEccccccHHHHHHHHHHHHcccEEEEEcccEEEEEEEcccHHHHHHHHc
Coil and Loop (DISEMBL)
magaklcggdtafllrshshshsHFLEAAtrraapfpgrvssvspnpkpsrYRILAMTVkrspkrlkysapqftkegglmyveadpsgadswklEPVVELLKEgavgviptdTLYAIVCDLKSHSAIERLRR
Flexible Loop (DISEMBL)
MAGAKLCGGDTAFLLRSHSHSHSHFLEAATrraapfpgrvssvspnpkpsryRILAmtvkrspkrlkysapqftkeggLMYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDlkshsaierlrr
Low Complexity Region (SEG)
MAGAKLCGGDTAFLLRshshshshFLEAATRRAAPFPGRVSSVSPNPKPSRYRILAMTVKRSPKRLKYSAPQFTKEGGLMYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR
Disordered region (IsUnstruct)
***********AFL**************************************************************GGLMYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLK**********
Disordered Region (DISOPRED)
**********TAFLLRSH*************************************************************MYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR
Disordered Region (DISEMBL)
MAGAKLCGGDTAFLLRSHSHSHSHFLEAATRRAAPFPGRVSSVSPNPKPSRYRILAMTVKRSPKRLKYSAPQFTKEGGLMYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR
Disordered Region (DISPRO)
*AGAKLCGGDTAFLLRSHS*SH**FLEAATRRAAPFPGRVSSVSPNPKPSRYRILAMTVKRSPKRLKYSAPQFTKEGGLMYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAI*R***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAGAKLCGGDTAFLLRSHSHSHSHFLEAATRRAAPFPGRVSSVSPNPKPSRYRILAMTVKRSPKRLKYSAPQFTKEGGLMYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR
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	132
118489827	313	unknown [Populus trichocarpa x Populus d	0.795	0.335	0.719	2e-36
224055737	322	predicted protein [Populus trichocarpa]	0.795	0.326	0.719	3e-36
147841978	329	hypothetical protein VITISV_012595 [Viti	0.621	0.249	0.804	6e-32
225451447	306	PREDICTED: uncharacterized protein HI_11	0.621	0.267	0.804	7e-32
255536893	326	sua5, putative [Ricinus communis] gi|223	0.734	0.297	0.727	1e-31
297832740	305	yrdC family protein [Arabidopsis lyrata	0.636	0.275	0.738	8e-31
22330801	307	putative translation factor [Arabidopsis	0.893	0.384	0.562	3e-30
6513939	297	hypothetical protein [Arabidopsis thalia	0.886	0.393	0.559	6e-30
449455846	309	PREDICTED: uncharacterized protein HI_11	0.696	0.297	0.66	5e-28
356571525	308	PREDICTED: uncharacterized protein HI_11	0.696	0.298	0.688	6e-28

>gi|118489827|gb|ABK96713.1| unknown [Populus trichocarpa x Populus deltoides]

 Score =  156 bits (395), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 77/107 (71%), Positives = 89/107 (83%), Gaps = 2/107 (1%)

Query: 26  LEAATRRAAPFPGRVSSVSPNPKPSRYRILAMTVKRSPKRLKYSAPQFTKEGGLMYVEAD 85
           L    R  APFP  VS  +P  KP R R+L+M +KRSPKRLKYSAP+FTKE GL+YVEAD
Sbjct: 21  LTTLRRHVAPFPSLVSFNTP--KPPRLRVLSMAIKRSPKRLKYSAPRFTKEDGLLYVEAD 78

Query: 86  PSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
             G+D+WKLEPV+ELLK+GAVGVIPTDT+YAIVCDLKS+SAIERLRR
Sbjct: 79  ELGSDTWKLEPVIELLKQGAVGVIPTDTVYAIVCDLKSNSAIERLRR 125

Source: Populus trichocarpa x Populus deltoides

Species: Populus trichocarpa x Populus deltoides

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224055737|ref|XP_002298628.1| predicted protein [Populus trichocarpa] gi|222845886|gb|EEE83433.1| predicted protein [Populus trichocarpa]

 Score =  156 bits (395), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 77/107 (71%), Positives = 89/107 (83%), Gaps = 2/107 (1%)

Query: 26  LEAATRRAAPFPGRVSSVSPNPKPSRYRILAMTVKRSPKRLKYSAPQFTKEGGLMYVEAD 85
           L    R  APFP  VS  +P  KP R R+L+M +KRSPKRLKYSAP+FTKE GL+YVEAD
Sbjct: 21  LTTLRRHVAPFPSLVSFNTP--KPPRLRVLSMAIKRSPKRLKYSAPRFTKEDGLLYVEAD 78

Query: 86  PSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
             G+D+WKLEPV+ELLK+GAVGVIPTDT+YAIVCDLKS+SAIERLRR
Sbjct: 79  ELGSDTWKLEPVIELLKQGAVGVIPTDTVYAIVCDLKSNSAIERLRR 125

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147841978|emb|CAN72004.1| hypothetical protein VITISV_012595 [Vitis vinifera]

 Score =  142 bits (357), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 66/82 (80%), Positives = 75/82 (91%)

Query: 51  RYRILAMTVKRSPKRLKYSAPQFTKEGGLMYVEADPSGADSWKLEPVVELLKEGAVGVIP 110
           R+R +A+  KRSPKRLKYSAP+F+KE GL+YVEADPSG DSWKLEPV +LLKEGAVGVIP
Sbjct: 64  RFRFVALAAKRSPKRLKYSAPRFSKEDGLLYVEADPSGTDSWKLEPVADLLKEGAVGVIP 123

Query: 111 TDTLYAIVCDLKSHSAIERLRR 132
           TDT+YAIVC L+SHSAIERLRR
Sbjct: 124 TDTVYAIVCHLRSHSAIERLRR 145

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225451447|ref|XP_002273946.1| PREDICTED: uncharacterized protein HI_1198 [Vitis vinifera] gi|296082345|emb|CBI21350.3| unnamed protein product [Vitis vinifera]

 Score =  142 bits (357), Expect = 7e-32,   Method: Compositional matrix adjust.
 Identities = 66/82 (80%), Positives = 75/82 (91%)

Query: 51  RYRILAMTVKRSPKRLKYSAPQFTKEGGLMYVEADPSGADSWKLEPVVELLKEGAVGVIP 110
           R+R +A+  KRSPKRLKYSAP+F+KE GL+YVEADPSG DSWKLEPV +LLKEGAVGVIP
Sbjct: 36  RFRFVALAAKRSPKRLKYSAPRFSKEDGLLYVEADPSGTDSWKLEPVADLLKEGAVGVIP 95

Query: 111 TDTLYAIVCDLKSHSAIERLRR 132
           TDT+YAIVC L+SHSAIERLRR
Sbjct: 96  TDTVYAIVCHLRSHSAIERLRR 117

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255536893|ref|XP_002509513.1| sua5, putative [Ricinus communis] gi|223549412|gb|EEF50900.1| sua5, putative [Ricinus communis]

 Score =  141 bits (355), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 72/99 (72%), Positives = 80/99 (80%), Gaps = 2/99 (2%)

Query: 33  AAPFPGRVSSVSPNPKPSRYRILAMTVKRSPKRLKYSAPQFTKEGGLMYVEADPSGADSW 92
            APF  RVS  S   KP R  +LAM  KRSPKRLKYS P+FTKE  L+YVEAD SGADSW
Sbjct: 28  VAPFASRVSFHSR--KPPRLLVLAMATKRSPKRLKYSTPRFTKEDALVYVEADASGADSW 85

Query: 93  KLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLR 131
           KL+PV+ELL EGAVGVIPTDT+YA+VC LKSHSA+ERLR
Sbjct: 86  KLDPVIELLNEGAVGVIPTDTVYAMVCHLKSHSAVERLR 124

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297832740|ref|XP_002884252.1| yrdC family protein [Arabidopsis lyrata subsp. lyrata] gi|297330092|gb|EFH60511.1| yrdC family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  138 bits (347), Expect = 8e-31,   Method: Compositional matrix adjust.
 Identities = 62/84 (73%), Positives = 75/84 (89%)

Query: 49  PSRYRILAMTVKRSPKRLKYSAPQFTKEGGLMYVEADPSGADSWKLEPVVELLKEGAVGV 108
           P R+ I+A+  KRSPKRLKYS P+FTKEG L+Y+E DP GADSWKL+PV+ELLK+GAVGV
Sbjct: 36  PRRHTIVALAAKRSPKRLKYSTPRFTKEGELVYIEVDPFGADSWKLQPVIELLKQGAVGV 95

Query: 109 IPTDTLYAIVCDLKSHSAIERLRR 132
           IPTDT+YA+VCD K+HSA+ERLRR
Sbjct: 96  IPTDTVYALVCDCKNHSAVERLRR 119

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22330801|ref|NP_566156.2| putative translation factor [Arabidopsis thaliana] gi|6091731|gb|AAF03443.1|AC010797_19 hypothetical protein [Arabidopsis thaliana] gi|19310491|gb|AAL84979.1| At3g1920/F28J7.25 [Arabidopsis thaliana] gi|23505865|gb|AAN28792.1| At3g1920/F28J7.25 [Arabidopsis thaliana] gi|332640214|gb|AEE73735.1| putative translation factor [Arabidopsis thaliana]

 Score =  136 bits (343), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 76/135 (56%), Positives = 92/135 (68%), Gaps = 17/135 (12%)

Query: 1   MAGAKLCGGDTA---FLLRSHSHSHSHFLEAATRRAAPFPGRVSSVSPNPKPSRYRILAM 57
           MA AKL GG  A    LL     +H        RR +  P   +S+SP     R  I+A+
Sbjct: 1   MAVAKLHGGGMAAMRLLLLPSPMTH--------RRPSTLPS-TASLSP-----RRYIVAL 46

Query: 58  TVKRSPKRLKYSAPQFTKEGGLMYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAI 117
             KRSPKRLKYS P+FTKEG L+Y+E DP G DSWKL+PV++LLK+GAVGVIPTDT+YAI
Sbjct: 47  AAKRSPKRLKYSTPRFTKEGELVYIEVDPCGVDSWKLQPVIDLLKQGAVGVIPTDTVYAI 106

Query: 118 VCDLKSHSAIERLRR 132
            CD K+HSA+ERLRR
Sbjct: 107 ACDCKNHSAVERLRR 121

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|6513939|gb|AAF14843.1|AC011664_25 hypothetical protein [Arabidopsis thaliana]

 Score =  135 bits (340), Expect = 6e-30,   Method: Compositional matrix adjust.
 Identities = 75/134 (55%), Positives = 89/134 (66%), Gaps = 17/134 (12%)

Query: 1   MAGAKLCGGDTA---FLLRSHSHSHSHFLEAATRRAAPFPGRVSSVSPNPKPSRYRILAM 57
           MA AKL GG  A    LL     +H        RR +  P   S       P RY I+A+
Sbjct: 1   MAVAKLHGGGMAAMRLLLLPSPMTH--------RRPSTLPSTASL-----SPRRY-IVAL 46

Query: 58  TVKRSPKRLKYSAPQFTKEGGLMYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAI 117
             KRSPKRLKYS P+FTKEG L+Y+E DP G DSWKL+PV++LLK+GAVGVIPTDT+YAI
Sbjct: 47  AAKRSPKRLKYSTPRFTKEGELVYIEVDPCGVDSWKLQPVIDLLKQGAVGVIPTDTVYAI 106

Query: 118 VCDLKSHSAIERLR 131
            CD K+HSA+ERLR
Sbjct: 107 ACDCKNHSAVERLR 120

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449455846|ref|XP_004145661.1| PREDICTED: uncharacterized protein HI_1198-like [Cucumis sativus] gi|449502016|ref|XP_004161520.1| PREDICTED: uncharacterized protein HI_1198-like [Cucumis sativus]

 Score =  129 bits (323), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 66/100 (66%), Positives = 79/100 (79%), Gaps = 8/100 (8%)

Query: 33  AAPFPGRVSSVSPNPKPSRYRILAMTVKRSPKRLKYSAPQFTKEGGLMYVEADPSGADSW 92
           A PF G  +S        R ++LAM VKRSPKRLKYSAP+FTKEG L+YV+A+ SG D W
Sbjct: 34  ATPFDGFETS-------RRLQVLAMVVKRSPKRLKYSAPRFTKEGSLIYVKAE-SGEDGW 85

Query: 93  KLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
           KL+P+V LLKEGAVGVIPTDT+Y IVCDLK+ SAIER++R
Sbjct: 86  KLDPIVNLLKEGAVGVIPTDTVYGIVCDLKNPSAIERMQR 125

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356571525|ref|XP_003553927.1| PREDICTED: uncharacterized protein HI_1198-like [Glycine max]

 Score =  128 bits (322), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 64/93 (68%), Positives = 76/93 (81%), Gaps = 1/93 (1%)

Query: 41  SSVSPNPKPSRYRILAMTVKRSPKRLKY-SAPQFTKEGGLMYVEADPSGADSWKLEPVVE 99
           + VS  P   R  +++M  KRSPKRLKY SA +FTKE GL+Y+EADPS +DSWKLEP+  
Sbjct: 29  TRVSFCPPRRRSGLVSMVAKRSPKRLKYTSASRFTKEDGLVYIEADPSASDSWKLEPIAN 88

Query: 100 LLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
           LLK+GAVGVIPTDT+YAIVCDL+S SAIERLRR
Sbjct: 89  LLKQGAVGVIPTDTMYAIVCDLRSQSAIERLRR 121

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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	132
TAIR|locus:2078668	307	AT3G01920 [Arabidopsis thalian	0.916	0.394	0.568	6.9e-31
UNIPROTKB|Q885M0	209	PSPTO_1811 "Sua5/YciO/YrdC/Ywl	0.393	0.248	0.346	0.0002

TAIR|locus:2078668 AT3G01920 [Arabidopsis thaliana (taxid:3702)]

 Score = 340 (124.7 bits), Expect = 6.9e-31, P = 6.9e-31
 Identities = 75/132 (56%), Positives = 91/132 (68%)

Query:     1 MAGAKLCGGDTAFLLRXXXXXXXXFLEAATRRAAPFPGRVSSVSPNPKPSRYRILAMTVK 60
             MA AKL GG  A  +R              RR +  P   +S+SP     RY I+A+  K
Sbjct:     1 MAVAKLHGGGMA-AMRLLLLPS----PMTHRRPSTLPS-TASLSPR----RY-IVALAAK 49

Query:    61 RSPKRLKYSAPQFTKEGGLMYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCD 120
             RSPKRLKYS P+FTKEG L+Y+E DP G DSWKL+PV++LLK+GAVGVIPTDT+YAI CD
Sbjct:    50 RSPKRLKYSTPRFTKEGELVYIEVDPCGVDSWKLQPVIDLLKQGAVGVIPTDTVYAIACD 109

Query:   121 LKSHSAIERLRR 132
              K+HSA+ERLRR
Sbjct:   110 CKNHSAVERLRR 121

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q885M0 PSPTO_1811 "Sua5/YciO/YrdC/YwlC family protein" [Pseudomonas syringae pv. tomato str. DC3000 (taxid:223283)]

 Score = 94 (38.1 bits), Expect = 0.00020, P = 0.00020
 Identities = 18/52 (34%), Positives = 29/52 (55%)

Query:    81 YVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
             + +  P       ++   E++K G + V PTD+ YA+ C +   SAIER+RR
Sbjct:     4 FFQVHPENPQPRLIKQAAEIIKAGGLVVYPTDSSYALGCQIGDKSAIERIRR 55


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        0.319   0.135   0.397    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      132       124   0.00091  102 3  11 22  0.37    31
                                                     29  0.39    33


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:  2
  No. of states in DFA:  590 (63 KB)
  Total size of DFA:  122 KB (2077 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:  12.24u 0.21s 12.45t   Elapsed:  00:00:00
  Total cpu time:  12.24u 0.21s 12.45t   Elapsed:  00:00:00
  Start:  Fri May 10 05:34:54 2013   End:  Fri May 10 05:34:54 2013

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

---

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.I.3086.1 hypothetical protein (261 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

ID	Length	Definition	E-value
Query	132
pfam01300	178	pfam01300, Sua5_yciO_yrdC, Telomere recombination	3e-09
COG0009	211	COG0009, SUA5, Putative translation factor (SUA5)	7e-09
TIGR00057	201	TIGR00057, TIGR00057, tRNA threonylcarbamoyl adeno	3e-06
PRK11630	206	PRK11630, PRK11630, hypothetical protein; Provisio	2e-04

>gnl|CDD|216422 pfam01300, Sua5_yciO_yrdC, Telomere recombination

 Score = 51.7 bits (125), Expect = 3e-09
 Identities = 15/34 (44%), Positives = 22/34 (64%)

Query: 99  ELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
           E L++G +   PTDT+Y + CD  +  A+ERLR 
Sbjct: 1   EALRQGGIVAYPTDTVYGLGCDATNEEAVERLRE 34

This domain has been shown to bind preferentially to dsRNA. The domain is found in SUA5 as well as HypF and YrdC. It has also been shown to be required for telomere recombniation in yeast. Length = 178

>gnl|CDD|223088 COG0009, SUA5, Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]

 Score = 51.5 bits (124), Expect = 7e-09
 Identities = 17/49 (34%), Positives = 24/49 (48%)

Query: 84  ADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
             P       +E  VE L++G V   PTDT+Y +  D  +  A+ERL  
Sbjct: 6   IHPENPQPRAIEKAVEALRKGGVVAYPTDTVYGLGADATNEEAVERLYE 54

Length = 211

>gnl|CDD|232802 TIGR00057, TIGR00057, tRNA threonylcarbamoyl adenosine modification protein, Sua5/YciO/YrdC/YwlC family

 Score = 43.9 bits (104), Expect = 3e-06
 Identities = 16/39 (41%), Positives = 24/39 (61%)

Query: 94  LEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
           +E  V++L++G + V PTDT+Y I  D     A+ RL R
Sbjct: 11  IEQAVKILRKGGIVVYPTDTVYGIGADALDEDAVRRLYR 49

Has paralogs, but YrdC called a tRNA modification protein. Ref 2 authors say probably heteromultimeric complex. Paralogs may mean its does the final binding to the tRNA [Protein synthesis, tRNA and rRNA base modification]. Length = 201

>gnl|CDD|183245 PRK11630, PRK11630, hypothetical protein; Provisional

 Score = 39.1 bits (91), Expect = 2e-04
 Identities = 15/35 (42%), Positives = 26/35 (74%)

Query: 98  VELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
           VE++++G V V PTD+ YA+ C ++  +A+ER+ R
Sbjct: 21  VEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICR 55

Length = 206

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	132
PRK11630	206	hypothetical protein; Provisional	99.63
COG0009	211	SUA5 Putative translation factor (SUA5) [Translati	99.55
TIGR00057	201	Sua5/YciO/YrdC/YwlC family protein. partial match	99.5
PRK10634	190	tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modif	99.46
TIGR00143	711	hypF [NiFe] hydrogenase maturation protein HypF. A	98.78
KOG3051	261	consensus RNA binding/translational regulation pro	96.78
COG0068	750	HypF Hydrogenase maturation factor [Posttranslatio	89.5
KOG3051	261	consensus RNA binding/translational regulation pro	82.5

>PRK11630 hypothetical protein; Provisional

Probab=99.63  E-value=2.7e-16  Score=124.47  Aligned_cols=55  Identities=29%  Similarity=0.532  Sum_probs=50.9

Q ss_pred             ceEEEEeCCCCCChhcHHHHHHHHhcCCeEEEccCcceeecccCCCHHHHHHHhC
Q 032838           78 GLMYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR  132 (132)
Q Consensus        78 mm~i~~i~p~np~~~~I~~aae~L~~GgVVi~PTDTVYGLgcda~n~~AVeRIy~  132 (132)
                      |++++++++++++.+.+++++++|++||+|+||||||||||||+.|++||+|||+
T Consensus         1 m~~~~~~~~~~~~~~~i~~a~~~L~~G~vi~~PTdTvYgL~~d~~n~~Av~~l~~   55 (206)
T PRK11630          1 MSQFFYIHPDNPQQRLINQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICR   55 (206)
T ss_pred             CCceEecCCCCCCHHHHHHHHHHHHCCCEEEEeCCChHhhhcCCCCHHHHHHHHH
Confidence            5667888888888778999999999999999999999999999999999999984

>COG0009 SUA5 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]

Probab=99.55  E-value=4.5e-15  Score=119.50  Aligned_cols=53  Identities=32%  Similarity=0.497  Sum_probs=49.2

Q ss_pred             EEEEeCCCCCChhcHHHHHHHHhcCCeEEEccCcceeecccCCCHHHHHHHhC
Q 032838           80 MYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR  132 (132)
Q Consensus        80 ~i~~i~p~np~~~~I~~aae~L~~GgVVi~PTDTVYGLgcda~n~~AVeRIy~  132 (132)
                      +++.+++.+++...++++++.|++||+|+||||||||||||+.|++||+|||+
T Consensus         2 ~~~~~~~~~~~~~~~~~a~~~l~~G~vVa~PTeTVYGLg~~~~~~~Av~~i~~   54 (211)
T COG0009           2 QIFMIHPENPQPRAIEKAVEALRKGGVVAYPTDTVYGLGADATNEEAVERLYE   54 (211)
T ss_pred             ceeecCccccchHHHHHHHHHHHcCCEEEEEccchheeecCCCCHHHHHHHHH
Confidence            46788888877888999999999999999999999999999999999999984

>TIGR00057 Sua5/YciO/YrdC/YwlC family protein

Probab=99.50  E-value=1.4e-14  Score=113.85  Aligned_cols=49  Identities=35%  Similarity=0.587  Sum_probs=45.2

Q ss_pred             eCCCCCChhcHHHHHHHHhcCCeEEEccCcceeecccCCCHHHHHHHhC
Q 032838           84 ADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR  132 (132)
Q Consensus        84 i~p~np~~~~I~~aae~L~~GgVVi~PTDTVYGLgcda~n~~AVeRIy~  132 (132)
                      +++++++.+.+++++++|++||+|+|||||+|||+|++.|++|++|||+
T Consensus         1 ~~~~~~~~~~i~~a~~~L~~G~ii~~PTdTvYgL~~~~~~~~av~ri~~   49 (201)
T TIGR00057         1 IHPENPSQRGIEQAVKILRKGGIVVYPTDTVYGIGADALDEDAVRRLYR   49 (201)
T ss_pred             CCcCCCCHHHHHHHHHHHHCCCEEEEeCCCHHHhhcCCCCHHHHHHHHH
Confidence            3567777778999999999999999999999999999999999999985

partial match to sua5, which is involved in regulation of translation initiation. 3' end of sua5 has matches to sua5, BS3690, and weakly to AF0781 and BB0734.

>PRK10634 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional

Probab=99.46  E-value=4.5e-14  Score=110.59  Aligned_cols=44  Identities=27%  Similarity=0.459  Sum_probs=41.2

Q ss_pred             CChhcHHHHHHHHhcCCeEEEccCcceeecccCCCHHHHHHHhC
Q 032838           89 ADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR  132 (132)
Q Consensus        89 p~~~~I~~aae~L~~GgVVi~PTDTVYGLgcda~n~~AVeRIy~  132 (132)
                      ++.+.++++++.|++||||+|||||||||||++.|++||+|||+
T Consensus         5 ~~~~~i~~a~~~L~~G~vv~~PTdTvYgL~~~~~n~~Av~ri~~   48 (190)
T PRK10634          5 LQGDAIAAAVDVLNEERVIAYPTEAVFGVGCDPDSETAVMRLLE   48 (190)
T ss_pred             ccHHHHHHHHHHHHCCCEEEEeCCchhhhhcCCCCHHHHHHHHH
Confidence            35678999999999999999999999999999999999999985

>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF

Probab=98.78  E-value=5.3e-09  Score=96.34  Aligned_cols=42  Identities=29%  Similarity=0.412  Sum_probs=39.9

Q ss_pred             hhcHHHHHHHHhcCCeEEEccCcceeecccCCCHHHHHHHhC
Q 032838           91 SWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR  132 (132)
Q Consensus        91 ~~~I~~aae~L~~GgVVi~PTDTVYGLgcda~n~~AVeRIy~  132 (132)
                      .+.++++++.|++|++|++||||+|||+||+.|++||++||+
T Consensus       162 ~~~i~~aa~~L~~G~IVaipt~ggy~L~cda~n~~AV~rLr~  203 (711)
T TIGR00143       162 DDALLEAAKLLKKGKIIAIKGIGGFHLACDARNDEVVERLRL  203 (711)
T ss_pred             hHHHHHHHHHHhCCCEEEEEcCCcceeecCCCCHHHHHHHHH
Confidence            468999999999999999999999999999999999999984

A previously described regulatory effect of HypF mutatation is attributable to loss of activity of a regulatory hydrogenase. A zinc finger-like region CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported the regulatory hypothesis. However, more recent work (PUBMED:11375153) shows the direct effect is on the activity of expressed hydrogenases with nickel/iron centers, rather than on expression.

>KOG3051 consensus RNA binding/translational regulation protein of the SUA5 family [Translation, ribosomal structure and biogenesis]

Probab=96.78  E-value=0.00037  Score=58.72  Aligned_cols=41  Identities=17%  Similarity=0.241  Sum_probs=35.0

Q ss_pred             hcHHHHHHHHhcCCeEEEccCcceeecccCCCHHHHHHHhC
Q 032838           92 WKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR  132 (132)
Q Consensus        92 ~~I~~aae~L~~GgVVi~PTDTVYGLgcda~n~~AVeRIy~  132 (132)
                      ..++.+.-+-+.+++|+|||||+||+|+++.+..++.+||.
T Consensus        17 ~~~~aa~~~r~~~~~va~pT~t~yg~g~~~~~~~av~~v~~   57 (261)
T KOG3051|consen   17 ALYDAALIVRRTDKRVAFPTETVYGLGASAYNEVAVLRLYK   57 (261)
T ss_pred             hhhhhhhheeccCCceecCchhhhhhhhhhhccccchhhhh
Confidence            34555556677899999999999999999999999999874

>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]

Probab=89.50  E-value=0.71  Score=44.17  Aligned_cols=39  Identities=26%  Similarity=0.474  Sum_probs=37.3

Q ss_pred             cHHHHHHHHhcCCeEEEccCcceeecccCCCHHHHHHHh
Q 032838           93 KLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLR  131 (132)
Q Consensus        93 ~I~~aae~L~~GgVVi~PTDTVYGLgcda~n~~AVeRIy  131 (132)
                      .|+++++.|+.|++|++=-=-.|.|+||+.|.++|+++.
T Consensus       199 ai~~a~klL~~G~IvAIKGiGGFhLaCda~~~eaV~~LR  237 (750)
T COG0068         199 AIRKAAKLLKVGKIVAIKGIGGFHLACDARNEEAVAKLR  237 (750)
T ss_pred             HHHHHHHHHhhCCEEEEeecCceeeeecCCchHHHHHHH
Confidence            789999999999999999999999999999999999986

>KOG3051 consensus RNA binding/translational regulation protein of the SUA5 family [Translation, ribosomal structure and biogenesis]

Probab=82.50  E-value=0.11  Score=44.18  Aligned_cols=68  Identities=21%  Similarity=0.148  Sum_probs=51.1

Q ss_pred             CceeeeeeeeecCcccccccCcccCccCceEEEEeCCCCCChhcHHHHHHHHhcCCeEEEccCcceee
Q 032838           50 SRYRILAMTVKRSPKRLKYSAPQFTKEGGLMYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAI  117 (132)
Q Consensus        50 ~~~~~~~~~~k~~~krlky~~~~f~~~~mm~i~~i~p~np~~~~I~~aae~L~~GgVVi~PTDTVYGL  117 (132)
                      +++..++.+.++..|+.+|+++.+.+.....+.......-..+..+.+.+.|..+-.-+.+++++|..
T Consensus        16 ~~~~~aa~~~r~~~~~va~pT~t~yg~g~~~~~~~av~~v~~~K~rP~~~pL~~~~~s~~~~~~v~~~   83 (261)
T KOG3051|consen   16 PALYDAALIVRRTDKRVAFPTETVYGLGASAYNEVAVLRLYKLKNRPADNPLIVHVSSVDQLKRVVAI   83 (261)
T ss_pred             hhhhhhhhheeccCCceecCchhhhhhhhhhhccccchhhhhhhcCccccchhhccccHHHHHHHHhh
Confidence            66778999999999999999999888764445555554444455566667777777777888888776

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	132
1k7j_A	206	Protein YCIO, protein TF1; structural genomics, X-	7e-10
1jcu_A	208	Conserved protein MTH1692; mixed alpha-beta struct	2e-04

>1k7j_A Protein YCIO, protein TF1; structural genomics, X-RAY crystallography, putative translation factor, PSI, protein structure initiative; 1.40A {Escherichia coli} SCOP: d.115.1.1 PDB: 1kk9_A Length = 206

 Score = 53.3 bits (129), Expect = 7e-10
 Identities = 16/52 (30%), Positives = 29/52 (55%)

Query: 81  YVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
           +    P       +   VE++++G V V PTD+ YA+ C ++  +A+ER+ R
Sbjct: 4   FFYIHPDNPQQRLINQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICR 55

>1jcu_A Conserved protein MTH1692; mixed alpha-beta structure, structural genomics; NMR {Methanothermobacterthermautotrophicus} SCOP: d.115.1.1 Length = 208

 Score = 38.3 bits (90), Expect = 2e-04
 Identities = 10/50 (20%), Positives = 22/50 (44%)

Query: 80  MYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIER 129
           +  +          LE  + +++ G + + PTDT+Y +  +     A+ R
Sbjct: 2   LIRKITRKNPSPDVLEEAISVMEGGGIVIYPTDTIYGLGVNALDEDAVRR 51

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	132
1k7j_A	206	Protein YCIO, protein TF1; structural genomics, X-	99.6
1jcu_A	208	Conserved protein MTH1692; mixed alpha-beta struct	99.55
2eqa_A	352	Hypothetical protein ST1526; YRDC/RIBB fold, YRDC	99.54
1hru_A	188	YRDC gene product; protein folding, structural gen	99.41
3l7v_A	295	Putative uncharacterized protein SMU.1377C; transc	99.08
3vth_A	761	Hydrogenase maturation factor; carbamoyltransfer,	98.92
3ttc_A	657	HYPF, transcriptional regulatory protein; Zn finge	98.86
4g9i_A	772	Hydrogenase maturation protein HYPF; zinc finger,	98.53

>1k7j_A Protein YCIO, protein TF1; structural genomics, X-RAY crystallography, putative translation factor, PSI, protein structure initiative; 1.40A {Escherichia coli} SCOP: d.115.1.1 PDB: 1kk9_A

Probab=99.60  E-value=7.4e-16  Score=120.26  Aligned_cols=55  Identities=29%  Similarity=0.532  Sum_probs=52.0

Q ss_pred             ceEEEEeCCCCCChhcHHHHHHHHhcCCeEEEccCcceeecccCCCHHHHHHHhC
Q 032838           78 GLMYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR  132 (132)
Q Consensus        78 mm~i~~i~p~np~~~~I~~aae~L~~GgVVi~PTDTVYGLgcda~n~~AVeRIy~  132 (132)
                      |.+++++++.+++.+.++++++.|++||+|+|||||+|||+||++|++|++|||+
T Consensus         1 M~~~~~~~~~~~~~~~i~~a~~~L~~G~iva~pTdtvygL~~da~n~~Av~rl~~   55 (206)
T 1k7j_A            1 MSQFFYIHPDNPQQRLINQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICR   55 (206)
T ss_dssp             CCEEEECCSSSCCHHHHHHHHHHHHTTCCEEEEETTEEEEEEETTCHHHHHHHHH
T ss_pred             CCceEecCCCCCCHHHHHHHHHHHHCCCEEEEECCCEEEEEEeCCCHHHHHHHHH
Confidence            4478999999999999999999999999999999999999999999999999984

>1jcu_A Conserved protein MTH1692; mixed alpha-beta structure, structural genomics; NMR {Methanothermobacterthermautotrophicus} SCOP: d.115.1.1

Probab=99.55  E-value=1.4e-15  Score=119.06  Aligned_cols=54  Identities=22%  Similarity=0.410  Sum_probs=50.4

Q ss_pred             eEEEEeCCCCCChhcHHHHHHHHhcCCeEEEccCcceeecccCCCHHHHHHHhC
Q 032838           79 LMYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR  132 (132)
Q Consensus        79 m~i~~i~p~np~~~~I~~aae~L~~GgVVi~PTDTVYGLgcda~n~~AVeRIy~  132 (132)
                      |.++++++.+++.+.+++++++|++||+|+|||||+|||+||++|++|++|||+
T Consensus         1 ~~~~~~~~~~~~~~~i~~a~~~L~~G~vVa~pTdtvygL~~da~n~~Av~rl~~   54 (208)
T 1jcu_A            1 MLIRKITRKNPSPDVLEEAISVMEGGGIVIYPTDTIYGLGVNALDEDAVRRLFR   54 (208)
T ss_dssp             CCSCCCCSSCCCCHHHHHHHHHHHTTCEEECCCSSSCEEEEETTSHHHHHHHHH
T ss_pred             CeEEEecCCCCCHHHHHHHHHHHHCCCEEEEECCCEEEEEEeCCCHHHHHHHHH
Confidence            456789999999899999999999999999999999999999999999999984

>2eqa_A Hypothetical protein ST1526; YRDC/RIBB fold, YRDC domain, SUA5 domain, structural genomics, NPPSFA; HET: AMP; 1.80A {Sulfolobus tokodaii} PDB: 3aje_A* 4e1b_A*

Probab=99.54  E-value=4.9e-15  Score=125.26  Aligned_cols=55  Identities=16%  Similarity=0.302  Sum_probs=51.6

Q ss_pred             ceEEEEeCCCCCChhcHHHHHHHHhcCCeEEEccCcceeecccCCCHHHHHHHhC
Q 032838           78 GLMYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR  132 (132)
Q Consensus        78 mm~i~~i~p~np~~~~I~~aae~L~~GgVVi~PTDTVYGLgcda~n~~AVeRIy~  132 (132)
                      |+++++++++|++.+.+++++++|++||+|+||||||||||||++|++||+|||+
T Consensus         1 ~t~~~~i~~~~~~~~~i~~aa~~L~~G~iVa~PTeTvYGLg~da~n~~AV~rI~~   55 (352)
T 2eqa_A            1 MTQIIKIDPLNPEIDKIKIAADVIRNGGTVAFPTETVYGLGANAFDGNACLKIFQ   55 (352)
T ss_dssp             -CEEEECCSSSCCHHHHHHHHHHHHTTCCEEECCSSSCEEEEETTCHHHHHHHHH
T ss_pred             CCeEEEeCCCCCCHHHHHHHHHHHHcCCEEEEECCCEeEEEEeCCCHHHHHHHHH
Confidence            4578999999999999999999999999999999999999999999999999984

>1hru_A YRDC gene product; protein folding, structural genomics, RNA, SUA5, PSI, protein structure initiative, midwest center for structural genomics; 2.00A {Escherichia coli} SCOP: d.115.1.1

Probab=99.41  E-value=6.5e-14  Score=107.57  Aligned_cols=46  Identities=24%  Similarity=0.442  Sum_probs=42.5

Q ss_pred             CCCChhcHHHHHHHHhcCCeEEEccCcceeecccCCCHHHHHHHhC
Q 032838           87 SGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR  132 (132)
Q Consensus        87 ~np~~~~I~~aae~L~~GgVVi~PTDTVYGLgcda~n~~AVeRIy~  132 (132)
                      ++++.+.+++++++|++||||+|||||+|||+||+.|++|++|||+
T Consensus         3 ~~~~~~~i~~a~~~L~~G~iva~ptdt~ygL~~da~~~~av~rl~~   48 (188)
T 1hru_A            3 NNLQRDAIAAAIDVLNEERVIAYPTEAVFGVGCDPDSETAVMRLLE   48 (188)
T ss_dssp             CHHHHHHHHHHHHHHHTTCCEEEECSSSEEEEECTTCHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHCCCEEEEeCCCEeeeEEcCCCHHHHHHHHH
Confidence            4456778999999999999999999999999999999999999984

>3l7v_A Putative uncharacterized protein SMU.1377C; transcription; 2.26A {Streptococcus mutans}

Probab=99.08  E-value=6.8e-11  Score=98.31  Aligned_cols=39  Identities=31%  Similarity=0.342  Sum_probs=36.7

Q ss_pred             hcHHHHHHHHh-cCCeEEEccCcceeecccCCCHHHHHHHhC
Q 032838           92 WKLEPVVELLK-EGAVGVIPTDTLYAIVCDLKSHSAIERLRR  132 (132)
Q Consensus        92 ~~I~~aae~L~-~GgVVi~PTDTVYGLgcda~n~~AVeRIy~  132 (132)
                      +.+++|+++|+ +||||+|||||+|||+|  .|++||+|||+
T Consensus        44 ~~i~~Aa~~L~~~GgIVa~PTdTvYGL~c--~n~~AV~rL~~   83 (295)
T 3l7v_A           44 NLSQEGFEIVKGEGGVIVCPTKVGYIIMT--SDKKGLERKFE   83 (295)
T ss_dssp             SCCHHHHHHHHSTTCEEEEEETTEEEEEE--SSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCEEEEECCCEEEEEE--cCHHHHHHHHH
Confidence            35899999999 99999999999999999  99999999984

>3vth_A Hydrogenase maturation factor; carbamoyltransfer, maturation of [NIFE]-hydrogenase, carbamoylphosphate, iron, HYPE; HET: APC AP2; 2.00A {Thermoanaerobacter tengcongensis} PDB: 3vti_A

Probab=98.92  E-value=9.4e-10  Score=100.54  Aligned_cols=43  Identities=23%  Similarity=0.251  Sum_probs=40.2

Q ss_pred             ChhcHHHHHHHHhcCCeEEEccCcceeecccCCCHHHHHHHhC
Q 032838           90 DSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR  132 (132)
Q Consensus        90 ~~~~I~~aae~L~~GgVVi~PTDTVYGLgcda~n~~AVeRIy~  132 (132)
                      ..+.|++++++|++||||+|||||+|||+||++|++||+|||+
T Consensus       201 ~~~~i~~aa~~L~~G~IVa~pt~t~YgL~cda~n~~AV~rL~~  243 (761)
T 3vth_A          201 FDDEIKCVAKALKEGKIVAIKGIGGFHLAVNALDDEAVATLRR  243 (761)
T ss_dssp             CSCHHHHHHHHHHTTCCEEEECSSSEEEECBTTCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHcCCEEEEECCcEEEEEecCCCHHHHHHHHH
Confidence            3457999999999999999999999999999999999999984

>3ttc_A HYPF, transcriptional regulatory protein; Zn finger, nucleotide binding, hydrogenase maturation factor transferase; HET: ADP; 1.86A {Escherichia coli} PDB: 3tsp_A* 3tsu_A* 3ttf_A* 3ttd_A 3tsq_A

Probab=98.86  E-value=1.1e-09  Score=98.88  Aligned_cols=41  Identities=24%  Similarity=0.391  Sum_probs=39.2

Q ss_pred             hcHHHHHHHHhcCCeEEEccCcceeecccCCCHHHHHHHhC
Q 032838           92 WKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR  132 (132)
Q Consensus        92 ~~I~~aae~L~~GgVVi~PTDTVYGLgcda~n~~AVeRIy~  132 (132)
                      +.|++++++|++||||+|||||+|||+||+.|++||+|||+
T Consensus       112 ~~i~~aa~~L~~G~IVa~pt~ggYgL~cda~n~~AV~rL~~  152 (657)
T 3ttc_A          112 AALQAAIAQLKMGNIVAIKGIGGFHLACDARNSNAVATLRA  152 (657)
T ss_dssp             HHHHHHHHHHHTTCCEEEECSSSEEEEEETTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCEEEEECCceeEEEeecCCHHHHHHHHH
Confidence            57999999999999999999999999999999999999984

>4g9i_A Hydrogenase maturation protein HYPF; zinc finger, ATP binding, carbamoyla transferase; 4.50A {Thermococcus kodakarensis}

Probab=98.53  E-value=6.5e-08  Score=88.37  Aligned_cols=42  Identities=24%  Similarity=0.339  Sum_probs=39.7

Q ss_pred             hhcHHHHHHHHhcCCeEEEccCcceeecccCCCHHHHHHHhC
Q 032838           91 SWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR  132 (132)
Q Consensus        91 ~~~I~~aae~L~~GgVVi~PTDTVYGLgcda~n~~AVeRIy~  132 (132)
                      .+.|+++++.|++|++|++||+|+|+|+||+.|++||++|++
T Consensus       200 ~~~i~~a~~~l~~G~iva~kg~ggy~L~cda~n~~aV~~lr~  241 (772)
T 4g9i_A          200 GDPLRKAAELIDKGYIVAIKGIGGIHLACDAANEEVVAELRR  241 (772)
T ss_dssp             THHHHHHHHHHTTSCCEEECCSSSBEEECCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHcCCEEEEecCCeeEEEEecCCHHHHHHHHH
Confidence            357999999999999999999999999999999999999974

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	132
d1k7ja_	206	d.115.1.1 (A:) Hypothetical protein YciO {Escheric	4e-09
d1jcua_	208	d.115.1.1 (A:) Hypothetical protein MTH1692 {Archa	1e-08
d1hrua_	186	d.115.1.1 (A:) Hypothetical protein YrdC {Escheric	5e-08

>d1k7ja_ d.115.1.1 (A:) Hypothetical protein YciO {Escherichia coli [TaxId: 562]} Length = 206

class: Alpha and beta proteins (a+b)
fold: YrdC/RibB
superfamily: YrdC/RibB
family: YrdC-like
domain: Hypothetical protein YciO
species: Escherichia coli [TaxId: 562]

 Score = 50.3 bits (119), Expect = 4e-09
 Identities = 16/52 (30%), Positives = 29/52 (55%)

Query: 81  YVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
           +    P       +   VE++++G V V PTD+ YA+ C ++  +A+ER+ R
Sbjct: 4   FFYIHPDNPQQRLINQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICR 55

>d1jcua_ d.115.1.1 (A:) Hypothetical protein MTH1692 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]} Length = 208

class: Alpha and beta proteins (a+b)
fold: YrdC/RibB
superfamily: YrdC/RibB
family: YrdC-like
domain: Hypothetical protein MTH1692
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

 Score = 49.2 bits (116), Expect = 1e-08
 Identities = 12/54 (22%), Positives = 25/54 (46%)

Query: 79  LMYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
           ++  +          LE  + +++ G + + PTDT+Y +  +     A+ RL R
Sbjct: 1   MLIRKITRKNPSPDVLEEAISVMEGGGIVIYPTDTIYGLGVNALDEDAVRRLFR 54

>d1hrua_ d.115.1.1 (A:) Hypothetical protein YrdC {Escherichia coli [TaxId: 562]} Length = 186

class: Alpha and beta proteins (a+b)
fold: YrdC/RibB
superfamily: YrdC/RibB
family: YrdC-like
domain: Hypothetical protein YrdC
species: Escherichia coli [TaxId: 562]

 Score = 47.2 bits (111), Expect = 5e-08
 Identities = 11/39 (28%), Positives = 21/39 (53%)

Query: 94  LEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
           +   +++L E  V   PT+ ++ + CD  S +A+ RL  
Sbjct: 8   IAAAIDVLNEERVIAYPTEAVFGVGCDPDSETAVMRLLE 46

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	132
d1k7ja_	206	Hypothetical protein YciO {Escherichia coli [TaxId	99.7
d1jcua_	208	Hypothetical protein MTH1692 {Archaeon Methanobact	99.64
d1hrua_	186	Hypothetical protein YrdC {Escherichia coli [TaxId	99.52

>d1k7ja_ d.115.1.1 (A:) Hypothetical protein YciO {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: YrdC/RibB
superfamily: YrdC/RibB
family: YrdC-like
domain: Hypothetical protein YciO
species: Escherichia coli [TaxId: 562]

Probab=99.70  E-value=5.2e-18  Score=129.76  Aligned_cols=55  Identities=29%  Similarity=0.532  Sum_probs=52.9

Q ss_pred             ceEEEEeCCCCCChhcHHHHHHHHhcCCeEEEccCcceeecccCCCHHHHHHHhC
Q 032838           78 GLMYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR  132 (132)
Q Consensus        78 mm~i~~i~p~np~~~~I~~aae~L~~GgVVi~PTDTVYGLgcda~n~~AVeRIy~  132 (132)
                      |.+++.++|++|+.+.|++++++|++||||+|||||+|||+||++|++||+|||+
T Consensus         1 M~~~~~~~~~~p~~~~i~~a~~~L~~G~vv~~PTdTvYgl~~da~~~~av~~i~~   55 (206)
T d1k7ja_           1 MSQFFYIHPDNPQQRLINQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICR   55 (206)
T ss_dssp             CCEEEECCSSSCCHHHHHHHHHHHHTTCCEEEEETTEEEEEEETTCHHHHHHHHH
T ss_pred             CCceEEeCCCCCCHHHHHHHHHHHHcCCEEEEECCceeEEEEeCCChHHHHHHHH
Confidence            6679999999999999999999999999999999999999999999999999984

>d1jcua_ d.115.1.1 (A:) Hypothetical protein MTH1692 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a+b)
fold: YrdC/RibB
superfamily: YrdC/RibB
family: YrdC-like
domain: Hypothetical protein MTH1692
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=99.64  E-value=2.4e-17  Score=126.14  Aligned_cols=54  Identities=22%  Similarity=0.410  Sum_probs=51.0

Q ss_pred             eEEEEeCCCCCChhcHHHHHHHHhcCCeEEEccCcceeecccCCCHHHHHHHhC
Q 032838           79 LMYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR  132 (132)
Q Consensus        79 m~i~~i~p~np~~~~I~~aae~L~~GgVVi~PTDTVYGLgcda~n~~AVeRIy~  132 (132)
                      |.+.++++.|++.+.+++|+++|++||+|+|||||+|||||+++|++|++|||+
T Consensus         1 m~i~~i~~~n~~~~~i~~a~~~L~~Ggivi~PTdtvYgl~c~a~~~~av~~i~~   54 (208)
T d1jcua_           1 MLIRKITRKNPSPDVLEEAISVMEGGGIVIYPTDTIYGLGVNALDEDAVRRLFR   54 (208)
T ss_dssp             CCSCCCCSSCCCCHHHHHHHHHHHTTCEEECCCSSSCEEEEETTSHHHHHHHHH
T ss_pred             CEEEEcCCCCcCHHHHHHHHHHHHcCCEEEEEcCceeeeEEeCCCcHHHHHHHH
Confidence            457889999999999999999999999999999999999999999999999984

>d1hrua_ d.115.1.1 (A:) Hypothetical protein YrdC {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: YrdC/RibB
superfamily: YrdC/RibB
family: YrdC-like
domain: Hypothetical protein YrdC
species: Escherichia coli [TaxId: 562]

Probab=99.52  E-value=1.4e-15  Score=113.25  Aligned_cols=45  Identities=24%  Similarity=0.445  Sum_probs=42.1

Q ss_pred             CCChhcHHHHHHHHhcCCeEEEccCcceeecccCCCHHHHHHHhC
Q 032838           88 GADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR  132 (132)
Q Consensus        88 np~~~~I~~aae~L~~GgVVi~PTDTVYGLgcda~n~~AVeRIy~  132 (132)
                      |.+.+.|++|+++|++||+|+|||||+|||||++.|++||+|||+
T Consensus         2 n~~~d~i~~a~~~L~~G~iv~~PTdt~Ygl~~~~~~~~av~~i~~   46 (186)
T d1hrua_           2 NLQRDAIAAAIDVLNEERVIAYPTEAVFGVGCDPDSETAVMRLLE   46 (186)
T ss_dssp             HHHHHHHHHHHHHHHTTCCEEEECSSSEEEEECTTCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHcCCEEEEECCceeEEEEeCCChHHHHHHHH
Confidence            456778999999999999999999999999999999999999984