Citrus Sinensis ID: 022235

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300
Protein Sequence
MSALSFSPHLHININRNPKLTPKRRAKPNKIRVSLQTTFPQATFSDPFVIQLAESLEDSLPSSSSSLPQPLPLQKLRDSSSQTLLSTPWPSRKDEPFRFTDTSMIKSSQIQPITRPSSSLDVSTDAQFPSLVLIDGFIQNSALNLSNLPDGVYVGSLLGVSDGIMKRVSDFISEFQCGDLFWSINGMGAPDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWTAVRQLVVMSL
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccEEEEEccEEcccccccccccccEEEEccccHHHHHHHHHHHHHcccccccHHHHHHHHccccEEEEEEccccEEcccEEEEEEEEcccccccccccccccEEEEEEccccEEEEEEEEEEccccccEEEEEEEEEEEccccEEEEEEEEEcccccEEEEcEEEEEEccccc
Secondary Structure Prediction (SSPRO)
ccEEEEccccEccccccccccccccccccccccccccccccHccccHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHccccccccccccEccHHHHHHcccccccccHHHHcccccccccEEEEEccccccHHcccccccccEEEccHHHHHHHcHHHHHHHHHHcccccHHHHHHHHHccccEEEEEccccEEcccEEEEEEEEccccccccccccccccEEEEEccccEEEEEEEEEcccccccEEEccEEEEEEccccEEEEEEEEcccccccHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
msalsfsphlhininrnpkltpkrrakpnkiRVSLqttfpqatfsdpFVIQLAESledslpssssslpqplplqklrdsssqtllstpwpsrkdepfrftdtsmikssqiqpitrpsssldvstdaqfpsLVLIDGFiqnsalnlsnlpdgvyvgsLLGVSDGIMKRVSDFIsefqcgdlfwsingmgapdlgviyvpagckvenpiYLKYLSveggnvdskklpisnpRVVVLVEEGGEVGIIEEFvgkegndcywaNSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWTAVRQLVVMSL
Flexible Loop (DISEMBL)
msalsfsphlhininrnpkltpkrraKPNKIRVSLQttfpqatfsDPFVIQLAESLEDSLPSSSSSLPqplplqklrdsssqtllstpwpsrkdepFRFTDTsmikssqiqpitrpssslDVSTDAQFPSLVLIDGFIQNSALNLSNLPDGVYVGSLLGVSDGIMKRVSDFISEFQCGDLFWSINGMGAPDLGVIYVPAGCKVENPIYLKYLSVEGgnvdskklpisnPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKVRHSYLQNqslnaahikwTAVRQLVVMSL
Low Complexity Region (SEG)
MSALSFSPHLHININRNPKLTPKRRAKPNKIRVSLQTTFPQATFSDPFVIQLAESLEDslpssssslpqplplqKLRDSSSQTLLSTPWPSRKDEPFRFTDTSMIKSSQIQPITRPSSSLDVSTDAQFPSLVLIDGFIQNSALNLSNLPDGVYVGSLLGVSDGIMKRVSDFISEFQCGDLFWSINGMGAPDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRvvvlveeggevgiieefvgkegNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWTAVRQLVVMSL
Disordered region (IsUnstruct)
*************************************TFPQATFSDPFVIQ***************************************************************************QFPSLVLIDGFIQNSALNLSNLPDGVYVGSLLGVSDGIMKRVSDFISEFQCGDLFWSINGMGAPDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWTAVRQLVV***
Disordered Region (DISOPRED)
***********INI*****************************FSDPFVIQLAESLEDSLP**********PLQKLRDSSSQTLLSTPWPSRKDEPFRFTDTSMIKSSQIQPITRPSSSLDVSTDAQFPSLVLIDGFIQNSALNLSNLPDGVYVGSLLGVSDGIMKRVSDFISEFQCGDLFWSINGMGAPDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWTAVRQLVVM**
Disordered Region (DISEMBL)
MSALSFSPHLHININRNPKLTPKRRAKPNKIRVSLQTTFPQATFSDPFVIQLAESL*************PLPLQKLRDSSSQTLLSTPWPSRKDEPFRFTDTSMIK****************STDAQFPSLVLIDGFIQNSALNLSNLPDGVYVGSLLGVSDGIMKRVSDFISEFQCGDLFWSINGMGAPDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWTAVRQLVVMSL
Disordered Region (DISPRO)
*SALSFSPHLHININRN*********************FPQATFSDPFVIQLAESLEDSLPSSSSSLPQPLPLQKLRDSSSQTLLSTPWPSRKDEPFRFTDTSMIKSSQIQPITRPSSSLDVSTDAQFPSLVLIDGFIQNSALNLSNLPDGVYVGSLLGVSDGIMKRVSDFISEFQCGDLFWSINGMGAPDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWTAVRQLVVMSL
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSALSFSPHLHININRNPKLTPKRRAKPNKIRVSLQTTFPQATFSDPFVIQLAESLEDSLPSSSSSLPQPLPLQKLRDSSSQTLLSTPWPSRKDEPFRFTDTSMIKSSQIQPITRPSSSLDVSTDAQFPSLVLIDGFIQNSALNLSNLPDGVYVGSLLGVSDGIMKRVSDFISEFQCGDLFWSINGMGAPDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWTAVRQLVVMSL
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

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	300	2.2.26 [Sep-21-2011]
Q9LQK7	475	Protein ABCI7, chloroplas	yes	no	0.913	0.576	0.610	4e-93
Q55792	453	UPF0051 protein slr0076 O	N/A	no	0.7	0.463	0.277	3e-17

>sp|Q9LQK7|AB7I_ARATH Protein ABCI7, chloroplastic OS=Arabidopsis thaliana GN=ABCI7 PE=1 SV=1

 Score =  341 bits (874), Expect = 4e-93,   Method: Compositional matrix adjust.
 Identities = 174/285 (61%), Positives = 212/285 (74%), Gaps = 11/285 (3%)

Query: 13  NINRNPKLTPKRRAKPNKIRVSLQTTFPQATFSDPFVIQLAESLEDSLPSSSSSLPQPLP 72
           N++  PKL   RR     + V       QA+FSDPFV+QLAESLEDSL +S SS      
Sbjct: 15  NLSSKPKLKSNRRTTSTSVSVR-----AQASFSDPFVLQLAESLEDSLSASPSSSLP--- 66

Query: 73  LQKLRDSSSQTLLSTPWPSRKDEPFRFTDTSMIKSSQIQPIT---RPSSSLDVSTDAQFP 129
           LQ++RDSS++TLLSTPWPSRKDEPFRFTDTS+I+SSQI+PI+   R S  LD  T+ QF 
Sbjct: 67  LQRIRDSSAETLLSTPWPSRKDEPFRFTDTSLIRSSQIEPISTQQRNSEILDNLTETQFT 126

Query: 130 SLVLIDGFIQNSALNLSNLPDGVYVGSLLGVSDGIMKRVSDFISEFQCGDLFWSINGMGA 189
           + V+IDGF+ N  +  S+LPDGVY G   G+ D +  R+S+FI  F  GDLFWSINGMGA
Sbjct: 127 NAVIIDGFVSNLTIGPSDLPDGVYFGKYSGLPDELTNRISEFIGNFDSGDLFWSINGMGA 186

Query: 190 PDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVG 249
           PDL VIYVP GCKVENPIYL+Y S E G+ +SK+LP+SNPRV VLVEEGGE+GI+EEFVG
Sbjct: 187 PDLMVIYVPEGCKVENPIYLRYFSGETGDRESKRLPVSNPRVFVLVEEGGEIGIVEEFVG 246

Query: 250 KEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWTAVRQ 294
           K+    YW N VLEVV+ K  K++HSYLQ +S+ +AHIKWT VRQ
Sbjct: 247 KDEEGFYWTNPVLEVVVQKNAKLKHSYLQKESMASAHIKWTFVRQ 291

Arabidopsis thaliana (taxid: 3702)

>sp|Q55792|Y076_SYNY3 UPF0051 protein slr0076 OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=slr0076 PE=3 SV=1

 Score = 89.0 bits (219), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 65/234 (27%), Positives = 119/234 (50%), Gaps = 24/234 (10%)

Query: 77  RDSSSQTLLSTPWPSRKDEPFRFTDTSMIKSSQIQPITRPSSSLDVSTDAQF-------P 129
           R  ++  L S   P ++DE ++FTD S +K+  I  +     SLDV+    F        
Sbjct: 44  RQGAADLLGSLRLPHKRDEEWQFTDLSELKA--IDFVAAGKVSLDVAAAENFYLPEAHQS 101

Query: 130 SLVLIDGFIQNSALNLSNLPDGVYVGSLLGVSDGIMKRVSDFISEFQCG-DLFWSINGMG 188
            LV I+GF      N ++LP  +   S   ++    +++++++ +   G ++F ++N  G
Sbjct: 102 RLVFINGFFTPELSNTNDLPSAITCQSWTNLAAHQREQLANYLGQKTDGNEVFSNLNTAG 161

Query: 189 APDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFV 248
             D  V+++PA  ++++PI+L +L+V    VD   + +  PR++V+VE   +V I E + 
Sbjct: 162 MTDSAVVWIPANTELKSPIHLLFLTV----VDPTPIMVQ-PRLLVVVENNAQVTIAESY- 215

Query: 249 GKEGNDC--------YWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWTAVRQ 294
           G    +C        Y+ N V E+ +G+  +V H   Q  S ++ HI  TA+ Q
Sbjct: 216 GAISTNCTDRPQQQPYFNNIVSEIYLGENAQVTHIRNQRDSGDSFHIATTAIAQ 269

Synechocystis sp. (strain PCC 6803 / Kazusa) (taxid: 1111708)

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	300
225427242	495	PREDICTED: protein ABCI7, chloroplastic-	0.923	0.559	0.613	2e-91
18398463	475	protein ABCI7 [Arabidopsis thaliana] gi|	0.913	0.576	0.610	3e-91
297742116	480	unnamed protein product [Vitis vinifera]	0.923	0.577	0.613	3e-91
297851692	476	hypothetical protein ARALYDRAFT_473442 [	0.916	0.577	0.610	3e-91
21554655	475	unknown [Arabidopsis thaliana]	0.913	0.576	0.607	2e-90
147775510	593	hypothetical protein VITISV_028794 [Viti	0.923	0.467	0.613	4e-90
449461525	496	PREDICTED: protein ABCI7, chloroplastic-	0.97	0.586	0.577	1e-88
255588981	484	Protein sufD, putative [Ricinus communis	0.946	0.586	0.619	9e-86
224138876	456	predicted protein [Populus trichocarpa]	0.876	0.576	0.663	2e-80
359475767	527	PREDICTED: LOW QUALITY PROTEIN: protein	0.923	0.525	0.604	2e-79

>gi|225427242|ref|XP_002278544.1| PREDICTED: protein ABCI7, chloroplastic-like [Vitis vinifera]

 Score =  341 bits (875), Expect = 2e-91,   Method: Compositional matrix adjust.
 Identities = 187/305 (61%), Positives = 235/305 (77%), Gaps = 28/305 (9%)

Query: 1   MSALSFSPHLHININRNPKL----------TPKRRAKPNKIRVSLQTTFPQATFSDPFVI 50
           M+A   SPHL +N    PKL          TPK R+ P KIR         A FSDPFV+
Sbjct: 16  MAATLLSPHLLLN----PKLSIQNSASKFPTPKSRSTP-KIR---------AAFSDPFVL 61

Query: 51  QLAESLEDSLPSSSSSLPQPLPLQKLRDSSSQTLLSTPWPSRKDEPFRFTDTSMIKSSQI 110
           Q+AESLEDSL SSS+S P PL  QKLRD+SSQT+LSTPWPSRKDEPFRFTDTS+I+ SQ+
Sbjct: 62  QIAESLEDSLSSSSTSSPPPL--QKLRDASSQTVLSTPWPSRKDEPFRFTDTSLIRYSQV 119

Query: 111 QPITRPSSSLDVSTDAQFPSLVLIDGFIQNSALNLSNLPDGVYVGSLLGV-SDGIMKRVS 169
            PI+ P +S+ +STD QFP+L ++DG I  S  NLS LP GV+VGSL  + S+ I K+VS
Sbjct: 120 TPISHPPTSIAISTDTQFPNLSIVDGHIVYSLSNLSQLPTGVFVGSLSSLPSETITKKVS 179

Query: 170 DFISEFQCGDLFWSINGMGAPDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNP 229
           +F++ F+ GDLFWS+NG+G PD+ V+YVPAGC+VE P+++ Y SVEGG++ SKKLP+SNP
Sbjct: 180 EFVANFE-GDLFWSLNGLGTPDMAVVYVPAGCRVEMPLHIVYYSVEGGDIGSKKLPVSNP 238

Query: 230 RVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKW 289
           RV VLVEEGGE+G+IEE+VG   N CYWAN+V EVVIG+G KV+HSY+Q+QSL+AAHIKW
Sbjct: 239 RVFVLVEEGGEIGVIEEYVGVGENKCYWANTVTEVVIGEGAKVKHSYIQSQSLSAAHIKW 298

Query: 290 TAVRQ 294
           T+V+Q
Sbjct: 299 TSVQQ 303

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18398463|ref|NP_564404.1| protein ABCI7 [Arabidopsis thaliana] gi|75180162|sp|Q9LQK7.1|AB7I_ARATH RecName: Full=Protein ABCI7, chloroplastic; AltName: Full=ABC transporter I family member 7; Short=ABC transporter ABCI.7; Short=AtABCI7; AltName: Full=Non-intrinsic ABC protein 6; AltName: Full=Plastid SufD-like protein; Flags: Precursor gi|8920626|gb|AAF81348.1|AC007767_28 Contains an uncharacterized protein family (UPF0051) domain PF|01458 [Arabidopsis thaliana] gi|115646721|gb|ABJ17094.1| At1g32500 [Arabidopsis thaliana] gi|332193373|gb|AEE31494.1| protein ABCI7 [Arabidopsis thaliana]

 Score =  341 bits (874), Expect = 3e-91,   Method: Compositional matrix adjust.
 Identities = 174/285 (61%), Positives = 212/285 (74%), Gaps = 11/285 (3%)

Query: 13  NINRNPKLTPKRRAKPNKIRVSLQTTFPQATFSDPFVIQLAESLEDSLPSSSSSLPQPLP 72
           N++  PKL   RR     + V       QA+FSDPFV+QLAESLEDSL +S SS      
Sbjct: 15  NLSSKPKLKSNRRTTSTSVSVR-----AQASFSDPFVLQLAESLEDSLSASPSSSLP--- 66

Query: 73  LQKLRDSSSQTLLSTPWPSRKDEPFRFTDTSMIKSSQIQPIT---RPSSSLDVSTDAQFP 129
           LQ++RDSS++TLLSTPWPSRKDEPFRFTDTS+I+SSQI+PI+   R S  LD  T+ QF 
Sbjct: 67  LQRIRDSSAETLLSTPWPSRKDEPFRFTDTSLIRSSQIEPISTQQRNSEILDNLTETQFT 126

Query: 130 SLVLIDGFIQNSALNLSNLPDGVYVGSLLGVSDGIMKRVSDFISEFQCGDLFWSINGMGA 189
           + V+IDGF+ N  +  S+LPDGVY G   G+ D +  R+S+FI  F  GDLFWSINGMGA
Sbjct: 127 NAVIIDGFVSNLTIGPSDLPDGVYFGKYSGLPDELTNRISEFIGNFDSGDLFWSINGMGA 186

Query: 190 PDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVG 249
           PDL VIYVP GCKVENPIYL+Y S E G+ +SK+LP+SNPRV VLVEEGGE+GI+EEFVG
Sbjct: 187 PDLMVIYVPEGCKVENPIYLRYFSGETGDRESKRLPVSNPRVFVLVEEGGEIGIVEEFVG 246

Query: 250 KEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWTAVRQ 294
           K+    YW N VLEVV+ K  K++HSYLQ +S+ +AHIKWT VRQ
Sbjct: 247 KDEEGFYWTNPVLEVVVQKNAKLKHSYLQKESMASAHIKWTFVRQ 291

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297742116|emb|CBI33903.3| unnamed protein product [Vitis vinifera]

 Score =  340 bits (873), Expect = 3e-91,   Method: Compositional matrix adjust.
 Identities = 187/305 (61%), Positives = 235/305 (77%), Gaps = 28/305 (9%)

Query: 1   MSALSFSPHLHININRNPKL----------TPKRRAKPNKIRVSLQTTFPQATFSDPFVI 50
           M+A   SPHL +N    PKL          TPK R+ P KIR         A FSDPFV+
Sbjct: 1   MAATLLSPHLLLN----PKLSIQNSASKFPTPKSRSTP-KIR---------AAFSDPFVL 46

Query: 51  QLAESLEDSLPSSSSSLPQPLPLQKLRDSSSQTLLSTPWPSRKDEPFRFTDTSMIKSSQI 110
           Q+AESLEDSL SSS+S P PL  QKLRD+SSQT+LSTPWPSRKDEPFRFTDTS+I+ SQ+
Sbjct: 47  QIAESLEDSLSSSSTSSPPPL--QKLRDASSQTVLSTPWPSRKDEPFRFTDTSLIRYSQV 104

Query: 111 QPITRPSSSLDVSTDAQFPSLVLIDGFIQNSALNLSNLPDGVYVGSLLGV-SDGIMKRVS 169
            PI+ P +S+ +STD QFP+L ++DG I  S  NLS LP GV+VGSL  + S+ I K+VS
Sbjct: 105 TPISHPPTSIAISTDTQFPNLSIVDGHIVYSLSNLSQLPTGVFVGSLSSLPSETITKKVS 164

Query: 170 DFISEFQCGDLFWSINGMGAPDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNP 229
           +F++ F+ GDLFWS+NG+G PD+ V+YVPAGC+VE P+++ Y SVEGG++ SKKLP+SNP
Sbjct: 165 EFVANFE-GDLFWSLNGLGTPDMAVVYVPAGCRVEMPLHIVYYSVEGGDIGSKKLPVSNP 223

Query: 230 RVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKW 289
           RV VLVEEGGE+G+IEE+VG   N CYWAN+V EVVIG+G KV+HSY+Q+QSL+AAHIKW
Sbjct: 224 RVFVLVEEGGEIGVIEEYVGVGENKCYWANTVTEVVIGEGAKVKHSYIQSQSLSAAHIKW 283

Query: 290 TAVRQ 294
           T+V+Q
Sbjct: 284 TSVQQ 288

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297851692|ref|XP_002893727.1| hypothetical protein ARALYDRAFT_473442 [Arabidopsis lyrata subsp. lyrata] gi|297339569|gb|EFH69986.1| hypothetical protein ARALYDRAFT_473442 [Arabidopsis lyrata subsp. lyrata]

 Score =  340 bits (873), Expect = 3e-91,   Method: Compositional matrix adjust.
 Identities = 174/285 (61%), Positives = 213/285 (74%), Gaps = 10/285 (3%)

Query: 13  NINRNPKLTPKRRAKPNKIRVSLQTTFPQATFSDPFVIQLAESLEDSLPSSSSSLPQPLP 72
           N++  PKL   RR     + +       QA+FSDPFV+QLAESLEDSL +S SS   PL 
Sbjct: 15  NLSSKPKLKSNRRTTSTSVSIR-----AQASFSDPFVLQLAESLEDSLSASPSSSSLPL- 68

Query: 73  LQKLRDSSSQTLLSTPWPSRKDEPFRFTDTSMIKSSQIQPIT---RPSSSLDVSTDAQFP 129
            Q++RDSS++TLLSTPWPSRKDEPFRFTDTS I+ SQI+P++   R S  LD  T+ QFP
Sbjct: 69  -QRIRDSSAETLLSTPWPSRKDEPFRFTDTSFIRFSQIEPVSTHQRNSEILDNLTETQFP 127

Query: 130 SLVLIDGFIQNSALNLSNLPDGVYVGSLLGVSDGIMKRVSDFISEFQCGDLFWSINGMGA 189
           + V+IDGF+ N  +  S+LPDGVY GS  G+ D +  RVS+FI  F  GDLFWSINGMGA
Sbjct: 128 NAVIIDGFVSNLTIGPSDLPDGVYFGSFSGLPDELTNRVSEFIGNFDSGDLFWSINGMGA 187

Query: 190 PDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVG 249
           PDL VIYVP GCKVENPIYL+Y S E G+ +SK+LP+SNPR  VLVEEGGE+GI+EEFVG
Sbjct: 188 PDLMVIYVPEGCKVENPIYLRYFSGETGDRESKRLPVSNPRGFVLVEEGGEIGIVEEFVG 247

Query: 250 KEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWTAVRQ 294
           K+    YW N VLEVV+ K GK++HSYLQ +S+ +AH+KWT VRQ
Sbjct: 248 KDEEGFYWTNPVLEVVVQKNGKLKHSYLQKESMASAHVKWTFVRQ 292

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21554655|gb|AAM63647.1| unknown [Arabidopsis thaliana]

 Score =  338 bits (867), Expect = 2e-90,   Method: Compositional matrix adjust.
 Identities = 173/285 (60%), Positives = 211/285 (74%), Gaps = 11/285 (3%)

Query: 13  NINRNPKLTPKRRAKPNKIRVSLQTTFPQATFSDPFVIQLAESLEDSLPSSSSSLPQPLP 72
           N++  PKL   RR     + V       QA+FSDPFV+QLAESLEDSL +S SS      
Sbjct: 15  NLSSKPKLKSNRRTTSTSVSVR-----AQASFSDPFVLQLAESLEDSLSASPSSSLP--- 66

Query: 73  LQKLRDSSSQTLLSTPWPSRKDEPFRFTDTSMIKSSQIQPIT---RPSSSLDVSTDAQFP 129
           LQ++RDSS++TLLSTPWPSRKDEPFRFTDTS+I+SSQI+PI+   R S  LD  T+ QF 
Sbjct: 67  LQRIRDSSAETLLSTPWPSRKDEPFRFTDTSLIRSSQIEPISTQQRNSEILDNLTETQFT 126

Query: 130 SLVLIDGFIQNSALNLSNLPDGVYVGSLLGVSDGIMKRVSDFISEFQCGDLFWSINGMGA 189
           + V+IDGF+ N  +  S+LPDGVY G   G+ D +  R+S+FI  F  GDLFWSINGMGA
Sbjct: 127 NAVIIDGFVSNLTIGPSDLPDGVYFGKYSGLPDELTNRISEFIGNFDSGDLFWSINGMGA 186

Query: 190 PDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVG 249
           PDL VIYVP GCKVENPIYL+Y S E G+ +SK+LP+SNPRV VLVEEGGE+ I+EEFVG
Sbjct: 187 PDLMVIYVPEGCKVENPIYLRYFSGETGDRESKRLPVSNPRVFVLVEEGGEISIVEEFVG 246

Query: 250 KEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWTAVRQ 294
           K+    YW N VLEVV+ K  K++HSYLQ +S+ +AHIKWT VRQ
Sbjct: 247 KDEEGFYWTNPVLEVVVQKNAKLKHSYLQKESMASAHIKWTFVRQ 291

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147775510|emb|CAN69419.1| hypothetical protein VITISV_028794 [Vitis vinifera]

 Score =  337 bits (863), Expect = 4e-90,   Method: Compositional matrix adjust.
 Identities = 187/305 (61%), Positives = 234/305 (76%), Gaps = 28/305 (9%)

Query: 1   MSALSFSPHLHININRNPKL----------TPKRRAKPNKIRVSLQTTFPQATFSDPFVI 50
           M+A   SPHL +N    PKL          TPK R+ P KIR         A FSDPFV+
Sbjct: 16  MAASLLSPHLLLN----PKLSIQTSASKFPTPKSRSTP-KIR---------AAFSDPFVL 61

Query: 51  QLAESLEDSLPSSSSSLPQPLPLQKLRDSSSQTLLSTPWPSRKDEPFRFTDTSMIKSSQI 110
           Q+AESLEDSL SSS+S P PL  QKLRD+SSQT+LSTPWPSRKDEPFRFTDTS+I+ SQ+
Sbjct: 62  QIAESLEDSLSSSSTSSPPPL--QKLRDASSQTVLSTPWPSRKDEPFRFTDTSLIRYSQV 119

Query: 111 QPITRPSSSLDVSTDAQFPSLVLIDGFIQNSALNLSNLPDGVYVGSLLGV-SDGIMKRVS 169
            PI+ P +S+ +STD QFP+L ++DG I  S  NLS LP GV+VGSL  + S+ I K VS
Sbjct: 120 TPISHPPTSIAISTDTQFPNLSIVDGHIVYSLSNLSQLPTGVFVGSLSSLPSETITKXVS 179

Query: 170 DFISEFQCGDLFWSINGMGAPDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNP 229
           +F++ F+ GDLFWS+NG+G PD+ V+YVPAGC+VE P+++ Y SVEGG++ SKKLP+SNP
Sbjct: 180 EFVANFE-GDLFWSLNGLGTPDMAVVYVPAGCRVEMPLHIVYYSVEGGDIGSKKLPVSNP 238

Query: 230 RVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKW 289
           RV VLVEEGGE+G+IEE+VG   N CYWAN+V EVVIG+G KV+HSY+Q+QSL+AAHIKW
Sbjct: 239 RVFVLVEEGGEIGVIEEYVGVGENKCYWANTVTEVVIGEGAKVKHSYIQSQSLSAAHIKW 298

Query: 290 TAVRQ 294
           T+V+Q
Sbjct: 299 TSVQQ 303

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449461525|ref|XP_004148492.1| PREDICTED: protein ABCI7, chloroplastic-like [Cucumis sativus] gi|449521999|ref|XP_004168016.1| PREDICTED: protein ABCI7, chloroplastic-like [Cucumis sativus]

 Score =  332 bits (850), Expect = 1e-88,   Method: Compositional matrix adjust.
 Identities = 178/308 (57%), Positives = 228/308 (74%), Gaps = 17/308 (5%)

Query: 1   MSALSFSPHLHINI-------NRNPKLTPKRRAKPNKI---RVSLQTTFPQATFSDPFVI 50
           M+  +F+PH+   +       + +   T KR+ K N I   RVSLQ + P  + SDPFV+
Sbjct: 1   MATFTFTPHIGGRLPTPSLSVSSSYSSTSKRKPKFNSITTTRVSLQASTP--SLSDPFVL 58

Query: 51  QLAESLEDSLPSSSSSLPQPLPLQKLRDSSSQTLLSTPWPSRKDEPFRFTDTSMIKSSQI 110
           QLAE+LEDSL SSSSS   P PLQKLR+SS++ LLSTPWPSR+DEPFRFTD S IK SQI
Sbjct: 59  QLAETLEDSLSSSSSSS-SPFPLQKLRESSAENLLSTPWPSRRDEPFRFTDVSFIKQSQI 117

Query: 111 QPITRPSSSLDVST---DAQFPSLVLIDGFIQNSALNLSNLPDGVYVGSLLGV-SDGIMK 166
            PI+ P    ++S+   + QF ++V++DG   NS  NL+ LP+GVYVGS + + S+ + K
Sbjct: 118 HPISNPPQFSELSSIPLETQFANVVIVDGHFVNSVSNLTELPNGVYVGSFIDLPSESVGK 177

Query: 167 RVSDFISEFQCGDLFWSINGMGAPDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPI 226
           RVS+F+     GDLFWSING+GAPDL V+YVPAGCKVENPI+ +Y S+ GG+  SK+L +
Sbjct: 178 RVSEFVDGKFAGDLFWSINGVGAPDLTVVYVPAGCKVENPIHFRYYSINGGDEGSKELAV 237

Query: 227 SNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAH 286
           SNPRV+VLVE GGE+ IIEEF+  +G   YW+N VLEVVIG GGKV+HSY+QNQSLNAAH
Sbjct: 238 SNPRVLVLVENGGEIEIIEEFLSGDGGKSYWSNPVLEVVIGSGGKVKHSYIQNQSLNAAH 297

Query: 287 IKWTAVRQ 294
           IKWT+V+Q
Sbjct: 298 IKWTSVQQ 305

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255588981|ref|XP_002534787.1| Protein sufD, putative [Ricinus communis] gi|223524572|gb|EEF27596.1| Protein sufD, putative [Ricinus communis]

 Score =  322 bits (826), Expect = 9e-86,   Method: Compositional matrix adjust.
 Identities = 187/302 (61%), Positives = 228/302 (75%), Gaps = 18/302 (5%)

Query: 1   MSALSFSPHLHININRNPKLTPKRRAKPNKIRVSLQ-TTFP--QATFSDPFVIQLAESLE 57
           MSAL F P ++       +L PK +   +K++ SL  TT P  QA FSDPFV+QLAE+LE
Sbjct: 1   MSALVFVPPVYTFTRITTRLKPKPK---HKVKTSLSLTTTPVIQAGFSDPFVLQLAETLE 57

Query: 58  DSLPSSSSSLPQPLPLQKLRDSSSQTLLSTPWPSRKDEPFRFTDTSMIKSSQIQPITRP- 116
           DSL  S S       LQKLRDS S++LLSTPWPSR+DEPFRFTDTS+IK SQI PI++P 
Sbjct: 58  DSLSPSPS-------LQKLRDSCSESLLSTPWPSRRDEPFRFTDTSLIKQSQIHPISKPP 110

Query: 117 --SSSLDVSTDAQFPSLVLIDGFIQNSALNLSNLPDGVYVGSLLGV-SDGIMKRVSDFIS 173
                 D+S DAQ P++V++DGFI NS  N  N PDGV+VGS+L    D I K VS +  
Sbjct: 111 PIDHLTDISKDAQLPNIVIVDGFILNSMSNSLNFPDGVFVGSMLNDPEDKIAKLVSKYFD 170

Query: 174 EFQCGDLFWSINGMGAPDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRVVV 233
           +FQ GDLFWSING+GAPD+ VIYVPAG +VENPI+L+Y+SVEGG   S KLP+SNPRV+V
Sbjct: 171 DFQWGDLFWSINGLGAPDVAVIYVPAGVRVENPIHLRYVSVEGGEEGSNKLPVSNPRVLV 230

Query: 234 LVEEGGEVGIIEEFVG-KEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWTAV 292
           +VEEGGEVGIIEEFV    G+ CYWANSVLEV+I +G KV+HSY+Q+QSLN+AHIKWTAV
Sbjct: 231 VVEEGGEVGIIEEFVSIGSGDKCYWANSVLEVMIEEGAKVKHSYIQSQSLNSAHIKWTAV 290

Query: 293 RQ 294
           +Q
Sbjct: 291 QQ 292

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224138876|ref|XP_002326712.1| predicted protein [Populus trichocarpa] gi|222834034|gb|EEE72511.1| predicted protein [Populus trichocarpa]

 Score =  305 bits (781), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 185/279 (66%), Positives = 216/279 (77%), Gaps = 16/279 (5%)

Query: 23  KRRAKPNKIRVSLQTTFPQATFSDPFVIQLAESLEDSLPSSSSSLPQPLPLQKLRDSSSQ 82
           K++ KP    +S  T   QA+FSDPFV+QLAE+LEDSL  S S       LQ+LRDSSS+
Sbjct: 3   KQKQKPKSFSLST-TPITQASFSDPFVLQLAETLEDSLSPSVS-------LQRLRDSSSE 54

Query: 83  TLLSTPWPSRKDEPFRFTDTSMIKSSQIQPITRPSSSLD----VSTDAQFPSLVLIDGFI 138
           +LLST WPSRKDEPFRFTDTS I+ SQI PIT+P   LD    ++ D   PS+V+ DGF+
Sbjct: 55  SLLSTSWPSRKDEPFRFTDTSFIRLSQIVPITKPPQ-LDYLPSINEDTLLPSIVIADGFV 113

Query: 139 QNSALNLSNLPDGVYVGSLLG-VSDGIMKRVSDFISEFQCGDLFWSINGMGAPDLGVIYV 197
            NS   LS LPDGVYVGSLL   SD I +RV +F+ +F+ GDLFWSING+GA D+ V+YV
Sbjct: 114 LNSMSKLSTLPDGVYVGSLLSDSSDRIAERVLEFVGDFEWGDLFWSINGLGAHDMTVVYV 173

Query: 198 PAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVGKEGND--C 255
           PAG KVENPI+ KY+SVEGG   SKKLP+SNPRV V+VEEGGEVGIIEEFV KEGND   
Sbjct: 174 PAGVKVENPIHFKYVSVEGGEKGSKKLPVSNPRVFVVVEEGGEVGIIEEFVSKEGNDDRY 233

Query: 256 YWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWTAVRQ 294
           YWAN VLEVVIGKG KVRHSY+Q+QSLN+AHIKWTAVRQ
Sbjct: 234 YWANPVLEVVIGKGAKVRHSYVQSQSLNSAHIKWTAVRQ 272

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359475767|ref|XP_003631753.1| PREDICTED: LOW QUALITY PROTEIN: protein ABCI7, chloroplastic-like [Vitis vinifera]

 Score =  301 bits (772), Expect = 2e-79,   Method: Compositional matrix adjust.
 Identities = 188/311 (60%), Positives = 232/311 (74%), Gaps = 34/311 (10%)

Query: 1   MSALSFSPHLHININRNPKL----------TPKRRAKPNKIRVSLQTTFPQATFSDPFVI 50
           M+A   SPHL +N    PKL          TPK R+ P KIR         ATFSDPFV 
Sbjct: 1   MAATLLSPHLLLN----PKLSIQTSASKFPTPKSRSTP-KIR---------ATFSDPFVP 46

Query: 51  QLAESLEDSLPSSSSSLPQPLPLQKLRDSSSQTLLSTPWPSRKDEPFRFTDTSMIKSSQI 110
           Q+AESLEDSL SSS+S P PL  QKLRD+SSQT+LSTPWPSRKDEPFRFTDTS+I+ SQ+
Sbjct: 47  QIAESLEDSLSSSSTSSPPPL--QKLRDASSQTVLSTPWPSRKDEPFRFTDTSLIRYSQV 104

Query: 111 QPITRPSSSLDVSTDAQFPSLVLIDGFIQNSALNLSNLPDGVYVGSLLGV-SDGIMKRVS 169
            PI+ P +S+ +STD QFP+L ++DG I  S  NLS LP GV+VGSL  + S+ I KRVS
Sbjct: 105 TPISHPPTSIAISTDTQFPNLCIVDGHIIYSLSNLSQLPTGVFVGSLSSLPSETITKRVS 164

Query: 170 DFISEFQCGDLFWSINGMGAPDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNP 229
           +F++ F+ GDLFWS+NG+G  D+ V+YVPAGC+VE P+++ Y SVEGG++  KKLP+SNP
Sbjct: 165 EFVANFE-GDLFWSLNGLGTLDMVVVYVPAGCRVEMPLHIVYXSVEGGDIGFKKLPVSNP 223

Query: 230 RVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEV------VIGKGGKVRHSYLQNQSLN 283
           RV VLVEEGGE+G IEEFVG   N CYWAN+V EV      VIG+G KV+HSY+Q+QSL+
Sbjct: 224 RVFVLVEEGGEIGEIEEFVGGGENKCYWANAVTEVRIIIILVIGEGAKVKHSYIQSQSLS 283

Query: 284 AAHIKWTAVRQ 294
           AAHIKWT+V+Q
Sbjct: 284 AAHIKWTSVQQ 294

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

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	300
TAIR|locus:2033734	475	ABCI7 "AT1G32500" [Arabidopsis	0.913	0.576	0.526	9.6e-73

TAIR|locus:2033734 ABCI7 "AT1G32500" [Arabidopsis thaliana (taxid:3702)]

 Score = 735 (263.8 bits), Expect = 9.6e-73, P = 9.6e-73
 Identities = 150/285 (52%), Positives = 184/285 (64%)

Query:    13 NINRNPKLTPKRRAKPNKIRVSLQTTFPQATFSDPFVIQLAESLEDXXXXXXXXXXXXXX 72
             N++  PKL   RR     + V  Q     A+FSDPFV+QLAESLED              
Sbjct:    15 NLSSKPKLKSNRRTTSTSVSVRAQ-----ASFSDPFVLQLAESLEDSLSASPSSSLPLQ- 68

Query:    73 XXKLRDSSSQTLLSTPWPSRKDEPFRFTDTSMIKSSQIQPIT---RPSSSLDVSTDAQFP 129
               ++RDSS++TLLSTPWPSRKDEPFRFTDTS+I+SSQI+PI+   R S  LD  T+ QF 
Sbjct:    69 --RIRDSSAETLLSTPWPSRKDEPFRFTDTSLIRSSQIEPISTQQRNSEILDNLTETQFT 126

Query:   130 SLVLIDGFIQNSALNLSNLPDGVYVGSLLGVSDGIMKRVSDFISEFQCGDLFWSINGMGA 189
             + V+IDGF+ N  +  S+LPDGVY G   G+ D +  R+S+FI  F  GDLFWSINGMGA
Sbjct:   127 NAVIIDGFVSNLTIGPSDLPDGVYFGKYSGLPDELTNRISEFIGNFDSGDLFWSINGMGA 186

Query:   190 PDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRXXXXXXXXXXXXXXXXXXX 249
             PDL VIYVP GCKVENPIYL+Y S E G+ +SK+LP+SNPR                   
Sbjct:   187 PDLMVIYVPEGCKVENPIYLRYFSGETGDRESKRLPVSNPRVFVLVEEGGEIGIVEEFVG 246

Query:   250 XXXNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWTAVRQ 294
                   YW N VLEVV+ K  K++HSYLQ +S+ +AHIKWT VRQ
Sbjct:   247 KDEEGFYWTNPVLEVVVQKNAKLKHSYLQKESMASAHIKWTFVRQ 291


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        0.317   0.134   0.395    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      300       262   0.00091  114 3  11 22  0.49    33
                                                     32  0.49    36


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:  603 (64 KB)
  Total size of DFA:  185 KB (2106 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:  20.41u 0.10s 20.51t   Elapsed:  00:00:01
  Total cpu time:  20.41u 0.10s 20.51t   Elapsed:  00:00:01
  Start:  Sat May 11 11:43:01 2013   End:  Sat May 11 11:43:02 2013

GO:0005215 "transporter activity" evidence=ISS

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0016226 "iron-sulfur cluster assembly" evidence=IEA;RCA;IDA

GO:0006810 "transport" evidence=ISS

GO:0005515 "protein binding" evidence=IPI

GO:0009536 "plastid" evidence=IDA

GO:0009793 "embryo development ending in seed dormancy" evidence=RCA;IMP

GO:0010027 "thylakoid membrane organization" evidence=RCA;IMP

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0006364 "rRNA processing" evidence=RCA

GO:0006569 "tryptophan catabolic process" evidence=RCA

GO:0009684 "indoleacetic acid biosynthetic process" evidence=RCA

GO:0009902 "chloroplast relocation" evidence=RCA

GO:0010207 "photosystem II assembly" evidence=RCA

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=RCA

GO:0034660 "ncRNA metabolic process" evidence=RCA

GO:0035304 "regulation of protein dephosphorylation" evidence=RCA

GO:0042793 "transcription from plastid promoter" evidence=RCA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	300
pfam01458	230	pfam01458, UPF0051, Uncharacterized protein family	1e-12
COG0719	412	COG0719, SufB, Cysteine desulfurase activator SufB	5e-12
TIGR01981	275	TIGR01981, sufD, FeS assembly protein SufD	1e-10

>gnl|CDD|216514 pfam01458, UPF0051, Uncharacterized protein family (UPF0051)

 Score = 66.1 bits (162), Expect = 1e-12
 Identities = 23/68 (33%), Positives = 38/68 (55%), Gaps = 1/68 (1%)

Query: 227 SNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAH 286
             PR +++VEEG EV IIE        D    N V E+++G+G +++++ +QN+   + H
Sbjct: 6   QFPRNLIIVEEGAEVTIIEGCASPGAGD-GLHNGVTEIIVGEGARLKYTKIQNEGKGSIH 64

Query: 287 IKWTAVRQ 294
              T VR 
Sbjct: 65  FATTRVRL 72

Length = 230

>gnl|CDD|223791 COG0719, SufB, Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]

 Score = 65.4 bits (160), Expect = 5e-12
 Identities = 48/205 (23%), Positives = 82/205 (40%), Gaps = 15/205 (7%)

Query: 90  PSRKDEPFRFT--DTSMIKSSQIQPITRPSSSLDVSTDAQFPSLVLIDGFIQNSALNLSN 147
           P+R+DE +     D     +       R          AQ  S+V+        A++   
Sbjct: 35  PTRRDELWELDFLDRLYYLAPGEASFKRLGIPDAEEVLAQCDSVVV------YHAVSGEL 88

Query: 148 LPDGVYVGSLLGVSDGIMKRVSDFISEFQCGDLFWSINGMGAPDLGVIYVPAGCKVENPI 207
            P+GV V  +L     ++K+           D F ++N     D   IYVP G +V  PI
Sbjct: 89  APEGVIVEDILKEHPDLVKKYFGKGVVPDDDDKFAALNAALFSDGTFIYVPKGVEVPTPI 148

Query: 208 YLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIG 267
            L ++             +   R +++VEEG E+ +IE      G+     N V+E+ +G
Sbjct: 149 QLYFIINGENTG------VQFERTLIIVEEGAEITVIEGCSAPVGSG-SLHNGVVEIFVG 201

Query: 268 KGGKVRHSYLQNQSLNAAHIKWTAV 292
           +   + ++ +QN S    H+   A 
Sbjct: 202 ENASLTYTTVQNWSPVYNHLTKRAA 226

Length = 412

>gnl|CDD|233666 TIGR01981, sufD, FeS assembly protein SufD

 Score = 60.7 bits (148), Expect = 1e-10
 Identities = 28/101 (27%), Positives = 48/101 (47%), Gaps = 9/101 (8%)

Query: 194 VIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVGKEGN 253
           V+Y+P G + E PI LK++      V         PR++++VEEG +  ++E  +  EG 
Sbjct: 9   VLYIPKGVEAEEPIELKFILNSENRV-------LAPRLLIVVEEGAKATVLERHLSGEG- 60

Query: 254 DCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWTAVRQ 294
           D +  N V+E+ +G+   V    +Q  S  + H        
Sbjct: 61  DAF-LNGVVEINVGENASVEFIKVQFLSATSFHFSNVRATL 100

This protein, SufD, forms a cytosolic complex SufBCD. This complex enhances the cysteine desulfurase of SufSE. The system, together with SufA, is believed to act in iron-sulfur cluster formation during oxidative stress. SufB and SufD are homologous. Note that SufC belongs to the family of ABC transporter ATP binding proteins, so this protein, encoded by an adjacent gene, has often been annotated as a transporter component [Biosynthesis of cofactors, prosthetic groups, and carriers, Other]. Length = 275

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	300
TIGR01980	448	sufB FeS assembly protein SufB. This protein, SufB	100.0
PRK11814	486	cysteine desulfurase activator complex subunit Suf	100.0
PRK10948	424	cysteine desulfurase activator complex subunit Suf	100.0
CHL00085	485	ycf24 putative ABC transporter	100.0
TIGR01981	366	sufD FeS assembly protein SufD, group 1. This prot	99.98
COG0719	412	SufB Cysteine desulfurase activator SufB [Posttran	99.94
PF01458	229	UPF0051: Uncharacterized protein family (UPF0051);	99.02
PF01458	229	UPF0051: Uncharacterized protein family (UPF0051);	95.7
PRK10948	424	cysteine desulfurase activator complex subunit Suf	91.26
TIGR01981	366	sufD FeS assembly protein SufD, group 1. This prot	88.69
TIGR01980	448	sufB FeS assembly protein SufB. This protein, SufB	85.73
PF01774	209	UreD: UreD urease accessory protein; InterPro: IPR	83.2
PRK11814	486	cysteine desulfurase activator complex subunit Suf	81.71

>TIGR01980 sufB FeS assembly protein SufB

Probab=100.00  E-value=2.2e-38  Score=308.81  Aligned_cols=222  Identities=16%  Similarity=0.158  Sum_probs=186.2

Q ss_pred             CChhHHHHHHHHHHHhhcCCCCC--CCCCCCCCCCCccccccCCCCCCC----CCC---C---CCCC-----CCCCcceE
Q 022235           69 QPLPLQKLRDSSSQTLLSTPWPS--RKDEPFRFTDTSMIKSSQIQPITR----PSS---S---LDVS-----TDAQFPSL  131 (300)
Q Consensus        69 ~p~~L~~~R~~a~e~~~~~g~Pt--rk~E~WryTdL~~l~~~~~~~~~~----~~~---~---~~~~-----~~~~~~~l  131 (300)
                      +|.||.++|++|++.|.++|||+  +|+|+|||||++.+...++.....    +..   .   ..++     ..++.. +
T Consensus        35 ep~wl~~~R~~A~~~~~~l~~P~~~~~~e~w~~t~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~-~  113 (448)
T TIGR01980        35 EPDWMLDFRLRALELFEKMPMPTWGPDLSGIDYEDIVYYSKPDKKKATSWDEVPDEIKDTFEKLGIPEAERKALAGVG-A  113 (448)
T ss_pred             CCHHHHHHHHHHHHHHhhCCCCCCCCCCCCcCccccEEeecccccccCChhhCCHHHHHHHHHcCCChHHhhhcCceE-E
Confidence            79999999999999999999999  999999999998776543311110    111   0   1122     234456 9


Q ss_pred             EEECCEEeccccCCCCCCCCeEEEecccCc---hhHHHHhhccccccccCcHhHHHhhccCCceEEEEECCCceecccEE
Q 022235          132 VLIDGFIQNSALNLSNLPDGVYVGSLLGVS---DGIMKRVSDFISEFQCGDLFWSINGMGAPDLGVIYVPAGCKVENPIY  208 (300)
Q Consensus       132 vfvnG~~~~~~s~~~~lp~GV~v~~l~~a~---~~~~~~~~~~~~~~~~~d~f~aLN~A~~~dG~~I~Vp~g~~le~PI~  208 (300)
                      +|+||.+...+++.. .++||+++++++|.   ++++++|+++... ..+|+|++||+|++++|+|||||+|+++++||+
T Consensus       114 ~~~~~~~~~~ls~~l-~~~GV~~~~l~~a~~~~~~~v~~~l~~~~~-~~~~~f~aLn~A~~~~G~~i~Vp~g~~~~~Pi~  191 (448)
T TIGR01980       114 QYDSEVIYHNIKEDL-EEKGVIFCDMDTALKEYPDLVKEYFMSVVP-PSDNKFAALNGAVWSGGSFVYVPKGVRVDMPLQ  191 (448)
T ss_pred             EEcCEEEEEcchhHH-hcCCEEEecHHHHHHhCHHHHHHHHhccCC-CcccHHHhHhhcccCceEEEEECCCCEeCCCEE
Confidence            999999998887643 28899999999886   6779999988544 247899999999999999999999999999999


Q ss_pred             EEEEEcCCCccCCCCCcceeeeEEEEeCCCCeEEEEEEeecCCCCcceeeeeEEEEEEcCCCEEEEEEEeecCCCcEEEe
Q 022235          209 LKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIK  288 (300)
Q Consensus       209 i~~~~~~~~~~~~~~~~~~~~R~lI~veegA~atIIE~~~~~~~~~~~~~n~v~EI~v~~~A~v~~~~iQ~~~~~s~h~~  288 (300)
                      ++|+.++.+       ..+++|++|++|+||+++|||+|.+......+++|+++||++++||+|+|+++|+|+.+++|+.
T Consensus       192 ~~~~~~~~~-------~~~~~r~lIi~ee~s~~~iie~~~s~~~~~~~~~~~v~Ei~v~~~A~v~~~~iq~~~~~~~~~~  264 (448)
T TIGR01980       192 TYFRINSEN-------TGQFEHTLIIADEGASVHYIEGCSAPIYSTNSLHAAVVELIVKEDARVRYSTVQNWSKNVYNLV  264 (448)
T ss_pred             EEEEEcCCc-------cceeeeEEEEECCCCEEEEEEeccccCCCccceEEEEEEEEEcCCCEEEEEEEeecCCCeEEEE
Confidence            999987643       4688999999999999999999998522356899999999999999999999999999999999


Q ss_pred             eeEEEEcCCCCC
Q 022235          289 WTAVRQLVVMSL  300 (300)
Q Consensus       289 ~~~v~q~~dS~l  300 (300)
                      ++++.++++|++
T Consensus       265 ~~~~~~~~~a~~  276 (448)
T TIGR01980       265 TKRALVEENGTM  276 (448)
T ss_pred             EEEEEEcCCCEE
Confidence            999999999864

This protein, SufB, forms a cytosolic complex SufBCD. This complex enhances the cysteine desulfurase of SufSE. The system, together with SufA, is believed to act in iron-sulfur cluster formation during oxidative stress. Note that SufC belongs to the family of ABC transporter ATP binding proteins, so this protein, encoded by an adjacent gene, has often been annotated as a transporter component.

>PRK11814 cysteine desulfurase activator complex subunit SufB; Provisional

Probab=100.00  E-value=1.8e-36  Score=297.50  Aligned_cols=222  Identities=14%  Similarity=0.129  Sum_probs=182.8

Q ss_pred             CChhHHHHHHHHHHHhhcCCCCC---CCCCCCCCCCCccccccCC---CCC--CCCCC------CCCCC--CC-------
Q 022235           69 QPLPLQKLRDSSSQTLLSTPWPS---RKDEPFRFTDTSMIKSSQI---QPI--TRPSS------SLDVS--TD-------  125 (300)
Q Consensus        69 ~p~~L~~~R~~a~e~~~~~g~Pt---rk~E~WryTdL~~l~~~~~---~~~--~~~~~------~~~~~--~~-------  125 (300)
                      +|.||.++|++|++.|.+++||+   +|.|+|+|||+..+...++   .+.  ..+.+      ...++  +.       
T Consensus        50 ep~Wl~~~R~~A~~~~~~l~~P~~~~~~~e~w~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~  129 (486)
T PRK11814         50 EPEWMLEWRLKAYRHWLTMEEPHWAKVHYPPIDYQDISYYSAPKCKSKPKSLDEVDPELLETFEKLGIPLREQKRLAGRE  129 (486)
T ss_pred             CcHHHHHHHHHHHHHHHcCCCCCCCCCCCCCCCcccceeeeccccccccCCcccCCHHHHHHHHhcCCCHHHHhhhhccc
Confidence            79999999999999999999999   8999999999987765333   110  01111      01122  11       


Q ss_pred             CCcceEEEECCEEeccccCCCCCCCCeEEEecccCc---hhHHHHhhccccccccCcHhHHHhhccCCceEEEEECCCce
Q 022235          126 AQFPSLVLIDGFIQNSALNLSNLPDGVYVGSLLGVS---DGIMKRVSDFISEFQCGDLFWSINGMGAPDLGVIYVPAGCK  202 (300)
Q Consensus       126 ~~~~~lvfvnG~~~~~~s~~~~lp~GV~v~~l~~a~---~~~~~~~~~~~~~~~~~d~f~aLN~A~~~dG~~I~Vp~g~~  202 (300)
                      .... ++|++|.+...++... .++||+++++++|.   ++++++|+++... ..+|+|++||+|++++|+|||||+|++
T Consensus       130 ~~~~-~v~~~~~~~~~ls~~l-~~~GV~~~~l~~a~~~~~~lv~~~l~~~~~-~~~~~f~aLn~A~~~~G~fi~Vp~gv~  206 (486)
T PRK11814        130 VAVD-AVFDSVSVATTFKEKL-AEAGVIFCSISEAIQEHPELVKKYLGSVVP-VNDNFFAALNSAVFSDGSFVYIPKGVR  206 (486)
T ss_pred             cceE-EEEcCeEEEeccCchh-hcCCeEEEcHHHHhhhhHHHHHHHhccCCC-CCchHHHHHHHhhcCCeEEEEECCCCc
Confidence            2345 9999999998887643 28999999999886   6779999988544 347899999999999999999999999


Q ss_pred             ecccEEEEEEEcCCCccCCCCCcceeeeEEEEeCCCCeEEEEEEeecCCCCcceeeeeEEEEEEcCCCEEEEEEEeec--
Q 022235          203 VENPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKVRHSYLQNQ--  280 (300)
Q Consensus       203 le~PI~i~~~~~~~~~~~~~~~~~~~~R~lI~veegA~atIIE~~~~~~~~~~~~~n~v~EI~v~~~A~v~~~~iQ~~--  280 (300)
                      ++.||++++..++.+       ..+++|++|++|+||+++|||+|.+..+...+++|+|+||++++||+|+|++||+|  
T Consensus       207 ~~~pi~~~~~~~~~~-------~~~~~r~lIi~ee~S~~~iiE~~~s~~~~~~~~~~~v~Ei~v~~~A~l~~~~iq~~~~  279 (486)
T PRK11814        207 CPMELSTYFRINAAN-------TGQFERTLIIADEGSYVSYLEGCTAPMRDENQLHAAVVELVALDDAEIKYSTVQNWYP  279 (486)
T ss_pred             eeEEEEEEEeecCCC-------cceeeEEEEEECCCCEEEEEEEecCCCCCccceeeEEEEEEECCCCEEEEEEEEeecC
Confidence            999999998876543       47899999999999999999999985233568999999999999999999999999  


Q ss_pred             -----CCCcEEEeeeEEE-EcCCCCC
Q 022235          281 -----SLNAAHIKWTAVR-QLVVMSL  300 (300)
Q Consensus       281 -----~~~s~h~~~~~v~-q~~dS~l  300 (300)
                           +.+++|+.+.++. ++++|++
T Consensus       280 ~~~~~~~~~~~~~~~~~~~~~~~s~~  305 (486)
T PRK11814        280 GDENGKGGIYNFVTKRGLCRGENSKI  305 (486)
T ss_pred             ccccCCCceEEEeeeEEEEecCCcEE
Confidence                 8889999999988 9999863

>PRK10948 cysteine desulfurase activator complex subunit SufD; Provisional

Probab=100.00  E-value=6.3e-36  Score=289.24  Aligned_cols=210  Identities=18%  Similarity=0.178  Sum_probs=168.2

Q ss_pred             HHHHHHHHHhhcCCCCCCCCCCCCCCCCccccccCCCCCC-CC--CC-CCCCC-CCCCcceEEEECCEEeccccCCCCCC
Q 022235           75 KLRDSSSQTLLSTPWPSRKDEPFRFTDTSMIKSSQIQPIT-RP--SS-SLDVS-TDAQFPSLVLIDGFIQNSALNLSNLP  149 (300)
Q Consensus        75 ~~R~~a~e~~~~~g~Ptrk~E~WryTdL~~l~~~~~~~~~-~~--~~-~~~~~-~~~~~~~lvfvnG~~~~~~s~~~~lp  149 (300)
                      ++|++||+.|.++|||++|+|+||||||+.+....|.+.. ..  .. ...++ +.+.++ +||+||.+.+.+|+.. ++
T Consensus        28 ~~r~~a~~~~~~~glPt~k~E~WkyT~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-lvfvnG~~~~~ls~~~-~~  105 (424)
T PRK10948         28 PQARQHWQQVLRLGLPTRKHEDWKYTPLEGLLNSQFVFSIAAEISPAQRDALALTIDAVR-LVFVDGRFSPALSDST-EG  105 (424)
T ss_pred             HHHHHHHHHHHhCCCCCCCCcCcCCCCHHHHhccccccccccccChhhhhhccccCCceE-EEEECCEEchhhCccc-CC
Confidence            8999999999999999999999999999999876553211 11  11 11122 335556 9999999999998843 33


Q ss_pred             CCeEEEecccCchhHHHHhhccccccccCcHhHHHhhccCCceEEEEECCCceecccEEEEEEEcCCCccCCCCCcceee
Q 022235          150 DGVYVGSLLGVSDGIMKRVSDFISEFQCGDLFWSINGMGAPDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNP  229 (300)
Q Consensus       150 ~GV~v~~l~~a~~~~~~~~~~~~~~~~~~d~f~aLN~A~~~dG~~I~Vp~g~~le~PI~i~~~~~~~~~~~~~~~~~~~~  229 (300)
                      + +.++++. +...     +....   ..|+|++||+|++++|++||||+|+.+++||+|+|+.++.++   ......++
T Consensus       106 ~-v~v~~~~-a~~~-----~~~~~---~~d~f~aLN~A~~~~g~~i~v~~~~~~~~Pi~i~~~~~~~~~---~~~~~~~~  172 (424)
T PRK10948        106 P-YQVSIND-DRQG-----LPAAI---QPEVFLHLTESLAQSVTHIRLPRGQRPAKPLYLLHITQGVAG---EELNTAHY  172 (424)
T ss_pred             C-eEEEEch-hhhh-----ccccc---cccHHHHHHHhhCcCCEEEEECCCCccccCEEEEEEecCCCc---cccccccc
Confidence            4 8887755 3222     11111   257999999999999999999999999999999999766321   00025799


Q ss_pred             eEEEEeCCCCeEEEEEEeecCCCCcceeeeeEEEEEEcCCCEEEEEEEeecCCCcEEEeeeEEEEcCCCCC
Q 022235          230 RVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWTAVRQLVVMSL  300 (300)
Q Consensus       230 R~lI~veegA~atIIE~~~~~~~~~~~~~n~v~EI~v~~~A~v~~~~iQ~~~~~s~h~~~~~v~q~~dS~l  300 (300)
                      |++|++|+||+++|||+|.+.+ +..+|+|.++||++++||+|+|+++|.++.+++|+.++++.++++|++
T Consensus       173 r~lI~~e~~a~~tiie~~~s~~-~~~~~~n~v~ei~~~~~A~l~~~~lq~~~~~~~~~~~~~~~~~~~s~~  242 (424)
T PRK10948        173 RHHLDLAEGAEATVIEHFVSLN-EARHFTGARLTMNVADNAHLNHIKLAFENPSSYHFAHNDLLLGRDARA  242 (424)
T ss_pred             eEEEEECCCCEEEEEEEeecCC-CCceeEeeeEEEEECCCCEEEEEEEEccCCCcEEEEEeEEEEcCCCEE
Confidence            9999999999999999999853 356899999999999999999999999999999999999999999874

>CHL00085 ycf24 putative ABC transporter

Probab=100.00  E-value=1.9e-35  Score=290.37  Aligned_cols=222  Identities=14%  Similarity=0.092  Sum_probs=176.7

Q ss_pred             CChhHHHHHHHHHHHhhcCCCCC---CCCCCCCCCCCcc----ccccCCCCCC-CCCC------CCCCCC-------CCC
Q 022235           69 QPLPLQKLRDSSSQTLLSTPWPS---RKDEPFRFTDTSM----IKSSQIQPIT-RPSS------SLDVST-------DAQ  127 (300)
Q Consensus        69 ~p~~L~~~R~~a~e~~~~~g~Pt---rk~E~WryTdL~~----l~~~~~~~~~-~~~~------~~~~~~-------~~~  127 (300)
                      +|.||.++|++|++.|.++|||+   +|.|+|||||++.    +......... .+.+      ...++.       ...
T Consensus        51 ep~Wl~~~R~~A~~~~~~~~~P~~~~~~~e~w~~t~i~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~  130 (485)
T CHL00085         51 EPIFLLIFRLKAYKKWKKMKEPDWAFLKYPEIDYQDISYYSAPKLKKKLNSLDEVDPELLDTFEKLGISLNEQKRLANVA  130 (485)
T ss_pred             CcHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCchhceeeeccccccccCChhhCCHHHHHHHHhcCCCHHHHhhhcCCc
Confidence            79999999999999999999999   8999999999983    2211100000 0000      011111       123


Q ss_pred             cceEEEECCEEeccccCCCCCCCCeEEEecccCc---hhHHHHhhccccccccCcHhHHHhhccCCceEEEEECCCceec
Q 022235          128 FPSLVLIDGFIQNSALNLSNLPDGVYVGSLLGVS---DGIMKRVSDFISEFQCGDLFWSINGMGAPDLGVIYVPAGCKVE  204 (300)
Q Consensus       128 ~~~lvfvnG~~~~~~s~~~~lp~GV~v~~l~~a~---~~~~~~~~~~~~~~~~~d~f~aLN~A~~~dG~~I~Vp~g~~le  204 (300)
                      .. +||++|.+...++... .++||+++++++|.   ++++++|+++... ..+|+|++||+|++++|+|||||+|++++
T Consensus       131 ~~-~v~~~~~~~~~l~~~l-~~~Gv~~~~l~~a~~~~~~lv~~yl~~~~~-~~~~~f~aLn~A~~~~G~fi~Vp~gv~~~  207 (485)
T CHL00085        131 VD-AVFDSVSIGTTFKEEL-AKAGVIFCSISEAIQKYPELIKKYLGSVVP-IGDNYFAALNSAVFSDGSFCYIPKDTKCP  207 (485)
T ss_pred             eE-EEEccEEEEeeccchh-hcCCeEEEcHHHHHhhhHHHHHHHhcccCC-CCchHHHHHHHHHcCCeEEEEECCCCcce
Confidence            35 8999999988877643 28899999999886   6678999988544 24789999999999999999999999999


Q ss_pred             ccEEEEEEEcCCCccCCCCCcceeeeEEEEeCCCCeEEEEEEeecCCCCcceeeeeEEEEEEcCCCEEEEEEEeecC---
Q 022235          205 NPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKVRHSYLQNQS---  281 (300)
Q Consensus       205 ~PI~i~~~~~~~~~~~~~~~~~~~~R~lI~veegA~atIIE~~~~~~~~~~~~~n~v~EI~v~~~A~v~~~~iQ~~~---  281 (300)
                      .||++++..++++       ..+++|++|++|+||+++|||+|.+..+...+++|+|+||++++||+|+|++||+|+   
T Consensus       208 ~pl~~~~~~~~~~-------~~~~~r~lIi~eega~~~iiE~~~s~~~~~~~~~~~v~Ei~v~~~A~l~~~~iq~~~~~~  280 (485)
T CHL00085        208 LELSTYFRINNEE-------SGQFERTLIIAEENSYVSYLEGCTAPQYDTNQLHAAVVELIALENAEIKYSTVQNWYAGD  280 (485)
T ss_pred             EEEEEEEeecCCc-------cceeeeEEEEECCCCEEEEEEEeccCCCCccceEEEEEEEEECCCCEEEEEEEEeecCcc
Confidence            9999988776533       478999999999999999999999853345789999999999999999999999996   


Q ss_pred             ----CCcEEEeeeEEEE-cCCCCC
Q 022235          282 ----LNAAHIKWTAVRQ-LVVMSL  300 (300)
Q Consensus       282 ----~~s~h~~~~~v~q-~~dS~l  300 (300)
                          .+++|+.+.++.+ +++|++
T Consensus       281 ~~~~~~~~~~~~~~~~~~~~~a~~  304 (485)
T CHL00085        281 ENGEGGIYNFVTKRGLCAGKNSKI  304 (485)
T ss_pred             ccccCceeeeeeeEEEEEcCCcEE
Confidence                6778877777666 788864

>TIGR01981 sufD FeS assembly protein SufD, group 1

Probab=99.98  E-value=5.6e-31  Score=251.40  Aligned_cols=193  Identities=26%  Similarity=0.371  Sum_probs=156.0

Q ss_pred             CCCCCCCCCCCCCCccccccCCCCCC-CCCC--CCCCCCCCCcceEEEECCEEeccccCCCCCCCCeEEEecccCchhHH
Q 022235           89 WPSRKDEPFRFTDTSMIKSSQIQPIT-RPSS--SLDVSTDAQFPSLVLIDGFIQNSALNLSNLPDGVYVGSLLGVSDGIM  165 (300)
Q Consensus        89 ~Ptrk~E~WryTdL~~l~~~~~~~~~-~~~~--~~~~~~~~~~~~lvfvnG~~~~~~s~~~~lp~GV~v~~l~~a~~~~~  165 (300)
                      ||++|+|+||||||+.+....+.+.. .+..  ....+..+..+ +||+||.+...++....++.|+.+..+.+..    
T Consensus         1 ~P~~~~e~wkyt~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-lv~~~G~~~~~l~~~~~~~~~~~~~~l~~~~----   75 (366)
T TIGR01981         1 LPPRRIEEWRYTDLENLLNESFQPRAAVPQEVQAAGLPLTKSPR-LVFVDGVIVPDLSDALPLHPELLEDLLDALA----   75 (366)
T ss_pred             CCCCcccCccCCCHHHhhhcccCcccCCCccccccccccCCcee-EEEECCEEecChhhhhccCcceEEeehhccc----
Confidence            69999999999999998876664321 1111  11222224456 9999999999888765567788877765321    


Q ss_pred             HHhhccccccccCcHhHHHhhccCCceEEEEECCCceecccEEEEEEEcCCCccCCCCCcceeeeEEEEeCCCCeEEEEE
Q 022235          166 KRVSDFISEFQCGDLFWSINGMGAPDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIE  245 (300)
Q Consensus       166 ~~~~~~~~~~~~~d~f~aLN~A~~~dG~~I~Vp~g~~le~PI~i~~~~~~~~~~~~~~~~~~~~R~lI~veegA~atIIE  245 (300)
                             .. ..+|+|++||.|++++|++||||+|+++++||+|.|+.++...      ...++|++|++|+||+++|||
T Consensus        76 -------~~-~~~~~~~aln~a~~~~G~~i~v~~~~~~~~Pi~i~~~~~~~~~------~~~~~~~~i~v~~~s~~~iie  141 (366)
T TIGR01981        76 -------VL-SDEDRFLALNAALFNDGTVLYVPKGVEVEEPIEIKFIGVGGEK------NFVHPRLLIIVEKGSKITVIE  141 (366)
T ss_pred             -------Cc-CCccHHHHHHHHHhCCeEEEEECCCCCcCCCEEEEEEEcCCCc------cceeeEEEEEECCCCEEEEEE
Confidence                   11 2478999999999999999999999999999999999876321      367999999999999999999


Q ss_pred             EeecCCC-CcceeeeeEEEEEEcCCCEEEEEEEeecCCCcEEEeeeEEEEcCCCCC
Q 022235          246 EFVGKEG-NDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWTAVRQLVVMSL  300 (300)
Q Consensus       246 ~~~~~~~-~~~~~~n~v~EI~v~~~A~v~~~~iQ~~~~~s~h~~~~~v~q~~dS~l  300 (300)
                      +|.+... ...+|+|.++||++++||+|+|+++|+|+.+++|+.++++.|+++|++
T Consensus       142 ~~~~~~~~~~~~~~~~~~ei~~~~~A~l~~~~iq~~~~~~~~~~~~~~~~~~~a~~  197 (366)
T TIGR01981       142 RFETISLNSGKAFTNSVVEITVGANASVIFVKVQFFSKNSTHFSNHRAFIGRDATL  197 (366)
T ss_pred             EecCCCCCCcccEEEEEEEEEECCCCEEEEEEEEcCCCCcEEEEEeEEEEcCCCEE
Confidence            9987531 234799999999999999999999999999999999999999999874

This protein, SufD, forms a cytosolic complex SufBCD. This complex enhances the cysteine desulfurase of SufSE. The system, together with SufA, is believed to act in iron-sulfur cluster formation during oxidative stress. SufB and SufD are homologous. Note that SufC belongs to the family of ABC transporter ATP binding proteins, so this protein, encoded by an adjacent gene, has often been annotated as a transporter component.

>COG0719 SufB Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]

Probab=99.94  E-value=4.1e-26  Score=220.81  Aligned_cols=220  Identities=21%  Similarity=0.260  Sum_probs=171.4

Q ss_pred             CChhHHHHHHHHHHHhhcCCCC---CCCCCCCCCCCCccccccCCCCCCCCCCCCCCCCCCCcceEEEECCEEeccccCC
Q 022235           69 QPLPLQKLRDSSSQTLLSTPWP---SRKDEPFRFTDTSMIKSSQIQPITRPSSSLDVSTDAQFPSLVLIDGFIQNSALNL  145 (300)
Q Consensus        69 ~p~~L~~~R~~a~e~~~~~g~P---trk~E~WryTdL~~l~~~~~~~~~~~~~~~~~~~~~~~~~lvfvnG~~~~~~s~~  145 (300)
                      +|+|+.++|.++++.+.++++|   ++|.+.|+||++..+........  +.....+++.+. . .+..+..........
T Consensus        11 ep~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~e~-~-~~~~~~~~~~~~~~~   86 (412)
T COG0719          11 EPEWMLALRLKALRASPDLEMPEVPTRRDELWELDFLDRLYYLAPGEA--SFKRLGIPDAEE-V-LAQCDSVVVYHAVSG   86 (412)
T ss_pred             CcHHHHHHHHHHHHHHhcccCCCCCcccccccCcChhHhhhccCCCcc--cccccCCCchhc-c-ceeecceeehhhcch
Confidence            7999999999999999999998   35679999999988776432211  111122222221 1 344454433322233


Q ss_pred             CCCCCCeEEEecccCchhHHHHhhcc-ccccccCcHhHHHhhccCCceEEEEECCCceecccEEEEEEEcCCCccCCCCC
Q 022235          146 SNLPDGVYVGSLLGVSDGIMKRVSDF-ISEFQCGDLFWSINGMGAPDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKL  224 (300)
Q Consensus       146 ~~lp~GV~v~~l~~a~~~~~~~~~~~-~~~~~~~d~f~aLN~A~~~dG~~I~Vp~g~~le~PI~i~~~~~~~~~~~~~~~  224 (300)
                      ...++|++++++-...++..++|++. ... ..+++|++||+|++++|+|||||+|++++.||+++|+..++..      
T Consensus        87 ~~~~~gv~~~~~~~~~~~~~~~~~~~~~v~-~~~~~~~aL~~a~~~~g~fiyVp~g~~~~~Pi~~~~~~~~~~~------  159 (412)
T COG0719          87 ELAPEGVIVEDILKEHPDLVKKYFGKGVVP-DDDDKFAALNAALFSDGTFIYVPKGVEVPTPIQLYFIINGENT------  159 (412)
T ss_pred             hhhhCccEEeechhhhhHHHHHhCCCcccC-CCcceeeeeeeeEEcCcEEEEeCCCceeccceEEEEEecCCCc------
Confidence            33478999999943447888899886 444 3689999999999999999999999999999999999875431      


Q ss_pred             cceeeeEEEEeCCCCeEEEEEEeecCCCCcceeeeeEEEEEEcCCCEEEEEEEeecCCCcEEEeeeEEEEcCCCCC
Q 022235          225 PISNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWTAVRQLVVMSL  300 (300)
Q Consensus       225 ~~~~~R~lI~veegA~atIIE~~~~~~~~~~~~~n~v~EI~v~~~A~v~~~~iQ~~~~~s~h~~~~~v~q~~dS~l  300 (300)
                      ..++.|++|++|+||++++||+|.+. .....+++.++||++++||+|+|+.+|+|+....|+....+..++++++
T Consensus       160 ~~q~~~~lIiveega~v~~ie~~~~p-~~~~~~h~~vvei~v~~nA~v~~~~vqn~~~~~~~~~~~~~~~~~~a~~  234 (412)
T COG0719         160 GVQFERTLIIVEEGAEITVIEGCSAP-VGSGSLHNGVVEIFVGENASLTYTTVQNWSPVYNHLTKRAAVEEEDATV  234 (412)
T ss_pred             cceeeeEEEEECCCCEEEEEccccCC-CCCCcceeeEEEEEEcCCCEEEEEEecccccceeeeeeeeeeeccCcEE
Confidence            45999999999999999999999764 3334569999999999999999999999999999999999999888863

>PF01458 UPF0051: Uncharacterized protein family (UPF0051); InterPro: IPR000825 Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron

Probab=99.02  E-value=2.4e-09  Score=96.20  Aligned_cols=75  Identities=31%  Similarity=0.411  Sum_probs=61.1

Q ss_pred             cceeeeEEEEeCCCCeEEEEEEeecCCCCcceeeeeEEEEEEcCCCEEEEEEEeecCCCcEEEeeeEEEEcCCCCC
Q 022235          225 PISNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWTAVRQLVVMSL  300 (300)
Q Consensus       225 ~~~~~R~lI~veegA~atIIE~~~~~~~~~~~~~n~v~EI~v~~~A~v~~~~iQ~~~~~s~h~~~~~v~q~~dS~l  300 (300)
                      ..+++|++|++|+||+++|+|.+.+. ....++++.++||++++||+|+|+.+|+|+.++.++..+.+.++++|++
T Consensus         3 ~~~~~~~~I~v~~~s~~~i~~~~~~~-~~~~~~~~~~~~i~v~~~a~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~   77 (229)
T PF01458_consen    3 GAQFPRNLIIVEEGSEVTIIESYSSN-SGESSLHNGVIEIYVGENARLKYVSVQNWGENSIHFSNTRVILGENASL   77 (229)
T ss_dssp             EEEEEEEEEEE-TT-EEEEEEEEEET-TSSEEEEEEEEEEEE-TT-EEEEEEEEE--TCEEEEEEEEEEE-TT-EE
T ss_pred             ccEeeeEEEEECCCCEEEEEEEeCCC-CCCceEEEEEEEEEECCCcEEEEEEEecCCCcEEEEEEEEEEEcCceEE
Confidence            47899999999999999999996664 4467999999999999999999999999999999999999999999864

These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] []. FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems. The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins [, ]. It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly []. The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA []. SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA [], acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets. In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins []. Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen []. This entry represents SufB and SufD proteins that form part of the SufBCD complex in the SUF system. No specific functions have been assigned to these proteins.; GO: 0016226 iron-sulfur cluster assembly; PDB: 1VH4_B 2ZU0_A 4DN7_A.

>PF01458 UPF0051: Uncharacterized protein family (UPF0051); InterPro: IPR000825 Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron

Probab=95.70  E-value=0.42  Score=42.72  Aligned_cols=95  Identities=15%  Similarity=0.085  Sum_probs=54.7

Q ss_pred             eEEEEECCCceecccEEEEEEEcCCCccCCCCCcceeeeEEEEeCCCCeEEEEEEeecCCCCcceeeeeEEEEEEcCCCE
Q 022235          192 LGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGK  271 (300)
Q Consensus       192 G~~I~Vp~g~~le~PI~i~~~~~~~~~~~~~~~~~~~~R~lI~veegA~atIIE~~~~~~~~~~~~~n~v~EI~v~~~A~  271 (300)
                      =++|.|.+|.++.-  ...+......      ....+..+-|.+++||+++++.-....   ...+....+.+.++++|+
T Consensus         8 ~~~I~v~~~s~~~i--~~~~~~~~~~------~~~~~~~~~i~v~~~a~l~~~~~~~~~---~~~~~~~~~~~~~~~~a~   76 (229)
T PF01458_consen    8 RNLIIVEEGSEVTI--IESYSSNSGE------SSLHNGVIEIYVGENARLKYVSVQNWG---ENSIHFSNTRVILGENAS   76 (229)
T ss_dssp             EEEEEE-TT-EEEE--EEEEEETTSS------EEEEEEEEEEEE-TT-EEEEEEEEE-----TCEEEEEEEEEEE-TT-E
T ss_pred             eEEEEECCCCEEEE--EEEeCCCCCC------ceEEEEEEEEEECCCcEEEEEEEecCC---CcEEEEEEEEEEEcCceE
Confidence            36788999988652  2222222222      256777888999999999999865542   235577888899999999


Q ss_pred             EEEEEEeecCCCcEEEeeeEEEE-cCCCC
Q 022235          272 VRHSYLQNQSLNAAHIKWTAVRQ-LVVMS  299 (300)
Q Consensus       272 v~~~~iQ~~~~~s~h~~~~~v~q-~~dS~  299 (300)
                      ++++.+..-+.. .+ ....+.+ +++|+
T Consensus        77 ~~~~~~~~g~~~-~~-~~~~~~l~G~~s~  103 (229)
T PF01458_consen   77 LNWVSVSLGGKM-SR-NRIEIELNGEGSS  103 (229)
T ss_dssp             EEEEEEES--SE-EE-EEEEEEE-STT-E
T ss_pred             EEEEEEEeCCee-EE-EEEEEEEcCCCCE
Confidence            999999554443 33 3344444 66553

These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] []. FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems. The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins [, ]. It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly []. The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA []. SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA [], acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets. In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins []. Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen []. This entry represents SufB and SufD proteins that form part of the SufBCD complex in the SUF system. No specific functions have been assigned to these proteins.; GO: 0016226 iron-sulfur cluster assembly; PDB: 1VH4_B 2ZU0_A 4DN7_A.

>PRK10948 cysteine desulfurase activator complex subunit SufD; Provisional

Probab=91.26  E-value=6.1  Score=38.86  Aligned_cols=86  Identities=8%  Similarity=0.132  Sum_probs=59.7

Q ss_pred             CceEEEEECCCceecccEEEEEEEcCCCccCCCCCcceeeeEEEEeCCCCeEEEEEEeecCCCCcceeeeeEEEEEEcCC
Q 022235          190 PDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKG  269 (300)
Q Consensus       190 ~dG~~I~Vp~g~~le~PI~i~~~~~~~~~~~~~~~~~~~~R~lI~veegA~atIIE~~~~~~~~~~~~~n~v~EI~v~~~  269 (300)
                      ..-.+|.+.+|.++.  |...|...++.      ....+..+-|.+|+||+++++.-....   ...++-....+.++++
T Consensus       171 ~~r~lI~~e~~a~~t--iie~~~s~~~~------~~~~n~v~ei~~~~~A~l~~~~lq~~~---~~~~~~~~~~~~~~~~  239 (424)
T PRK10948        171 HYRHHLDLAEGAEAT--VIEHFVSLNEA------RHFTGARLTMNVADNAHLNHIKLAFEN---PSSYHFAHNDLLLGRD  239 (424)
T ss_pred             cceEEEEECCCCEEE--EEEEeecCCCC------ceeEeeeEEEEECCCCEEEEEEEEccC---CCcEEEEEeEEEEcCC
Confidence            456789999998875  33334332222      145678889999999999998765532   2344556678889999


Q ss_pred             CEEEEEEEeecCCCcEE
Q 022235          270 GKVRHSYLQNQSLNAAH  286 (300)
Q Consensus       270 A~v~~~~iQ~~~~~s~h  286 (300)
                      |++++..+..-+.-+.+
T Consensus       240 s~~~~~~~~~G~~~~r~  256 (424)
T PRK10948        240 ARAFSHSFLLGAAVLRH  256 (424)
T ss_pred             CEEEEEEEEeCCceEEE
Confidence            99999998875554443

>TIGR01981 sufD FeS assembly protein SufD, group 1

Probab=88.69  E-value=10  Score=36.43  Aligned_cols=98  Identities=14%  Similarity=0.048  Sum_probs=64.1

Q ss_pred             CceEEEEECCCceecccEEEEEEEcCCCccCCCCCcceeeeEEEEeCCCCeEEEEEEeecCCCCcceeeeeEEEEEEcCC
Q 022235          190 PDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKG  269 (300)
Q Consensus       190 ~dG~~I~Vp~g~~le~PI~i~~~~~~~~~~~~~~~~~~~~R~lI~veegA~atIIE~~~~~~~~~~~~~n~v~EI~v~~~  269 (300)
                      ..=.+|.|.+|.++.  |.-.|.......    .....+..+-|.+|+||+++++.-....   ...++-.-+.+.++++
T Consensus       124 ~~~~~i~v~~~s~~~--iie~~~~~~~~~----~~~~~~~~~ei~~~~~A~l~~~~iq~~~---~~~~~~~~~~~~~~~~  194 (366)
T TIGR01981       124 HPRLLIIVEKGSKIT--VIERFETISLNS----GKAFTNSVVEITVGANASVIFVKVQFFS---KNSTHFSNHRAFIGRD  194 (366)
T ss_pred             eeEEEEEECCCCEEE--EEEEecCCCCCC----cccEEEEEEEEEECCCCEEEEEEEEcCC---CCcEEEEEeEEEEcCC
Confidence            346788899998875  222222211110    0135677888999999999998765542   2344556788999999


Q ss_pred             CEEEEEEEeecCCCcEEEeeeEEEE-cCCC
Q 022235          270 GKVRHSYLQNQSLNAAHIKWTAVRQ-LVVM  298 (300)
Q Consensus       270 A~v~~~~iQ~~~~~s~h~~~~~v~q-~~dS  298 (300)
                      |+++++.+...+.-+.+  ...+.+ |++|
T Consensus       195 a~~~~~~~~~gg~~~r~--~~~~~l~G~~a  222 (366)
T TIGR01981       195 ATLRLAVVNLGGKLSRH--NFDVDLEGEGS  222 (366)
T ss_pred             CEEEEEEEEcCCccEEE--eeeEEEEcCCc
Confidence            99999999987665543  334444 4544

This protein, SufD, forms a cytosolic complex SufBCD. This complex enhances the cysteine desulfurase of SufSE. The system, together with SufA, is believed to act in iron-sulfur cluster formation during oxidative stress. SufB and SufD are homologous. Note that SufC belongs to the family of ABC transporter ATP binding proteins, so this protein, encoded by an adjacent gene, has often been annotated as a transporter component.

>TIGR01980 sufB FeS assembly protein SufB

Probab=85.73  E-value=23  Score=35.16  Aligned_cols=85  Identities=11%  Similarity=0.008  Sum_probs=55.7

Q ss_pred             ceEEEEECCCceecccEEEEEEEc-CCCccCCCCCcceeeeEEEEeCCCCeEEEEEEeecCCCCcceeeeeEEEEEEcCC
Q 022235          191 DLGVIYVPAGCKVENPIYLKYLSV-EGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKG  269 (300)
Q Consensus       191 dG~~I~Vp~g~~le~PI~i~~~~~-~~~~~~~~~~~~~~~R~lI~veegA~atIIE~~~~~~~~~~~~~n~v~EI~v~~~  269 (300)
                      .=..|.+.+|.++.-  .-.|... ...      ....+.-+-|++++||+++++.-+.-.   ...++-....+.++++
T Consensus       205 ~r~lIi~ee~s~~~i--ie~~~s~~~~~------~~~~~~v~Ei~v~~~A~v~~~~iq~~~---~~~~~~~~~~~~~~~~  273 (448)
T TIGR01980       205 EHTLIIADEGASVHY--IEGCSAPIYST------NSLHAAVVELIVKEDARVRYSTVQNWS---KNVYNLVTKRALVEEN  273 (448)
T ss_pred             eeEEEEECCCCEEEE--EEeccccCCCc------cceEEEEEEEEEcCCCEEEEEEEeecC---CCeEEEEEEEEEEcCC
Confidence            456777888888652  1112211 111      145677888899999999988776542   2345556677888899


Q ss_pred             CEEEEEEEeecCCCcEE
Q 022235          270 GKVRHSYLQNQSLNAAH  286 (300)
Q Consensus       270 A~v~~~~iQ~~~~~s~h  286 (300)
                      |++++..+..-+.-+.+
T Consensus       274 a~~~~~~~~lG~~~s~~  290 (448)
T TIGR01980       274 GTMEWVSGSIGSKITMK  290 (448)
T ss_pred             CEEEEEEEEecCceEEE
Confidence            99999888876555553

This protein, SufB, forms a cytosolic complex SufBCD. This complex enhances the cysteine desulfurase of SufSE. The system, together with SufA, is believed to act in iron-sulfur cluster formation during oxidative stress. Note that SufC belongs to the family of ABC transporter ATP binding proteins, so this protein, encoded by an adjacent gene, has often been annotated as a transporter component.

>PF01774 UreD: UreD urease accessory protein; InterPro: IPR002669 UreD is a urease accessory protein

Probab=83.20  E-value=14  Score=32.65  Aligned_cols=73  Identities=14%  Similarity=0.018  Sum_probs=31.6

Q ss_pred             eeeeEEEEeCCCCeEEEEEEeecC--CCCcceeeeeEEEEEEcCCCEEEEEEEeec-CCCcEEEeeeEEEEcCCCC
Q 022235          227 SNPRVVVLVEEGGEVGIIEEFVGK--EGNDCYWANSVLEVVIGKGGKVRHSYLQNQ-SLNAAHIKWTAVRQLVVMS  299 (300)
Q Consensus       227 ~~~R~lI~veegA~atIIE~~~~~--~~~~~~~~n~v~EI~v~~~A~v~~~~iQ~~-~~~s~h~~~~~v~q~~dS~  299 (300)
                      -..++-|.+++||++.|.-.=...  ...........++|.|++||.|+|.==..- -.++.+...+.+++..+|+
T Consensus        15 D~l~~~i~v~~ga~~~ltTqaatkvy~~~~~~~a~q~~~~~v~~ga~Le~lP~p~I~f~~A~~~q~~~v~l~~~A~   90 (209)
T PF01774_consen   15 DRLRIDITVGPGARLLLTTQAATKVYRMRGGRPARQRIRITVEEGAYLEYLPDPTIPFAGARFRQRTRVDLAPGAS   90 (209)
T ss_dssp             -EEEEEEEE-TT-EEEEE----EEE---TTS--EEEEEEEEE-TT-EEEE----EEE-TT-EEEEEEEEEE-TT-E
T ss_pred             CEEEEEEEECCCCEEEEechhhhhhcCCCCCCcEEEEEEEEECCCCEEEEcCCCCEeeCCCEEEEEEEEEECCCCE
Confidence            345666777777777666431110  001122466677777777777777543333 2345556666777766665

Urease IPR005848 from INTERPRO hydrolyses urea into ammonia and carbamic acid []. UreD is involved in activation of the urease enzyme via the UreD-UreF-UreG-urease complex [] and is required for urease nickel metallocentre assembly []. See also UreF IPR002639 from INTERPRO, UreG IPR004400 from INTERPRO.; GO: 0016151 nickel ion binding, 0006807 nitrogen compound metabolic process; PDB: 3SF5_D.

>PRK11814 cysteine desulfurase activator complex subunit SufB; Provisional

Probab=81.71  E-value=11  Score=37.81  Aligned_cols=75  Identities=9%  Similarity=-0.064  Sum_probs=54.9

Q ss_pred             ceeeeEEEEeCCCCeEEEEEEeecCCCCcceeeeeEEEEEEcCCCEEEEEEEee---cCCCcEEEeeeEEEEcCCCCC
Q 022235          226 ISNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKVRHSYLQN---QSLNAAHIKWTAVRQLVVMSL  300 (300)
Q Consensus       226 ~~~~R~lI~veegA~atIIE~~~~~~~~~~~~~n~v~EI~v~~~A~v~~~~iQ~---~~~~s~h~~~~~v~q~~dS~l  300 (300)
                      ..+.=.+|.+.+|.++.+-..+..............+-|++++||+++++.-..   .....+|-+-+.+.++++|+|
T Consensus       192 ~~~~G~fi~Vp~gv~~~~pi~~~~~~~~~~~~~~~r~lIi~ee~S~~~iiE~~~s~~~~~~~~~~~v~Ei~v~~~A~l  269 (486)
T PRK11814        192 VFSDGSFVYIPKGVRCPMELSTYFRINAANTGQFERTLIIADEGSYVSYLEGCTAPMRDENQLHAAVVELVALDDAEI  269 (486)
T ss_pred             hcCCeEEEEECCCCceeEEEEEEEeecCCCcceeeEEEEEECCCCEEEEEEEecCCCCCccceeeEEEEEEECCCCEE
Confidence            345568899999998875544333211122356799999999999999987654   235678889999999999875

---

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	300
1vh4_A	435	SUFD protein; structural genomics, protein binding	5e-41
4dn7_A	429	ABC transporter, ATP-binding protein; structural g	8e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-04

>1vh4_A SUFD protein; structural genomics, protein binding protein; 1.75A {Escherichia coli} SCOP: b.80.6.1 PDB: 2zu0_A* Length = 435

 Score =  146 bits (370), Expect = 5e-41
 Identities = 47/248 (18%), Positives = 92/248 (37%), Gaps = 27/248 (10%)

Query: 59  SLPSSSSSLPQ--------PLPLQKLRDSSSQTLLSTPWPSRKDEPFRFTDTSMIKSSQI 110
            LP+SS++L Q                    Q LL T  P+RK E +++T    + +SQ 
Sbjct: 5   GLPNSSNALQQWHHLFEAEGTKRSPQAQQHLQQLLRTGLPTRKHENWKYTPLEGLINSQF 64

Query: 111 QPITRPSSSLDVST---DAQFPSLVLIDGFIQNSALNLSNLPDGVYVG-SLLGVSDGIMK 166
             I    S               LV +DG    +   LS+  +G     S+     G+  
Sbjct: 65  VSIAGEISPQQRDALALTLDSVRLVFVDGRYVPA---LSDATEGSGYEVSINDDRQGLPD 121

Query: 167 RVSDFISEFQCGDLFWSINGMGAPDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPI 226
            +          ++F  +    A  +  I V  G +   P+ L +++     V  +++  
Sbjct: 122 AIQA--------EVFLHLTESLAQSVTHIAVKRGQRPAKPLLLMHITQ---GVAGEEVNT 170

Query: 227 SNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAH 286
           ++ R  + + EG E  +IE FV    +  ++  +   + +     ++H  L  ++  + H
Sbjct: 171 AHYRHHLDLAEGAEATVIEHFVS-LNDARHFTGARFTINVAANAHLQHIKLAFENPLSHH 229

Query: 287 IKWTAVRQ 294
                +  
Sbjct: 230 FAHNDLLL 237

>4dn7_A ABC transporter, ATP-binding protein; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium; HET: 1PE; 1.60A {Methanosarcina maze} Length = 429

 Score = 42.7 bits (101), Expect = 8e-05
 Identities = 22/93 (23%), Positives = 33/93 (35%), Gaps = 23/93 (24%)

Query: 195 IYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVGKEGND 254
           I VPAG K   P+    L +                 +++VEEG  + II       G  
Sbjct: 154 IRVPAGKKTSMPVQT-CLMLGSKKA------AQTVHNIIIVEEGATLDIIT------G-- 198

Query: 255 C----YWANS----VLEVVIGKGGKVRHSYLQN 279
           C             + E+ I KGG +  + + N
Sbjct: 199 CTTKKGVEEGLHLGISEMYIKKGGTLNFTMIHN 231

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 40.2 bits (93), Expect = 7e-04
 Identities = 33/239 (13%), Positives = 59/239 (24%), Gaps = 83/239 (34%)

Query: 15  NRNPKLTPK--RRAKP-NKIRVSL--------------------------------QTTF 39
           N N         R +P  K+R +L                                Q   
Sbjct: 121 NDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKM 180

Query: 40  PQATF--------SDPFVIQLAESL-----EDSLPSSSSSLPQPLPLQKLRDSSSQTLLS 86
               F        S   V+++ + L      +    S  S    L +  ++    + L S
Sbjct: 181 DFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKS 240

Query: 87  TP-----------WPSRKDEPFRFTDTSMIKSSQIQPITRPSS---SLDVSTDAQFPSLV 132
            P             ++    F         S +I   TR       L  +T        
Sbjct: 241 KPYENCLLVLLNVQNAKAWNAFNL-------SCKILLTTRFKQVTDFLSAATTTHISLDH 293

Query: 133 LIDGFIQNSALNL---------SNLPDGVYVGSLLGVSDGIMKRVSDFISEFQCGDLFW 182
                  +   +L          +LP  V   +   +S  I + + D ++ +      W
Sbjct: 294 HSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLS-IIAESIRDGLATWD----NW 347

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	300
1vh4_A	435	SUFD protein; structural genomics, protein binding	100.0
4dn7_A	429	ABC transporter, ATP-binding protein; structural g	99.94
1vh4_A	435	SUFD protein; structural genomics, protein binding	93.29
4dn7_A	429	ABC transporter, ATP-binding protein; structural g	87.78

>1vh4_A SUFD protein; structural genomics, protein binding protein; 1.75A {Escherichia coli} SCOP: b.80.6.1 PDB: 2zu0_A*

Probab=100.00  E-value=2.6e-37  Score=299.39  Aligned_cols=214  Identities=18%  Similarity=0.198  Sum_probs=177.3

Q ss_pred             hhHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCccccccCCCCCCCCCC-----CCCCCCCCCcceEEEECCEEeccccCC
Q 022235           71 LPLQKLRDSSSQTLLSTPWPSRKDEPFRFTDTSMIKSSQIQPITRPSS-----SLDVSTDAQFPSLVLIDGFIQNSALNL  145 (300)
Q Consensus        71 ~~L~~~R~~a~e~~~~~g~Ptrk~E~WryTdL~~l~~~~~~~~~~~~~-----~~~~~~~~~~~~lvfvnG~~~~~~s~~  145 (300)
                      .||.++|++||+.|.++|||++|.|+||||||+.+....+.+......     ...++ .++.+ +||+||.+.+++++ 
T Consensus        25 ~~l~~~R~~a~~~~~~~~~P~~~~e~w~~t~l~~l~~~~~~~~~~~~~~~~i~~~~~~-~~~~~-~v~v~g~~~~~ls~-  101 (435)
T 1vh4_A           25 TKRSPQAQQHLQQLLRTGLPTRKHENWKYTPLEGLINSQFVSIAGEISPQQRDALALT-LDSVR-LVFVDGRYVPALSD-  101 (435)
T ss_dssp             -CCCHHHHHHHHHHHHHCCCCTTSTTCTTCCCHHHHTSCEECCCCCCCHHHHHHHCCC-CCSEE-EEEETTEECGGGSC-
T ss_pred             chhHHHHHHHHHHHHhCCCCCCCccccccCchHHhhcccccccccccChhHHhhhcCc-cCceE-EEEECCEEeeeccc-
Confidence            478899999999999999999999999999999998876543321110     01123 35667 99999999988765 


Q ss_pred             CCCCCCeEEEecccCchhHHHHhhccccccccCcHhHHHhhccCCceEEEEECCCceecccEEEEEEEcCCCccCCCCCc
Q 022235          146 SNLPDGVYVGSLLGVSDGIMKRVSDFISEFQCGDLFWSINGMGAPDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLP  225 (300)
Q Consensus       146 ~~lp~GV~v~~l~~a~~~~~~~~~~~~~~~~~~d~f~aLN~A~~~dG~~I~Vp~g~~le~PI~i~~~~~~~~~~~~~~~~  225 (300)
                      +.+|+||+++++.+      ++|+++...   .|+|++||+|++++|+|||||+|+++++||+++|+.++.+.   ....
T Consensus       102 ~~~~~Gv~~~~~~~------~~~~~~~~~---~~~f~aln~a~~~~G~~i~Vp~g~~~~~Pi~l~~~~~~~~~---~~~~  169 (435)
T 1vh4_A          102 ATEGSGYEVSINDD------RQGLPDAIQ---AEVFLHLTESLAQSVTHIAVKRGQRPAKPLLLMHITQGVAG---EEVN  169 (435)
T ss_dssp             CCTTSSCEEEEESC------CTTCCCCSS---CCHHHHHHHHHCSCEEEEEECTTCCCSSCEEEEEEECCCSS---SCEE
T ss_pred             cccCCCeEEEecch------hhhhhcccC---chHHHHHHHHhcCCcEEEEECCCCEecccEEEEEEecCCcc---cccc
Confidence            23689999999976      467776443   49999999999999999999999999999999888664320   0013


Q ss_pred             ceeeeEEEEeCCCCeEEEEEEeecCCCCcceeeeeEEEEEEcCCCEEEEEEEeecCCCcEEEeeeEEEEcCCCCC
Q 022235          226 ISNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWTAVRQLVVMSL  300 (300)
Q Consensus       226 ~~~~R~lI~veegA~atIIE~~~~~~~~~~~~~n~v~EI~v~~~A~v~~~~iQ~~~~~s~h~~~~~v~q~~dS~l  300 (300)
                      .+++|++|++|+||+++|||.|.+.. ...+++|.|+||++++||+|+|+.+|+|+.+++|+.++++.++++|++
T Consensus       170 ~~~~r~lIi~eegs~v~iie~~~~~~-~~~~~~~~v~ei~v~~~A~l~~~~vq~~~~~~~~~~~~~~~~~~~a~~  243 (435)
T 1vh4_A          170 TAHYRHHLDLAEGAEATVIEHFVSLN-DARHFTGARFTINVAANAHLQHIKLAFENPLSHHFAHNDLLLAEDATA  243 (435)
T ss_dssp             EEEEEEEEEECTTCEEEEEEEEEESS-SSCEEEEEEEEEEECTTCEEEEEEEECCCTTCEEEEEEEEEECTTCEE
T ss_pred             eeeeEEEEEECCCCEEEEEEEeccCC-cccceeeeEEEEEECCCCEEEEEEEEecCCCeEEEEEEEEEECCCCEE
Confidence            68999999999999999999999863 356899999999999999999999999999999999999999999864

>4dn7_A ABC transporter, ATP-binding protein; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium; HET: 1PE; 1.60A {Methanosarcina maze}

Probab=99.94  E-value=3.4e-26  Score=220.51  Aligned_cols=158  Identities=21%  Similarity=0.185  Sum_probs=138.0

Q ss_pred             eEEEECCEEeccccCCCCCCCCeEEEecccCch--hHHHHhhccccccccCcHhHHHhhccCCceEEEEECCCceecccE
Q 022235          130 SLVLIDGFIQNSALNLSNLPDGVYVGSLLGVSD--GIMKRVSDFISEFQCGDLFWSINGMGAPDLGVIYVPAGCKVENPI  207 (300)
Q Consensus       130 ~lvfvnG~~~~~~s~~~~lp~GV~v~~l~~a~~--~~~~~~~~~~~~~~~~d~f~aLN~A~~~dG~~I~Vp~g~~le~PI  207 (300)
                      +.+++|........    .++||+++++++|..  +++++|+++.... .+|+|++||+|++++|+|||||+|+++++||
T Consensus        92 ~~~q~d~~~v~~~~----~~~GV~~~~l~~Al~~~~lv~~y~~~~v~~-~~d~f~Aln~A~~~~G~fI~Vp~gv~~~~Pi  166 (429)
T 4dn7_A           92 SFLVLDNAVSHSTL----KDKNVELMSTHKAMEKYEWLKDYSWKLVQV-DADKYTAKTYLEDADGYFIRVPAGKKTSMPV  166 (429)
T ss_dssp             EEEEETTEEEEEEE----SSSSSEEEEHHHHHHHCGGGGGTTTTSSCT-TSSHHHHHHHHTTCBCEEEEECTTCBCSSCE
T ss_pred             eEEEEcCceEEEee----cCCCEEEEcHHHHhhhhHHHHHHHhccCCC-CcCHHHHHHHhhCCCcEEEEECCCcEEEEEE
Confidence            37889987765422    368999999999874  4578899876653 5899999999999999999999999999999


Q ss_pred             EEEEEEcCCCccCCCCCcceeeeEEEEeCCCCeEEEEEEeecCCCCcceeeeeEEEEEEcCCCEEEEEEEeecCCCcEEE
Q 022235          208 YLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHI  287 (300)
Q Consensus       208 ~i~~~~~~~~~~~~~~~~~~~~R~lI~veegA~atIIE~~~~~~~~~~~~~n~v~EI~v~~~A~v~~~~iQ~~~~~s~h~  287 (300)
                      +++|..++.+       ..+++|++|++|+||+++|||.|.+......+++|.++||++++||+|+|+.+|+|+.+++|+
T Consensus       167 ~~~~~i~~~~-------~~~~~r~lIi~eegA~v~iie~c~~~~~~~~~lh~~v~Ei~v~~~A~l~~~~vq~~~~~~~~~  239 (429)
T 4dn7_A          167 QTCLMLGSKK-------AAQTVHNIIIVEEGATLDIITGCTTKKGVEEGLHLGISEMYIKKGGTLNFTMIHNWAEQIGVR  239 (429)
T ss_dssp             EEEEEECSSS-------EEEEEEEEEEECTTCEEEEEEEEEECTTCCEEEEEEEEEEEECTTCEEEEEEEECCCTEEEEE
T ss_pred             EEEEEEcCCc-------cceeeeEEEEECCCCEEEEEEEecCCCCcccceEEEEEEEEECCCCEEEEEEEeecCCCcEEe
Confidence            9988776543       578999999999999999999999864334689999999999999999999999999999999


Q ss_pred             eeeEEEEcCCCC
Q 022235          288 KWTAVRQLVVMS  299 (300)
Q Consensus       288 ~~~~v~q~~dS~  299 (300)
                      .++++.++++|+
T Consensus       240 ~~~~~~~~~~a~  251 (429)
T 4dn7_A          240 PRTVVSVEEGGT  251 (429)
T ss_dssp             EEEEEEECTTCE
T ss_pred             cceeEEECCCcE
Confidence            999999999985

>1vh4_A SUFD protein; structural genomics, protein binding protein; 1.75A {Escherichia coli} SCOP: b.80.6.1 PDB: 2zu0_A*

Probab=93.29  E-value=2  Score=41.00  Aligned_cols=94  Identities=7%  Similarity=0.034  Sum_probs=62.4

Q ss_pred             eEEEEECCCceecccEEEEEEEcCCCccCCCCCcceeeeEEEEeCCCCeEEEEEEeecCCCCcceeeeeEEEEEEcCCCE
Q 022235          192 LGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGK  271 (300)
Q Consensus       192 G~~I~Vp~g~~le~PI~i~~~~~~~~~~~~~~~~~~~~R~lI~veegA~atIIE~~~~~~~~~~~~~n~v~EI~v~~~A~  271 (300)
                      =..|.+.+|.++.  +.-.|...+..      ....+..+-|++++||+++++.-+.-. .  ..++...+.+.++++|+
T Consensus       174 r~lIi~eegs~v~--iie~~~~~~~~------~~~~~~v~ei~v~~~A~l~~~~vq~~~-~--~~~~~~~~~~~~~~~a~  242 (435)
T 1vh4_A          174 RHHLDLAEGAEAT--VIEHFVSLNDA------RHFTGARFTINVAANAHLQHIKLAFEN-P--LSHHFAHNDLLLAEDAT  242 (435)
T ss_dssp             EEEEEECTTCEEE--EEEEEEESSSS------CEEEEEEEEEEECTTCEEEEEEEECCC-T--TCEEEEEEEEEECTTCE
T ss_pred             EEEEEECCCCEEE--EEEEeccCCcc------cceeeeEEEEEECCCCEEEEEEEEecC-C--CeEEEEEEEEEECCCCE
Confidence            3568899998865  22123332221      145666788999999999999876532 2  34666778899999999


Q ss_pred             EEEEEEeecCCCcEEEeeeEEE-EcCCC
Q 022235          272 VRHSYLQNQSLNAAHIKWTAVR-QLVVM  298 (300)
Q Consensus       272 v~~~~iQ~~~~~s~h~~~~~v~-q~~dS  298 (300)
                      +++..+..-+.-+++-  ..+. .|++|
T Consensus       243 ~~~~~~~~G~~~~~~~--~~~~L~G~~a  268 (435)
T 1vh4_A          243 AFSHSFLLGGAVLRHN--TSTQLNGENS  268 (435)
T ss_dssp             EEEEEEECCCSEEEEE--EEEEECSTTC
T ss_pred             EEEEEEEECCceEEEe--eEEEEEcCCC
Confidence            9999998766544443  2333 35554

>4dn7_A ABC transporter, ATP-binding protein; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium; HET: 1PE; 1.60A {Methanosarcina maze}

Probab=87.78  E-value=8  Score=36.73  Aligned_cols=81  Identities=12%  Similarity=0.149  Sum_probs=53.0

Q ss_pred             EEEEECCCceecccEEEEEEEcCCCccCCCCCcceeeeEEEEeCCCCeEEEEEEeecCCCCcceeeeeEEEEEEcCCCEE
Q 022235          193 GVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKV  272 (300)
Q Consensus       193 ~~I~Vp~g~~le~PI~i~~~~~~~~~~~~~~~~~~~~R~lI~veegA~atIIE~~~~~~~~~~~~~n~v~EI~v~~~A~v  272 (300)
                      ..|.+.+|.++.-  ...+.......     ....+.-+-|++++||+++++.-+.-.   ...++...+.+.++++|++
T Consensus       183 ~lIi~eegA~v~i--ie~c~~~~~~~-----~~lh~~v~Ei~v~~~A~l~~~~vq~~~---~~~~~~~~~~~~~~~~a~~  252 (429)
T 4dn7_A          183 NIIIVEEGATLDI--ITGCTTKKGVE-----EGLHLGISEMYIKKGGTLNFTMIHNWA---EQIGVRPRTVVSVEEGGTY  252 (429)
T ss_dssp             EEEEECTTCEEEE--EEEEEECTTCC-----EEEEEEEEEEEECTTCEEEEEEEECCC---TEEEEEEEEEEEECTTCEE
T ss_pred             EEEEECCCCEEEE--EEEecCCCCcc-----cceEEEEEEEEECCCCEEEEEEEeecC---CCcEEecceeEEECCCcEE
Confidence            5778899988652  12222222110     134456778999999999998876532   2355667888889999998


Q ss_pred             EEEEEeecCCC
Q 022235          273 RHSYLQNQSLN  283 (300)
Q Consensus       273 ~~~~iQ~~~~~  283 (300)
                      ....++..+..
T Consensus       253 ~~~~v~~~g~~  263 (429)
T 4dn7_A          253 VSNYICLKPVR  263 (429)
T ss_dssp             EEEEEECSCCS
T ss_pred             EEEEEEecCce
Confidence            77777665443

---

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	300
d1vh4a_	413	b.80.6.1 (A:) Stabilizer of iron transporter SufD	2e-11

>d1vh4a_ b.80.6.1 (A:) Stabilizer of iron transporter SufD {Escherichia coli [TaxId: 562]} Length = 413

class: All beta proteins
fold: Single-stranded right-handed beta-helix
superfamily: Stabilizer of iron transporter SufD
family: Stabilizer of iron transporter SufD
domain: Stabilizer of iron transporter SufD
species: Escherichia coli [TaxId: 562]

 Score = 61.9 bits (149), Expect = 2e-11
 Identities = 41/213 (19%), Positives = 83/213 (38%), Gaps = 19/213 (8%)

Query: 82  QTLLSTPWPSRKDEPFRFTDTSMIKSSQIQPITRPSSSLD---VSTDAQFPSLVLIDGFI 138
           Q LL T  P+RK E +++T    + +SQ   I    S      ++       LV +DG  
Sbjct: 26  QQLLRTGLPTRKHENWKYTPLEGLINSQFVSIAGEISPQQRDALALTLDSVRLVFVDGRY 85

Query: 139 QNSALNLSNLPDGVYVG-SLLGVSDGIMKRVSDFISEFQCGDLFWSINGMGAPDLGVIYV 197
             +   LS+  +G     S+     G+   +   +        F  +    A  +  I V
Sbjct: 86  VPA---LSDATEGSGYEVSINDDRQGLPDAIQAEV--------FLHLTESLAQSVTHIAV 134

Query: 198 PAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVGKEGNDCYW 257
             G +   P+ L +++     V  +++  ++ R  + + EG E  +IE FV    +  ++
Sbjct: 135 KRGQRPAKPLLLMHIT---QGVAGEEVNTAHYRHHLDLAEGAEATVIEHFV-SLNDARHF 190

Query: 258 ANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWT 290
             +   + +     ++H  L  ++  + H    
Sbjct: 191 TGARFTINVAANAHLQHIKLAFENPLSHHFAHN 223

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	300
d1vh4a_	413	Stabilizer of iron transporter SufD {Escherichia c	100.0
d1vh4a_	413	Stabilizer of iron transporter SufD {Escherichia c	93.16

>d1vh4a_ b.80.6.1 (A:) Stabilizer of iron transporter SufD {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: Single-stranded right-handed beta-helix
superfamily: Stabilizer of iron transporter SufD
family: Stabilizer of iron transporter SufD
domain: Stabilizer of iron transporter SufD
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=1.9e-35  Score=282.41  Aligned_cols=214  Identities=18%  Similarity=0.181  Sum_probs=172.7

Q ss_pred             hHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCccccccCCCCCCCCCC----CCCCCCCCCcceEEEECCEEeccccCCCC
Q 022235           72 PLQKLRDSSSQTLLSTPWPSRKDEPFRFTDTSMIKSSQIQPITRPSS----SLDVSTDAQFPSLVLIDGFIQNSALNLSN  147 (300)
Q Consensus        72 ~L~~~R~~a~e~~~~~g~Ptrk~E~WryTdL~~l~~~~~~~~~~~~~----~~~~~~~~~~~~lvfvnG~~~~~~s~~~~  147 (300)
                      +..+.|+++|++|.++|||++|+|+||||||+.|...+|.+.+....    .......+..+ +||+||.+.+.+|+.. 
T Consensus        16 ~~~~~~~~~l~~f~~~GlPt~k~E~WKyT~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-ivfvnG~~~~~ls~~~-   93 (413)
T d1vh4a_          16 KRSPQAQQHLQQLLRTGLPTRKHENWKYTPLEGLINSQFVSIAGEISPQQRDALALTLDSVR-LVFVDGRYVPALSDAT-   93 (413)
T ss_dssp             CCCHHHHHHHHHHHHHCCCCTTSTTCTTCCCHHHHTSCEECCCCCCCHHHHHHHCCCCCSEE-EEEETTEECGGGSCCC-
T ss_pred             cchHHHHHHHHHHHHcCCCCCCCcCccCCCHHHHhccCCcccCCccCchhhcccccccCceE-EEEECCEEchhcccCc-
Confidence            44566999999999999999999999999999998876644322211    11122345667 9999999999887643 


Q ss_pred             CCCCeEEEecccCchhHHHHhhccccccccCcHhHHHhhccCCceEEEEECCCceecccEEEEEEEcCCCccCCCCCcce
Q 022235          148 LPDGVYVGSLLGVSDGIMKRVSDFISEFQCGDLFWSINGMGAPDLGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPIS  227 (300)
Q Consensus       148 lp~GV~v~~l~~a~~~~~~~~~~~~~~~~~~d~f~aLN~A~~~dG~~I~Vp~g~~le~PI~i~~~~~~~~~~~~~~~~~~  227 (300)
                      .+.|+.+....+...        .. .....|.|.+||.|++++|++|+||+|+++++||+|+|+.++...   ......
T Consensus        94 ~~~~i~i~~~~~~~~--------~~-~~~~~~~~~~LN~a~~~~g~~I~V~~~~~~~~PI~i~~~~~~~~~---~~~~~~  161 (413)
T d1vh4a_          94 EGSGYEVSINDDRQG--------LP-DAIQAEVFLHLTESLAQSVTHIAVKRGQRPAKPLLLMHITQGVAG---EEVNTA  161 (413)
T ss_dssp             TTSSCEEEEESCCTT--------CC-CCSSCCHHHHHHHHHCSCEEEEEECTTCCCSSCEEEEEEECCCSS---SCEEEE
T ss_pred             ccCCeEEechHhhhh--------cc-cchhhhhhhhhhhhccccceeEeeccceEecccceeeEeeccccc---cccccc
Confidence            367888876554321        01 112478999999999999999999999999999999998765321   112478


Q ss_pred             eeeEEEEeCCCCeEEEEEEeecCCCCcceeeeeEEEEEEcCCCEEEEEEEeecCCCcEEEeeeEEEEcCCCCC
Q 022235          228 NPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGKVRHSYLQNQSLNAAHIKWTAVRQLVVMSL  300 (300)
Q Consensus       228 ~~R~lI~veegA~atIIE~~~~~~~~~~~~~n~v~EI~v~~~A~v~~~~iQ~~~~~s~h~~~~~v~q~~dS~l  300 (300)
                      +||++|++|+||+++|+|.|.+.+ +..+|+|.++||++++||+|+|+++|+++.+++|+.++++.++++|++
T Consensus       162 ~~r~~I~v~ena~v~iiE~~~~~~-~~~~~~n~~~ei~l~~nA~l~~~~iq~~~~~~~~~~~~~~~~~~~s~~  233 (413)
T d1vh4a_         162 HYRHHLDLAEGAEATVIEHFVSLN-DARHFTGARFTINVAANAHLQHIKLAFENPLSHHFAHNDLLLAEDATA  233 (413)
T ss_dssp             EEEEEEEECTTCEEEEEEEEEESS-SSCEEEEEEEEEEECTTCEEEEEEEECCCTTCEEEEEEEEEECTTCEE
T ss_pred             ceeeeeeecccchhhhhhhccccc-cccceecceeEEEecccceeeehhhhhhcccccccceeeeecccccce
Confidence            999999999999999999999853 357899999999999999999999999999999999999999999863

>d1vh4a_ b.80.6.1 (A:) Stabilizer of iron transporter SufD {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: Single-stranded right-handed beta-helix
superfamily: Stabilizer of iron transporter SufD
family: Stabilizer of iron transporter SufD
domain: Stabilizer of iron transporter SufD
species: Escherichia coli [TaxId: 562]

Probab=93.16  E-value=1.3  Score=39.32  Aligned_cols=80  Identities=6%  Similarity=0.064  Sum_probs=58.1

Q ss_pred             eEEEEECCCceecccEEEEEEEcCCCccCCCCCcceeeeEEEEeCCCCeEEEEEEeecCCCCcceeeeeEEEEEEcCCCE
Q 022235          192 LGVIYVPAGCKVENPIYLKYLSVEGGNVDSKKLPISNPRVVVLVEEGGEVGIIEEFVGKEGNDCYWANSVLEVVIGKGGK  271 (300)
Q Consensus       192 G~~I~Vp~g~~le~PI~i~~~~~~~~~~~~~~~~~~~~R~lI~veegA~atIIE~~~~~~~~~~~~~n~v~EI~v~~~A~  271 (300)
                      -++|.|.+|+++.  |.-.|...+..      ....++.+-|.+++||+++++......   ...++-..+.+.++++|.
T Consensus       164 r~~I~v~ena~v~--iiE~~~~~~~~------~~~~n~~~ei~l~~nA~l~~~~iq~~~---~~~~~~~~~~~~~~~~s~  232 (413)
T d1vh4a_         164 RHHLDLAEGAEAT--VIEHFVSLNDA------RHFTGARFTINVAANAHLQHIKLAFEN---PLSHHFAHNDLLLAEDAT  232 (413)
T ss_dssp             EEEEEECTTCEEE--EEEEEEESSSS------CEEEEEEEEEEECTTCEEEEEEEECCC---TTCEEEEEEEEEECTTCE
T ss_pred             eeeeeecccchhh--hhhhccccccc------cceecceeEEEecccceeeehhhhhhc---ccccccceeeeecccccc
Confidence            3679999998875  33334433322      145677899999999999998765442   235566888999999999


Q ss_pred             EEEEEEeecCC
Q 022235          272 VRHSYLQNQSL  282 (300)
Q Consensus       272 v~~~~iQ~~~~  282 (300)
                      ++...++.-+.
T Consensus       233 ~~~~~~~~G~~  243 (413)
T d1vh4a_         233 AFSHSFLLGGA  243 (413)
T ss_dssp             EEEEEEECCCS
T ss_pred             eeeeecccccc
Confidence            99999997554