Citrus Sinensis ID: 020416

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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-------310-------320------
Protein Sequence
MAAAALSLNNSTSTNSPTLNSHKPISKFTSLTKPTNVSFNFLTNTPPRLQHFRPRPSVSESSLSVPKEADAEIEADDVEDDPTQELSYLDEETDPESITEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQTIITKACKELDIKPIPSKRCLSLLLWLEERYETVYTRHPGFQKGSKPLLALDNPFPMELPDNLFGDKWAFVQLPFSAVQEEVSSLESKFVFGASLDLDLLGIEVDDKTLIPGLAVASSRAKPLAGALPLSSILYISAIQFILFCLFMVFFPPL
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccccccccccccccccccccccccccEEEEcccccccccccccEEEEEEEEEccccEEEEEccccccccHHHHHHHHHHHHHHcccccccEEEEEHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccEEEEEcccHHHHHHHHccccccccccccccccccccccccccccEEEEEccccHHHHHHcccccccEEEcHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cccEEEEcccccccccccccccccccccccccccccccccccccccccccEccccccccHHHcccHHHHccccHHcccccccccEEEEccccccccccEEEEEEccccccccccccEEEEEEEEcccccEEEEEEcccccccHHHHHHHHHHHHHHcccccccEEEEccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccHHHccccEEEEEEcHHHHHHHccccccccccccccccHHccccccccccccEEEEEcccHHHHHHHHcccccHEEEHHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
MAAAAlslnnststnsptlnshkpiskftsltkptnvsfnfltntpprlqhfrprpsvsesslsvpkeadaeieaddveddptqelsyldeetdpesiteweldfcsrpildirgKKIWELVVCdgslslqytkyfpnnvinsITLKEAIVAICddlgvpipekIRFFRSQMQTIITKACkeldikpipskrCLSLLLWLEERYETvytrhpgfqkgskpllaldnpfpmelpdnlfgdkwafVQLPFSAVQEEVSSLESKfvfgasldldllgievddktlipglavassrakplagalplssILYISAIQFILFCLFMVFFPPL
Flexible Loop (DISEMBL)
maaaalslnnststnsptlnshkpiSKFTSLTKPTNVSFNFLTNTPPRLQHFrprpsvsesslsvpkeadaeieaddveddpTQELSyldeetdpesiteweldFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQTIITKackeldikpipskRCLSLLLWLEERYETVYTrhpgfqkgskpLLALDNPFPMELPDNLFGDKWAFVQLPFSAVQEEVSSLESKFVFGASLDLDLLGIEVDDKTLIPGLAVASSRAKPLAGALPLSSILYISAIQFILFCLFMVFFPPL
Low Complexity Region (SEG)
MaaaalslnnststnsptlnsHKPISKFTSLTKPTNVSFNFLTNTPPRLQHFRPRPSVSESSLSVPKeadaeieaddveddPTQELSYLDEETDPESITEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQTIITKACKELDIKPIPSKRCLSLLLWLEERYETVYTRHPGFQKGSKPLLALDNPFPMELPDNLFGDKWAFVQLPFSAVQEEVSSLESKFVFGASLDLDLLGIEVDDKTLIPGLAVASSRAKPLAGALPLSSILYISAIQFILFCLFMVFFPPL
Disordered region (IsUnstruct)
*************************************************************************************************ITEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQTIITKACKELDIKPIPSKRCLSLLLWLEERYETVYTRHPGFQKGSKPLLALDNPFPMELPDNLFGDKWAFVQLPFSAVQEEVSSLESKFVFGASLDLDLLGIEVDDKTLIPGLAVASSRAKPLAGALPLSSILYISAIQFILFCLFMVFF***
Disordered Region (DISOPRED)
****************************************************************************************LDEETDPESITEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQTIITKACKELDIKPIPSKRCLSLLLWLEERYETVYTRHPG*************PFPMELPDNLFGDKWAFVQLPFSAVQEEVSSLESKFVFGASLDLDLLGIEVDDKTLIPGLAVASSRAKPLAGALPLSSILYISAIQFILFCLFMVFFPPL
Disordered Region (DISEMBL)
********************SHKPISKFTSLTKPTNVSFNFLTNTPPRLQHF******************AEIEADDVEDDPTQELSYLDEETDPESITEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQTIITKACKELDIKPIPSKRCLSLLLWLEERYETVYTRHPGFQKGSKPLLALDNPFPMELPDNLFGDKWAFVQLPFSAVQEEVSSLESKFVFGASLDLDLLGIEVDDKTLIPGLAVASSRAKPLAGALPLSSILYISAIQFILFCLFMVFFPPL
Disordered Region (DISPRO)
**********STST*************F*SLTKPTNVSFNFL*************************************DDPTQELSYLDEETDPESITEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQTIITKACKELDIKPIPSKRCLSLLLWLEERYETVYTRHPGFQKGSKPLLALDNPFPMELPDNLFGDKWAFVQLPFSAVQEEVSSLESKFVFGASLDLDLLGIEVDDKTLIPGLAVASSRAKPLAGALPLSSILYISAIQFILFCLFMVFFPPL
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiii
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiii
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAAAALSLNNSTSTNSPTLNSHKPISKFTSLTKPTNVSFNFLTNTPPRLQHFRPRPSVSESSLSVPKEADAEIEADDVEDDPTQELSYLDEETDPESITEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQTIITKACKELDIKPIPSKRCLSLLLWLEERYETVYTRHPGFQKGSKPLLALDNPFPMELPDNLFGDKWAFVQLPFSAVQEEVSSLESKFVFGASLDLDLLGIEVDDKTLIPGLAVASSRAKPLAGALPLSSILYISAIQFILFCLFMVFFPPL
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	326
225450083	378	PREDICTED: uncharacterized protein LOC10	0.892	0.769	0.77	1e-118
255553548	377	conserved hypothetical protein [Ricinus	0.886	0.766	0.748	1e-118
118489335	376	unknown [Populus trichocarpa x Populus d	0.914	0.792	0.690	1e-114
449436313	379	PREDICTED: uncharacterized protein LOC10	0.834	0.717	0.742	1e-114
224104083	325	predicted protein [Populus trichocarpa]	0.748	0.750	0.791	1e-111
388502160	382	unknown [Lotus japonicus]	0.904	0.772	0.656	1e-111
224104081	325	predicted protein [Populus trichocarpa]	0.711	0.713	0.818	1e-110
297829368	374	hypothetical protein ARALYDRAFT_478142 [	0.874	0.762	0.707	1e-110
18398129	374	RNA binding protein [Arabidopsis thalian	0.874	0.762	0.704	1e-109
297736276	298	unnamed protein product [Vitis vinifera]	0.659	0.721	0.860	1e-106

>gi|225450083|ref|XP_002278058.1| PREDICTED: uncharacterized protein LOC100243060 [Vitis vinifera]

 Score =  431 bits (1109), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 231/300 (77%), Positives = 254/300 (84%), Gaps = 9/300 (3%)

Query: 4   AALSLNNSTSTNSPTLNSHKPISKFTSLTKPTNVSFNFLTN---TPPRLQHFRPRPSVSE 60
           A LSLN  T   +PTL SHKPI +F SLT PT     F TN   T P+L HFR   SVSE
Sbjct: 2   AGLSLN-PTKITTPTLQSHKPIYRFNSLTNPTKTQLKFPTNPAKTHPKLLHFR-HSSVSE 59

Query: 61  SSLSVPKEADAEIEADDVEDDPTQELSYLDEETDPESITEWELDFCSRPILDIRGKKIWE 120
           SS+SVPKE + + E DD    PT E++YLD ETDPESI+EWELDFCSRPILDIRGKKIWE
Sbjct: 60  SSVSVPKEVEVDDEEDD----PTSEMNYLDRETDPESISEWELDFCSRPILDIRGKKIWE 115

Query: 121 LVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQTIITKAC 180
           L+VCD SLSLQYTKYFPNNVINS+TLK AI +I D+L VP+PEKIRFFRSQMQTI+TKAC
Sbjct: 116 LLVCDSSLSLQYTKYFPNNVINSVTLKNAIESISDELDVPLPEKIRFFRSQMQTIVTKAC 175

Query: 181 KELDIKPIPSKRCLSLLLWLEERYETVYTRHPGFQKGSKPLLALDNPFPMELPDNLFGDK 240
           KEL IKPIPSKRCLSL+LWLEERYETVYTRHPGFQ+GSKPLL LDNPFPM+LP+NLFG+K
Sbjct: 176 KELGIKPIPSKRCLSLILWLEERYETVYTRHPGFQQGSKPLLTLDNPFPMQLPENLFGEK 235

Query: 241 WAFVQLPFSAVQEEVSSLESKFVFGASLDLDLLGIEVDDKTLIPGLAVASSRAKPLAGAL 300
           WAFVQLPFSAVQEEVSSLE++ VFGASLDLDLLGIEVD  TLIPGLAVASSRAKPLA  +
Sbjct: 236 WAFVQLPFSAVQEEVSSLETRLVFGASLDLDLLGIEVDANTLIPGLAVASSRAKPLAAWM 295

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255553548|ref|XP_002517815.1| conserved hypothetical protein [Ricinus communis] gi|223543087|gb|EEF44622.1| conserved hypothetical protein [Ricinus communis]

 Score =  431 bits (1108), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 220/294 (74%), Positives = 254/294 (86%), Gaps = 5/294 (1%)

Query: 11  STSTNSPTLNSHKPISKFTSLTKPTNVSFNFLTNTPPRLQ----HFRPRPSVSESSLSVP 66
           +T + +PT   HKPISK TS +KPT V F  ++  PP+      HF+ + SVS       
Sbjct: 2   ATLSFNPTRIPHKPISKITSFSKPTKVYFP-VSQKPPKTHQKQLHFQSKLSVSTQEQVEV 60

Query: 67  KEADAEIEADDVEDDPTQELSYLDEETDPESITEWELDFCSRPILDIRGKKIWELVVCDG 126
           ++ D E E ++V+DDPT E+SYLD ETDP+SI EWELDFCSRPILDIRGKK+WELVVCD 
Sbjct: 61  EDYDNEEEEEEVDDDPTAEVSYLDPETDPDSIVEWELDFCSRPILDIRGKKVWELVVCDD 120

Query: 127 SLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQTIITKACKELDIK 186
           SLSLQ+TKYFPNNVINSITLK+A+V++ +DLGVP+PEKIRFFRSQMQTIITKACKEL+IK
Sbjct: 121 SLSLQFTKYFPNNVINSITLKDALVSVSEDLGVPLPEKIRFFRSQMQTIITKACKELNIK 180

Query: 187 PIPSKRCLSLLLWLEERYETVYTRHPGFQKGSKPLLALDNPFPMELPDNLFGDKWAFVQL 246
           P+PSKRCLSLLLWLEERYETVYTRHPGFQKGSKPLLALDNPFPMELP+NLFG+KWAFVQL
Sbjct: 181 PVPSKRCLSLLLWLEERYETVYTRHPGFQKGSKPLLALDNPFPMELPENLFGEKWAFVQL 240

Query: 247 PFSAVQEEVSSLESKFVFGASLDLDLLGIEVDDKTLIPGLAVASSRAKPLAGAL 300
           PFSAVQEEVSSLE++F+FGASLDLDLLGIE+ +KTLIPGLAVASSRAKPLA  +
Sbjct: 241 PFSAVQEEVSSLETRFMFGASLDLDLLGIEIGEKTLIPGLAVASSRAKPLAAWM 294

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118489335|gb|ABK96472.1| unknown [Populus trichocarpa x Populus deltoides]

 Score =  418 bits (1075), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 210/304 (69%), Positives = 246/304 (80%), Gaps = 6/304 (1%)

Query: 11  STSTNSPTLNSHKPISKFTSLTKPTNVSFNFLTNTPPRLQHFRP----RPSVSESSLSVP 66
           +T + +PT   HKPISK  S +K + + F F  +  P   H +P       +++ S+S  
Sbjct: 2   ATLSFNPTRIPHKPISKTASFSKTSEMPFPF--SLKPSKHHVKPLHLQSNIITKLSVSTQ 59

Query: 67  KEADAEIEADDVEDDPTQELSYLDEETDPESITEWELDFCSRPILDIRGKKIWELVVCDG 126
           +E     + D  EDDPT E  YLD+ETDP+SI EWELDFCSRPILD+RGKK+WELVVCD 
Sbjct: 60  EEEVETEKEDLEEDDPTAETVYLDQETDPDSILEWELDFCSRPILDVRGKKVWELVVCDD 119

Query: 127 SLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQTIITKACKELDIK 186
           SLSLQ+TKYFPNNVINSITLK+AIV+I  DLGVP+PE+IRFFRSQMQTIITKACKE+ IK
Sbjct: 120 SLSLQFTKYFPNNVINSITLKDAIVSISVDLGVPLPERIRFFRSQMQTIITKACKEIGIK 179

Query: 187 PIPSKRCLSLLLWLEERYETVYTRHPGFQKGSKPLLALDNPFPMELPDNLFGDKWAFVQL 246
           PIPSKRC+SLLLWLEERYETVYTRHPGFQKG+KPLLALDNPFPMELPDNLFG+KWAFVQL
Sbjct: 180 PIPSKRCISLLLWLEERYETVYTRHPGFQKGAKPLLALDNPFPMELPDNLFGEKWAFVQL 239

Query: 247 PFSAVQEEVSSLESKFVFGASLDLDLLGIEVDDKTLIPGLAVASSRAKPLAGALPLSSIL 306
           PFSAV+EE++S E+ F FGASLDLDLLGIE+DDKT+IPGLAVASSRA+PLA  +    + 
Sbjct: 240 PFSAVREEIASFETSFFFGASLDLDLLGIEIDDKTMIPGLAVASSRAEPLAAWMNGLEVC 299

Query: 307 YISA 310
            I A
Sbjct: 300 AIEA 303

Source: Populus trichocarpa x Populus deltoides

Species: Populus trichocarpa x Populus deltoides

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449436313|ref|XP_004135937.1| PREDICTED: uncharacterized protein LOC101208052 [Cucumis sativus] gi|449488836|ref|XP_004158187.1| PREDICTED: uncharacterized protein LOC101230638 [Cucumis sativus]

 Score =  416 bits (1070), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 208/280 (74%), Positives = 241/280 (86%), Gaps = 8/280 (2%)

Query: 23  KPI-SKFTSLTKPTN-VSFNFLTNTPPRLQHFRPRPSVSESSLSVPKEADAEIEADDVED 80
           KPI S F+   K  N  S N   +  P L  FR   SVSESS++ P+E    +E ++ ED
Sbjct: 23  KPIYSPFSQSIKTANRFSANGRISQQP-LPRFRSN-SVSESSVTAPEE----VELNEDED 76

Query: 81  DPTQELSYLDEETDPESITEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNV 140
           DPT E++YLD ETDPESITEWELDFCSRPILDIRGKK+WELVVCD SLSLQYTKYFPNNV
Sbjct: 77  DPTLEMAYLDSETDPESITEWELDFCSRPILDIRGKKVWELVVCDNSLSLQYTKYFPNNV 136

Query: 141 INSITLKEAIVAICDDLGVPIPEKIRFFRSQMQTIITKACKELDIKPIPSKRCLSLLLWL 200
           INSITL++A+ +I ++LGVP+P+KIRFFRSQMQTIITKAC EL IKPIPSKRCLSLLLWL
Sbjct: 137 INSITLRDAVSSIAEELGVPLPDKIRFFRSQMQTIITKACTELGIKPIPSKRCLSLLLWL 196

Query: 201 EERYETVYTRHPGFQKGSKPLLALDNPFPMELPDNLFGDKWAFVQLPFSAVQEEVSSLES 260
           EERYETVYTRHPGFQKGSKPLLALDNPFPMELP+NLFG++WAFVQLPFSAVQEE+S+L+ 
Sbjct: 197 EERYETVYTRHPGFQKGSKPLLALDNPFPMELPENLFGERWAFVQLPFSAVQEEISNLKE 256

Query: 261 KFVFGASLDLDLLGIEVDDKTLIPGLAVASSRAKPLAGAL 300
            F+FG+SLDLDLLGIE+DDKT+IPGL+VA+SRA+PLA  +
Sbjct: 257 TFMFGSSLDLDLLGIEIDDKTMIPGLSVATSRAQPLAAWM 296

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224104083|ref|XP_002313311.1| predicted protein [Populus trichocarpa] gi|222849719|gb|EEE87266.1| predicted protein [Populus trichocarpa]

 Score =  408 bits (1048), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 194/245 (79%), Positives = 221/245 (90%), Gaps = 1/245 (0%)

Query: 67  KEADAEIEADDVE-DDPTQELSYLDEETDPESITEWELDFCSRPILDIRGKKIWELVVCD 125
           +E + E E  D E DDPT E+ YLD ETDP+SI EWELDFCSRPILD+RGKK+WELVVCD
Sbjct: 8   QEEEVETEKKDYEEDDPTTEMVYLDPETDPDSIVEWELDFCSRPILDVRGKKVWELVVCD 67

Query: 126 GSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQTIITKACKELDI 185
            SLSLQ+TKYFPNNVINSITLK+AIV+I +DLGVP+PE+IRFFRSQMQTIITKACKE+ I
Sbjct: 68  DSLSLQFTKYFPNNVINSITLKDAIVSISEDLGVPLPERIRFFRSQMQTIITKACKEIGI 127

Query: 186 KPIPSKRCLSLLLWLEERYETVYTRHPGFQKGSKPLLALDNPFPMELPDNLFGDKWAFVQ 245
           KPIPSKRC+SLLLWLEERYETVYTRHPGFQKG+KPLLALDNPFPMELPDNLFG+KWAFVQ
Sbjct: 128 KPIPSKRCISLLLWLEERYETVYTRHPGFQKGAKPLLALDNPFPMELPDNLFGEKWAFVQ 187

Query: 246 LPFSAVQEEVSSLESKFVFGASLDLDLLGIEVDDKTLIPGLAVASSRAKPLAGALPLSSI 305
           LP+SAV+EE++SLE+ F FGASLDLDLLGIE+DDKT+IPGLAVASSRA+PLA  +    +
Sbjct: 188 LPYSAVREEIASLETSFFFGASLDLDLLGIEIDDKTMIPGLAVASSRAEPLAAWMNGLEV 247

Query: 306 LYISA 310
           + I A
Sbjct: 248 VAIEA 252

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388502160|gb|AFK39146.1| unknown [Lotus japonicus]

 Score =  407 bits (1047), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 197/300 (65%), Positives = 245/300 (81%), Gaps = 5/300 (1%)

Query: 4   AALSLNNSTSTNSPTLNSHKPISKFTSLTKPTNVSF--NFLTNTPPRLQHFRPRPSVSES 61
           A LS N  T   +PT N   P +K TS +KP  +    + + ++  +L HFR   SVSE+
Sbjct: 2   ATLSFN-PTRIRTPTFNRSNPSTKLTSSSKPIRIPCIPSSINHSHQKLIHFRAN-SVSET 59

Query: 62  SLSVPKEADAEIEADDVEDD-PTQELSYLDEETDPESITEWELDFCSRPILDIRGKKIWE 120
           SLS  KE + E   D+ EDD PT E+S+LD ETDP++I++WELDFCSRPILD RGKK+WE
Sbjct: 60  SLSTQKEEEQETLGDEEEDDDPTAEMSFLDPETDPDAISDWELDFCSRPILDARGKKLWE 119

Query: 121 LVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQTIITKAC 180
           LVVCD +LSLQ+TKYFPNNVINSITLK+A+V++CDDLG+P+P+KIRFFRSQMQTIIT+AC
Sbjct: 120 LVVCDSTLSLQFTKYFPNNVINSITLKDAVVSVCDDLGLPLPKKIRFFRSQMQTIITRAC 179

Query: 181 KELDIKPIPSKRCLSLLLWLEERYETVYTRHPGFQKGSKPLLALDNPFPMELPDNLFGDK 240
            EL IKP+PSKRCLSLLLWLEERYETVY +HPGFQKG  PLLALDNPFP +LP++LFG++
Sbjct: 180 NELGIKPVPSKRCLSLLLWLEERYETVYKKHPGFQKGFTPLLALDNPFPTKLPEDLFGER 239

Query: 241 WAFVQLPFSAVQEEVSSLESKFVFGASLDLDLLGIEVDDKTLIPGLAVASSRAKPLAGAL 300
           WAFVQLPFSAV+EE++SL++  +FG+ LDLDL+GIE+DDKT+IPGLAV SSRA  L+  +
Sbjct: 240 WAFVQLPFSAVREELTSLQTNMIFGSGLDLDLMGIEIDDKTMIPGLAVGSSRATVLSAIM 299

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224104081|ref|XP_002313310.1| predicted protein [Populus trichocarpa] gi|222849718|gb|EEE87265.1| predicted protein [Populus trichocarpa]

 Score =  403 bits (1036), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 190/232 (81%), Positives = 214/232 (92%)

Query: 79  EDDPTQELSYLDEETDPESITEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPN 138
           EDDPT E  YLD+ETDP+SI EWELDFCSRPILD+RGKK+WELVVCD SLSLQ+TKYFPN
Sbjct: 21  EDDPTAETVYLDQETDPDSIVEWELDFCSRPILDVRGKKVWELVVCDDSLSLQFTKYFPN 80

Query: 139 NVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQTIITKACKELDIKPIPSKRCLSLLL 198
           NVINSITLK+AIV+I  DLGVP+PE+IRFFRSQM TIITKACKE+ IKPIPSKRC+SLLL
Sbjct: 81  NVINSITLKDAIVSISVDLGVPLPERIRFFRSQMLTIITKACKEIGIKPIPSKRCISLLL 140

Query: 199 WLEERYETVYTRHPGFQKGSKPLLALDNPFPMELPDNLFGDKWAFVQLPFSAVQEEVSSL 258
           WLEERYETVYTRHPGFQKG+KPLLALDNPFPMELPDNLFG+KWAFVQLPFSAV+EE++SL
Sbjct: 141 WLEERYETVYTRHPGFQKGAKPLLALDNPFPMELPDNLFGEKWAFVQLPFSAVREEIASL 200

Query: 259 ESKFVFGASLDLDLLGIEVDDKTLIPGLAVASSRAKPLAGALPLSSILYISA 310
           E++F FGASLDLDLLGIE+DDKT+IPGLAVASSRA+PLA  +    ++ I A
Sbjct: 201 ETRFFFGASLDLDLLGIEIDDKTMIPGLAVASSRAEPLAAWMNGLEVVAIEA 252

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297829368|ref|XP_002882566.1| hypothetical protein ARALYDRAFT_478142 [Arabidopsis lyrata subsp. lyrata] gi|297328406|gb|EFH58825.1| hypothetical protein ARALYDRAFT_478142 [Arabidopsis lyrata subsp. lyrata]

 Score =  403 bits (1035), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 206/291 (70%), Positives = 234/291 (80%), Gaps = 6/291 (2%)

Query: 10  NSTSTNSPTLNSHKPISKFTSLTKPTNVSFNFLTNTPPRLQHFRPRPSVSESSLSVPKEA 69
           N+T   +P+L     I K +S TKP      F + T  +   F  R S+ ESSLS+ KE 
Sbjct: 7   NTTRIQTPSLPR---IPKPSSFTKPIKTHHLFSSETLLKRCRFVSR-SLPESSLSITKEQ 62

Query: 70  DAEIEADDVEDDPTQELSYLDEETDPESITEWELDFCSRPILDIRGKKIWELVVCDGSLS 129
           +   E +  EDDPT ELSYLD E+D +SI EWELDFCSRPILD RGKKIWELVVCD SLS
Sbjct: 63  EVANEVE--EDDPTSELSYLDPESDADSIKEWELDFCSRPILDSRGKKIWELVVCDASLS 120

Query: 130 LQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQTIITKACKELDIKPIP 189
           LQ TKYFPNNVINSITLK+AIV I  DLGVP+PEKIRFFRSQMQTIITKACKEL IK +P
Sbjct: 121 LQVTKYFPNNVINSITLKDAIVTITQDLGVPLPEKIRFFRSQMQTIITKACKELAIKAVP 180

Query: 190 SKRCLSLLLWLEERYETVYTRHPGFQKGSKPLLALDNPFPMELPDNLFGDKWAFVQLPFS 249
           SKRCLSL LWL+ERY+TVYTRHPGFQKGS PLL+LDNPFPM LP+NLFG+KWAFVQLP+S
Sbjct: 181 SKRCLSLFLWLQERYDTVYTRHPGFQKGSLPLLSLDNPFPMNLPENLFGEKWAFVQLPYS 240

Query: 250 AVQEEVSSLESKFVFGASLDLDLLGIEVDDKTLIPGLAVASSRAKPLAGAL 300
           AV+EE+S  E KFVFGA+LDLDLLGIEVD+ TLIPGL+VA+SRAKPLA  +
Sbjct: 241 AVREEISDFEEKFVFGATLDLDLLGIEVDENTLIPGLSVATSRAKPLAAWM 291

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18398129|ref|NP_566327.1| RNA binding protein [Arabidopsis thaliana] gi|6648213|gb|AAF21211.1|AC013483_35 unknown protein [Arabidopsis thaliana] gi|18252181|gb|AAL61923.1| unknown protein [Arabidopsis thaliana] gi|24899681|gb|AAN65055.1| unknown protein [Arabidopsis thaliana] gi|332641109|gb|AEE74630.1| RNA binding protein [Arabidopsis thaliana]

 Score =  400 bits (1027), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 205/291 (70%), Positives = 233/291 (80%), Gaps = 6/291 (2%)

Query: 10  NSTSTNSPTLNSHKPISKFTSLTKPTNVSFNFLTNTPPRLQHFRPRPSVSESSLSVPKEA 69
           N+    +P+L     I K +S TKP      F + T  +   F  R S+ ESSLS+ KE 
Sbjct: 7   NTRRIQTPSLPR---IPKPSSFTKPIKTHHLFSSETLLKRCRFVSR-SLPESSLSITKEQ 62

Query: 70  DAEIEADDVEDDPTQELSYLDEETDPESITEWELDFCSRPILDIRGKKIWELVVCDGSLS 129
           +   E +  EDDPT ELSYLD E+D +SI EWELDFCSRPILD RGKKIWELVVCD SLS
Sbjct: 63  EVANEVE--EDDPTSELSYLDPESDADSIKEWELDFCSRPILDSRGKKIWELVVCDASLS 120

Query: 130 LQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQTIITKACKELDIKPIP 189
           LQ TKYFPNNVINSITLK+AIV I  DLGVP+PEKIRFFRSQMQTIITKACKEL IK +P
Sbjct: 121 LQVTKYFPNNVINSITLKDAIVTITQDLGVPLPEKIRFFRSQMQTIITKACKELAIKAVP 180

Query: 190 SKRCLSLLLWLEERYETVYTRHPGFQKGSKPLLALDNPFPMELPDNLFGDKWAFVQLPFS 249
           SKRCLSL LWL+ERY+TVYTRHPGFQKGS PLL+LDNPFPM LP+NLFG+KWAFVQLP+S
Sbjct: 181 SKRCLSLFLWLQERYDTVYTRHPGFQKGSLPLLSLDNPFPMNLPENLFGEKWAFVQLPYS 240

Query: 250 AVQEEVSSLESKFVFGASLDLDLLGIEVDDKTLIPGLAVASSRAKPLAGAL 300
           AV+EE+S  + KFVFGASLDLDLLGIEVD+ TLIPGL+VA+SRAKPLA  +
Sbjct: 241 AVREEISDFDEKFVFGASLDLDLLGIEVDENTLIPGLSVATSRAKPLAAWM 291

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297736276|emb|CBI24914.3| unnamed protein product [Vitis vinifera]

 Score =  391 bits (1004), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 185/215 (86%), Positives = 202/215 (93%)

Query: 86  LSYLDEETDPESITEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSIT 145
           ++YLD ETDPESI+EWELDFCSRPILDIRGKKIWEL+VCD SLSLQYTKYFPNNVINS+T
Sbjct: 1   MNYLDRETDPESISEWELDFCSRPILDIRGKKIWELLVCDSSLSLQYTKYFPNNVINSVT 60

Query: 146 LKEAIVAICDDLGVPIPEKIRFFRSQMQTIITKACKELDIKPIPSKRCLSLLLWLEERYE 205
           LK AI +I D+L VP+PEKIRFFRSQMQTI+TKACKEL IKPIPSKRCLSL+LWLEERYE
Sbjct: 61  LKNAIESISDELDVPLPEKIRFFRSQMQTIVTKACKELGIKPIPSKRCLSLILWLEERYE 120

Query: 206 TVYTRHPGFQKGSKPLLALDNPFPMELPDNLFGDKWAFVQLPFSAVQEEVSSLESKFVFG 265
           TVYTRHPGFQ+GSKPLL LDNPFPM+LP+NLFG+KWAFVQLPFSAVQEEVSSLE++ VFG
Sbjct: 121 TVYTRHPGFQQGSKPLLTLDNPFPMQLPENLFGEKWAFVQLPFSAVQEEVSSLETRLVFG 180

Query: 266 ASLDLDLLGIEVDDKTLIPGLAVASSRAKPLAGAL 300
           ASLDLDLLGIEVD  TLIPGLAVASSRAKPLA  +
Sbjct: 181 ASLDLDLLGIEVDANTLIPGLAVASSRAKPLAAWM 215

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	326
TAIR|locus:2077432	374	ATAB2 [Arabidopsis thaliana (t	0.828	0.721	0.721	1.5e-99

TAIR|locus:2077432 ATAB2 [Arabidopsis thaliana (taxid:3702)]

 Score = 988 (352.9 bits), Expect = 1.5e-99, P = 1.5e-99
 Identities = 197/273 (72%), Positives = 219/273 (80%)

Query:    25 ISKFTSLTKPTNVSFNFLTNTPPRLQHFRPRPSVSESSLSVPKXXXXXXXXXXXXXXPTQ 84
             I K +S TKP      F + T  +   F  R S+ ESSLS+ K              PT 
Sbjct:    19 IPKPSSFTKPIKTHHLFSSETLLKRCRFVSR-SLPESSLSITKEQEVANEVEEDD--PTS 75

Query:    85 ELSYLDEETDPESITEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSI 144
             ELSYLD E+D +SI EWELDFCSRPILD RGKKIWELVVCD SLSLQ TKYFPNNVINSI
Sbjct:    76 ELSYLDPESDADSIKEWELDFCSRPILDSRGKKIWELVVCDASLSLQVTKYFPNNVINSI 135

Query:   145 TLKEAIVAICDDLGVPIPEKIRFFRSQMQTIITKACKELDIKPIPSKRCLSLLLWLEERY 204
             TLK+AIV I  DLGVP+PEKIRFFRSQMQTIITKACKEL IK +PSKRCLSL LWL+ERY
Sbjct:   136 TLKDAIVTITQDLGVPLPEKIRFFRSQMQTIITKACKELAIKAVPSKRCLSLFLWLQERY 195

Query:   205 ETVYTRHPGFQKGSKPLLALDNPFPMELPDNLFGDKWAFVQLPFSAVQEEVSSLESKFVF 264
             +TVYTRHPGFQKGS PLL+LDNPFPM LP+NLFG+KWAFVQLP+SAV+EE+S  + KFVF
Sbjct:   196 DTVYTRHPGFQKGSLPLLSLDNPFPMNLPENLFGEKWAFVQLPYSAVREEISDFDEKFVF 255

Query:   265 GASLDLDLLGIEVDDKTLIPGLAVASSRAKPLA 297
             GASLDLDLLGIEVD+ TLIPGL+VA+SRAKPLA
Sbjct:   256 GASLDLDLLGIEVDENTLIPGLSVATSRAKPLA 288


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        0.321   0.139   0.419    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      326       292   0.00090  115 3  11 22  0.36    34
                                                     33  0.44    37


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:  616 (65 KB)
  Total size of DFA:  216 KB (2119 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:  23.47u 0.10s 23.57t   Elapsed:  00:00:01
  Total cpu time:  23.47u 0.10s 23.57t   Elapsed:  00:00:01
  Start:  Tue May 21 01:52:40 2013   End:  Tue May 21 01:52:41 2013

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0003723 "RNA binding" evidence=IDA

GO:0006412 "translation" evidence=IMP

GO:0009658 "chloroplast organization" evidence=IMP

GO:0009704 "de-etiolation" evidence=IEP

GO:0006364 "rRNA processing" evidence=RCA

GO:0009073 "aromatic amino acid family biosynthetic process" evidence=RCA

GO:0009902 "chloroplast relocation" evidence=RCA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010155 "regulation of proton transport" evidence=RCA

GO:0010207 "photosystem II assembly" evidence=RCA

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

GO:0016556 "mRNA modification" evidence=RCA

GO:0019761 "glucosinolate biosynthetic process" 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:0046777 "protein autophosphorylation" 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	326
pfam06485	270	pfam06485, DUF1092, Protein of unknown function (D	1e-76

>gnl|CDD|219056 pfam06485, DUF1092, Protein of unknown function (DUF1092)

 Score =  235 bits (602), Expect = 1e-76
 Identities = 96/220 (43%), Positives = 123/220 (55%), Gaps = 12/220 (5%)

Query: 101 WELDFCSRPILDIRGKKIWELVVCDGSLS-LQYTKYFPNNVINSITLKEAIVAICDDLGV 159
           WELDF SRPILD  GKK WEL++CD   S  +Y K+ P + +NS+ L  A+     + G 
Sbjct: 1   WELDFYSRPILDEDGKKRWELLICDTPRSPFRYAKFCPASEVNSVWLARALEEAIAE-GW 59

Query: 160 PIPEKIRFFRSQMQTIITKACKELDIKPIPSKRCLSLLLWLEERYETVYTRHPGFQKGSK 219
             P++IRFFRSQM T+I +AC+EL I+  PS+R  +L  WLEER E VY + PG+   + 
Sbjct: 60  EKPDRIRFFRSQMLTMIQRACEELGIEVEPSRRTYALKDWLEEREEEVYPQEPGYMALAP 119

Query: 220 PLLALDNPFPMELPDNLFGDKWAFVQLPFSAVQEEVSSLESKFVFGASLDLDLLGIEVDD 279
           P +ALD P P  LP+ L GD WAF  LP   ++E     E    FG    L L    + D
Sbjct: 120 PPVALDKPPPQPLPEALRGDAWAFASLPAGDLREA---FEWPIPFGELFPLPL---GLAD 173

Query: 280 KTLIPGLAVASS-RAKPLAG---ALPLSSILYISAIQFIL 315
            T IPGL + S  RA  LA     L   S+      Q IL
Sbjct: 174 DTPIPGLRIFSGRRALALAAWLSGLEPVSLSVDGGDQLIL 213

This family consists of several hypothetical proteins of unknown function all from photosynthetic organisms including plants and cyanobacteria. Length = 270

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	326
PF06485	270	DUF1092: Protein of unknown function (DUF1092); In	100.0
PF00665	120	rve: Integrase core domain; InterPro: IPR001584 In	96.86

>PF06485 DUF1092: Protein of unknown function (DUF1092); InterPro: IPR009472 This family consists of several hypothetical proteins of unknown function all from photosynthetic organisms including plants and cyanobacteria

Probab=100.00  E-value=2.1e-90  Score=647.64  Aligned_cols=202  Identities=49%  Similarity=0.834  Sum_probs=194.6

Q ss_pred             cccccccCccccCCCceeEEEEEeeCCCceEEEecCCCCCCCHHHHHHHHHHHHHhcCCCCCCeeeeeHHHHHHHHHHHH
Q 020416          101 WELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQTIITKAC  180 (326)
Q Consensus       101 WELDFYSRPilD~~GKKlWELLICDs~~~F~y~~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~~IRfFR~QM~nmI~kAc  180 (326)
                      ||||||||||+|++|||+|||||||++++|+|+++||||+|||+||++||++|+++ |+.+|++|||||+||+|||++||
T Consensus         1 WElDFYsRPi~d~~gkk~WELLIcd~~~~f~~~~~cP~~~vNS~wL~~al~~a~~~-~~~~P~~Ir~FR~qm~~mI~~A~   79 (270)
T PF06485_consen    1 WELDFYSRPILDENGKKLWELLICDSPGSFRYAKFCPNSEVNSIWLRQALEEAIDQ-GGEKPDRIRFFRSQMLNMITKAC   79 (270)
T ss_pred             CccccccCcccCCCCCeeEEEEEEcCCCCEEEEEeCCCCccCHHHHHHHHHHHHHh-cCCCCcEEEEEhHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999996 67999999999999999999999


Q ss_pred             hhCCCccccccchHHHHHHHHHHhhhhccCCCCCCCCCCCCCCCCCCCCCCCCcccCCCeeEEeeecchhhHHHhhcccc
Q 020416          181 KELDIKPIPSKRCLSLLLWLEERYETVYTRHPGFQKGSKPLLALDNPFPMELPDNLFGDKWAFVQLPFSAVQEEVSSLES  260 (326)
Q Consensus       181 ~eLgI~v~PSRRT~aL~~WLeERy~~vYp~~pGy~~~~~~p~~ld~p~P~pLPDaL~GEkWaFvsLpa~~l~e~~~~~~~  260 (326)
                      ++|||+++||||||||++||+||+++|||+|+||++++++++++++++|+|||||||||+|+||+||+++|+|+   .+|
T Consensus        80 ~~lgI~~~pSRRt~aL~~wL~eR~~~vYp~~~gy~~~~~~~~~~~~~~P~pLPdaL~Ge~W~FvsLp~~~l~e~---~e~  156 (270)
T PF06485_consen   80 EELGIPVEPSRRTYALKQWLEEREEEVYPQEPGYQPGAPPPVALDPPPPQPLPDALRGEKWAFVSLPAGDLREA---FEW  156 (270)
T ss_pred             HHCCCceeecccHHHHHHHHHHHHHHhCcCCCCCCCCCCCccccCCCCCCCCChhhCCCceEEEEccHHHHHhh---hcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999998   489


Q ss_pred             ccccCccccCcccCCCCCCCCCcceeEEecC-CchhHHhccCCccccccc
Q 020416          261 KFVFGASLDLDLLGIEVDDKTLIPGLAVASS-RAKPLAGALPLSSILYIS  309 (326)
Q Consensus       261 pI~Fge~lpL~~l~lgL~~dt~IPGvvIfS~-RAl~LA~WLsgl~L~yi~  309 (326)
                      ||.||+++||+   +||++|++||||+|||+ |||+||+||+|+++.++.
T Consensus       157 ~i~fg~l~Pl~---~~l~~~~~IPGv~I~s~~Ral~LA~Wl~glEp~~L~  203 (270)
T PF06485_consen  157 PIPFGELLPLP---LGLASDTPIPGVVIFSGRRALPLAAWLSGLEPVSLN  203 (270)
T ss_pred             CccccccCCCC---CCCCcCCccceEEEecCcchhHHHHHhccCceEEEE
Confidence            99999998887   89999999999999996 999999999976655544

>PF00665 rve: Integrase core domain; InterPro: IPR001584 Integrase comprises three domains capable of folding independently and whose three-dimensional structures are known

Probab=96.86  E-value=0.0056  Score=47.97  Aligned_cols=92  Identities=24%  Similarity=0.338  Sum_probs=71.6

Q ss_pred             cccccccccCccccCCCceeEEEEEeeCCCceEEEecCCCCCCCHHHHHHHHHHHHHhcCCCCCCeeeeeHHHHHH--HH
Q 020416           99 TEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQT--II  176 (326)
Q Consensus        99 ~iWELDFYSRPilD~~GKKlWELLICDs~~~F~y~~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~~IRfFR~QM~n--mI  176 (326)
                      ..|++|++.-++.+ .|++.|=+++.|.-+.+.+...+++. -++..+...|..++...|+..|..|+.=+..-.+  .+
T Consensus         7 ~~~~~D~~~~~~~~-~~~~~~~~~~iD~~S~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~p~~i~tD~g~~f~~~~~   84 (120)
T PF00665_consen    7 ERWQIDFTPMPIPD-KGGRVYLLVFIDDYSRFIYAFPVSSK-ETAEAALRALKRAIEKRGGRPPRVIRTDNGSEFTSHAF   84 (120)
T ss_dssp             TEEEEEEEEETGGC-TT-CEEEEEEEETTTTEEEEEEESSS-SHHHHHHHHHHHHHHHHS-SE-SEEEEESCHHHHSHHH
T ss_pred             CEEEEeeEEEecCC-CCccEEEEEEEECCCCcEEEEEeecc-cccccccccccccccccccccceecccccccccccchh
Confidence            58999999444444 44489999999999999999999988 6777889999999998765449999886665555  88


Q ss_pred             HHHHhhCCCccccccc
Q 020416          177 TKACKELDIKPIPSKR  192 (326)
Q Consensus       177 ~kAc~eLgI~v~PSRR  192 (326)
                      +..|+++||....++.
T Consensus        85 ~~~~~~~~i~~~~~~~  100 (120)
T PF00665_consen   85 EAWCKHLGIKHVFTPP  100 (120)
T ss_dssp             HHHHHHHT-EEEESST
T ss_pred             hhHHHHcCceEeeCCC
Confidence            9999999999988774

However, the manner in which the N-terminal, catalytic, and C-terminal domains interact in the holoenzyme remains obscure. Numerous studies indicate that the enzyme functions as a multimer, minimally a dimer. The integrase proteins from Human immunodeficiency virus 1 (HIV-1) and Avian sarcoma virus (ASV) have been studied most carefully with respect to the structural basis of catalysis. Although the active site of ASV integrase does not undergo significant conformational changes on binding the required metal cofactor, that of HIV-1 does. This active site-mediated conformational change in HIV-1 reorganises the catalytic core and C-terminal domains and appears to promote an interaction that is favourable for catalysis []. Retroviral integrase is synthesised as part of the POL polyprotein that contains; an aspartyl protease, a reverse transcriptase, RNase H and integrase. POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. The presence of retrovirus integrase-related gene sequences in eukaryotes is known. Bacterial transposases involved in the transposition of the insertion sequence also belong to this group. HIV integrase catalyses the incorporation of virally derived DNA into the human genome. This unique step in the virus life cycle provides a variety of points for intervention and hence is an attractive target for the development of new therapeutics for the treatment of AIDS []. Substrate recognition by the retroviral integrase enzyme is critical for retroviral integration. To catalyse this recombination event, integrase must recognise and act on two types of substrates, viral DNA and host DNA, yet the necessary interactions exhibit markedly different degrees of specificity [].; GO: 0015074 DNA integration; PDB: 3AO3_A 3OVN_A 3AO5_A 3AO4_A 3AO1_A 1C6V_D 3HPG_A 3HPH_A 3OYD_A 3OYF_B ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	326
3kks_A	152	Integrase, IN; beta-strands flanked by alpha-helic	92.9
1cxq_A	162	Avian sarcoma virus integrase; mixed beta-sheet su	91.46
1c0m_A	238	Protein (integrase); HIV, X-RAY crystallography, p	91.34
2x78_A	200	Integrase; viral protein, DNA-directed DNA polyme	90.77
1bco_A	327	MUA domain II, bacteriophage MU transposase; polyn	84.73
3hph_A	219	Integrase, IN; protein-protein complex, tetramer,	82.17

>3kks_A Integrase, IN; beta-strands flanked by alpha-helices, DNA binding protein; 2.20A {Bovine immunodeficiency virus} PDB: 3kkr_A

Probab=92.90  E-value=0.58  Score=36.22  Aligned_cols=81  Identities=15%  Similarity=0.164  Sum_probs=61.2

Q ss_pred             cccccccccCccccCCCceeEEEEEeeCCCceEEEecCCCCCCCHHHHHHHHHHHHHhcCCCCCCeeeeeHHHHH--HHH
Q 020416           99 TEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQ--TII  176 (326)
Q Consensus        99 ~iWELDFYSRPilD~~GKKlWELLICDs~~~F~y~~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~~IRfFR~QM~--nmI  176 (326)
                      .+||+|+-.-      |+ .|=++|.|.-+.+.+...++  ..++..+..+|..++...|   |..|+.=|..-.  ..+
T Consensus         3 ~~w~~D~t~~------~~-~y~~~~iD~~sr~~~~~~~~--~~~~~~~~~~l~~~~~~~g---p~~i~sDnG~~f~s~~~   70 (152)
T 3kks_A            3 HLWQMDNTHW------NK-TIIWVAVETNSGLVEAQVIP--EETALQVALCILQLIQRYT---VLHLHSDNGPCFTAHRI   70 (152)
T ss_dssp             CEEEEEEEEE------TT-EEEEEEEETTTCCEEEEEES--SSCHHHHHHHHHHHHHHSC---CSEEEECSCHHHHSHHH
T ss_pred             cEEEEeeeee------CC-EEEEEEEEcCCCcEEEEEeC--CcCHHHHHHHHHHHHHHhC---CcEEecCCchHhhHHHH
Confidence            4899999643      44 48888888887788887776  5678889999999888754   899876553222  357


Q ss_pred             HHHHhhCCCcccccc
Q 020416          177 TKACKELDIKPIPSK  191 (326)
Q Consensus       177 ~kAc~eLgI~v~PSR  191 (326)
                      +..|+++||...-++
T Consensus        71 ~~~~~~~gi~~~~~~   85 (152)
T 3kks_A           71 ENLCKYLGITKTTGI   85 (152)
T ss_dssp             HHHHHHTTCEEEESS
T ss_pred             HHHHHHcCCeecccC
Confidence            888999999987665

>1cxq_A Avian sarcoma virus integrase; mixed beta-sheet surrounded by alpha-helices, transferase; HET: EPE; 1.02A {Avian sarcoma virus} SCOP: c.55.3.2 PDB: 1cxu_A* 1czb_A* 1cz9_A* 1asu_A* 1asw_A* 1asv_A 1a5v_A* 1a5w_A* 1a5x_A* 1vsf_A* 1vse_A* 3o4n_A* 1vsm_A 3o4q_A* 1vsd_A* 1vsh_A* 1vsi_A* 1vsj_A* 1vsk_A 1vsl_A

Probab=91.46  E-value=0.65  Score=37.23  Aligned_cols=88  Identities=16%  Similarity=0.197  Sum_probs=64.2

Q ss_pred             ccccccccccCccccCCCceeEEEEEeeCCCceEEEecCCCCCCCHHHHHHHHHHHHHhcCCCCCCeeeeeHH-HHH-HH
Q 020416           98 ITEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRS-QMQ-TI  175 (326)
Q Consensus        98 m~iWELDFYSRPilD~~GKKlWELLICDs~~~F~y~~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~~IRfFR~-QM~-nm  175 (326)
                      ...|++||-.-+.  .+|+ .|=++|.|.-+.+.....+.  ..++..+.++|+.++...|  .|..|+.=|. +.. ..
T Consensus        11 ~~~~~~D~~~~~~--~~g~-~yl~~~iD~~Sr~i~~~~~~--~~~~~~v~~~l~~~~~~~g--~p~~i~sDnG~~f~s~~   83 (162)
T 1cxq_A           11 LQIWQTDFTLEPR--MAPR-SWLAVTVDTASSAIVVTQHG--RVTSVAAQHHWATAIAVLG--RPKAIKTDNGSCFTSKS   83 (162)
T ss_dssp             CCEEEEEEEECGG--GTTS-CEEEEEEETTTCCEEEEEES--SCCHHHHHHHHHHHHHHHC--CCSEEECCSCHHHHSHH
T ss_pred             CCEEEeeeeeccc--CCCC-EEEEEEEEcCCCeEEEEECC--CccHHHHHHHHHHHHHHHC--CCeEEEeCCchhhhhHH
Confidence            3689999986444  3454 77788888777777777776  5888899999999999865  4888865433 221 34


Q ss_pred             HHHHHhhCCCccccccc
Q 020416          176 ITKACKELDIKPIPSKR  192 (326)
Q Consensus       176 I~kAc~eLgI~v~PSRR  192 (326)
                      ++..|+++||...-|+.
T Consensus        84 ~~~~~~~~gi~~~~~~p  100 (162)
T 1cxq_A           84 TREWLARWGIAHTTGIP  100 (162)
T ss_dssp             HHHHHHHHTCEEECCCC
T ss_pred             HHHHHHHCCCeEeeCCC
Confidence            67889999999887653

>1c0m_A Protein (integrase); HIV, X-RAY crystallography, protein structure, transferase; 2.53A {Rous sarcoma virus} SCOP: b.34.7.1 c.55.3.2 PDB: 1c1a_A

Probab=91.34  E-value=0.86  Score=39.42  Aligned_cols=87  Identities=16%  Similarity=0.205  Sum_probs=66.0

Q ss_pred             ccccccccccCccccCCCceeEEEEEeeCCCceEEEecCCCCCCCHHHHHHHHHHHHHhcCCCCCCeeeeeHHHHH--HH
Q 020416           98 ITEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQ--TI  175 (326)
Q Consensus        98 m~iWELDFYSRPilD~~GKKlWELLICDs~~~F~y~~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~~IRfFR~QM~--nm  175 (326)
                      ...|+.|+-.-+.  .+| +.|=++|.|.-+.+.+...+.  ..++..+.++|+.++...|  .|..|+.=+..-.  ..
T Consensus        10 ~~~w~~D~~~~~~--~~g-~~yl~~~iD~~Sr~i~~~~~~--~~~~~~v~~~l~~~~~~~g--~p~~i~sDnG~~f~s~~   82 (238)
T 1c0m_A           10 LQIWQTDFTLEPR--MAP-RSWLAVTVDTASSAIVVTQHG--RVTSVAVQHHWATAIAVLG--RPKAIKTDNGSCFTSKS   82 (238)
T ss_dssp             TSEEEEEEEECGG--GCS-SCEEEEEEETTTCCEEEEEES--SCCHHHHHHHHHHHHHHHC--CCSEEEECSCHHHHSHH
T ss_pred             CCEEEEeeccccc--cCC-CEEEEEEEECCCCCEEEEEcc--CCCHHHHHHHHHHHHHHhC--CCcEEEECCCCccccHH
Confidence            4689999985443  234 588899999888888887776  6899999999999999875  4888876543222  34


Q ss_pred             HHHHHhhCCCcccccc
Q 020416          176 ITKACKELDIKPIPSK  191 (326)
Q Consensus       176 I~kAc~eLgI~v~PSR  191 (326)
                      ++..|+++||...-++
T Consensus        83 ~~~~~~~~gI~~~~~~   98 (238)
T 1c0m_A           83 TREWLARWGIAHTTGI   98 (238)
T ss_dssp             HHHHHHHHTCEEEECC
T ss_pred             HHHHHHHCCCEEEecC
Confidence            6788999999886554

>2x78_A Integrase; viral protein, DNA-directed DNA polyme nucleotidyltransferase, DNA integration, aspartyl protease, recombination, transferase; 2.00A {Human spumaretrovirus} PDB: 2x6n_A 2x6s_A 2x74_A 3dlr_A

Probab=90.77  E-value=0.78  Score=37.72  Aligned_cols=87  Identities=17%  Similarity=0.210  Sum_probs=62.2

Q ss_pred             ccccccccccCccccCCCceeEEEEEeeCCCceEEEecCCCCCCCHHHHHHHHHHHHHhcCCCCCCeeeeeHHHHH--HH
Q 020416           98 ITEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQ--TI  175 (326)
Q Consensus        98 m~iWELDFYSRPilD~~GKKlWELLICDs~~~F~y~~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~~IRfFR~QM~--nm  175 (326)
                      ...|++||.. |+...+| +.|=++|.|.-+.+.+...+.  .-++..+.++|+.++..   ..|..|+.=|..-.  ..
T Consensus        13 ~~~~~~D~~~-~~~~~~g-~~y~~~~iD~~Sr~~~~~~~~--~~~~~~~~~~l~~~~~~---g~p~~i~sDnG~~f~s~~   85 (200)
T 2x78_A           13 FDKFFIDYIG-PLPPSQG-YLYVLVVVDGMTGFTWLYPTK--APSTSATVKSLNVLTSI---AIPRVIHSDQGAAFTSST   85 (200)
T ss_dssp             TSEEEEEEEC-CCSCBTT-BCEEEEEEETTTCCEEEEEES--SSCHHHHHHHHHHHTTT---CCCSEEEECSCHHHHSHH
T ss_pred             ccEEEEEEeC-CCccCCC-CeEEEEEEeCCCCcEEEEECC--CCCHHHHHHHHHHHHHh---CCCcEEEecCCcceehHH
Confidence            4689999953 3333456 678888888777788887774  45666778889877763   45888877554322  34


Q ss_pred             HHHHHhhCCCcccccc
Q 020416          176 ITKACKELDIKPIPSK  191 (326)
Q Consensus       176 I~kAc~eLgI~v~PSR  191 (326)
                      +...|+++||...-|+
T Consensus        86 ~~~~~~~~gi~~~~~~  101 (200)
T 2x78_A           86 FAEWAKERGIHLEFST  101 (200)
T ss_dssp             HHHHHHHHTCEEEECC
T ss_pred             HHHHHHHcCceEeECC
Confidence            7888999999987765

>1bco_A MUA domain II, bacteriophage MU transposase; polynucleotidyl transferase, DNA binding, endonuclease, integrase; 2.40A {Enterobacteria phage MU} SCOP: b.48.1.1 c.55.3.3 PDB: 1bcm_A

Probab=84.73  E-value=0.83  Score=41.71  Aligned_cols=90  Identities=11%  Similarity=-0.045  Sum_probs=62.8

Q ss_pred             ccccccccccCccc--cCCCc--eeEEEEEeeCCCceEEE-ecCCCCCCCHHHHHHHHHHHHHhcCCCCCC--eee----
Q 020416           98 ITEWELDFCSRPIL--DIRGK--KIWELVVCDGSLSLQYT-KYFPNNVINSITLKEAIVAICDDLGVPIPE--KIR----  166 (326)
Q Consensus        98 m~iWELDFYSRPil--D~~GK--KlWELLICDs~~~F~y~-~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~--~IR----  166 (326)
                      ...||.|+..-.+.  +.+|+  +.|=++|.|.-+..... ..++ + -|+.-+..+|+.|+...|  .|.  .|.    
T Consensus        16 ~~~w~~D~t~~d~~~~~~~g~~~r~~l~~~iD~~SR~ivg~~~~~-~-~~~~~v~~aL~~a~~~~G--~P~~~~i~sDnG   91 (327)
T 1bco_A           16 MQWINGDGYLHNVFVRWFNGDVIRPKTWFWQDVKTRKILGWRCDV-S-ENIDSIRLSFMDVVTRYG--IPEDFHITIDNT   91 (327)
T ss_dssp             TTEEEEEEEECSBCEECTTSCEECCEEEEEEETTTCCEEEEEEES-S-CCHHHHHHHHHHHHHHHC--EESSCEEECCCT
T ss_pred             CcEEEecCCEEEEEEECCCCccceeEEEEEEECCCCcEEEEEEEC-C-CCHHHHHHHHHHHHHhcC--CCCCcEEEeeCc
Confidence            57999998766654  44576  57778888876444333 3334 2 388889999999999865  477  664    


Q ss_pred             -eeHHHHH--------------HHHHHHHhhCCCcccccc
Q 020416          167 -FFRSQMQ--------------TIITKACKELDIKPIPSK  191 (326)
Q Consensus       167 -fFR~QM~--------------nmI~kAc~eLgI~v~PSR  191 (326)
                       -|++...              .-++.+|+++||.+.-+|
T Consensus        92 ~~f~s~~~~g~~~~~~~~~~~~~~~~~~~~~lgI~~~~~~  131 (327)
T 1bco_A           92 RGAANKWLTGGAPNRYRFKVKEDDPKGLFLLMGAKMHWTS  131 (327)
T ss_dssp             TSTTTTTTSCCCTTTTBSCBCCCCHHHHHHHHTCEEECSS
T ss_pred             hhhccccccccccccccccccccchhhHHHhcCeEEEecC
Confidence             4665543              223579999999998777

>3hph_A Integrase, IN; protein-protein complex, tetramer, DNA integration, endonucl magnesium, metal-binding, multifunctional enzyme; 2.64A {Maedi visna virus} PDB: 3hpg_A

Probab=82.17  E-value=5.8  Score=33.18  Aligned_cols=82  Identities=13%  Similarity=0.154  Sum_probs=59.6

Q ss_pred             cccccccccCccccCCCceeEEEEEeeCCCceEEEecCCCCCCCHHHHHHHHHHHHHhcCCCCCCeeeeeHHHHH--HHH
Q 020416           99 TEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQ--TII  176 (326)
Q Consensus        99 ~iWELDFYSRPilD~~GKKlWELLICDs~~~F~y~~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~~IRfFR~QM~--nmI  176 (326)
                      ..|++||-.      .|++ +=++|.|.-+.+.+...+++  .++..+..+|..++...|   |..|+.=|..-.  ..+
T Consensus        61 ~~w~~D~t~------~~~~-y~~~~iD~~Sr~~~~~~~~~--~~~~~~~~~l~~~~~~~g---p~~i~sDnG~~F~s~~~  128 (219)
T 3hph_A           61 DHWQVDYTH------YEDK-IILVWVETNSGLIYAERVKG--ETGQEFRVQTMKWYAMFA---PKSLQSDNGPAFVAEST  128 (219)
T ss_dssp             CEEEEEEEE------ETTE-EEEEEEETTTCCEEEEEESC--CCHHHHHHHHHHHHHHHC---CCEEEECCCHHHHSHHH
T ss_pred             ceEEEEEec------CCCE-EEEEEEeCCCCcEEEEEeCC--CCHHHHHHHHHHHHHHhC---CcEEEeCCCchhhhHHH
Confidence            689999952      2444 77888887777777776664  467788889988888764   888876554332  367


Q ss_pred             HHHHhhCCCccccccc
Q 020416          177 TKACKELDIKPIPSKR  192 (326)
Q Consensus       177 ~kAc~eLgI~v~PSRR  192 (326)
                      +..|+++||...-|+.
T Consensus       129 ~~~~~~~gi~~~~s~p  144 (219)
T 3hph_A          129 QLLMKYLGIEHTTGIP  144 (219)
T ss_dssp             HHHHHHHTCEEEESCC
T ss_pred             HHHHHHcCCeEeECCC
Confidence            8899999999876654

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	326
d1cxqa_	147	Retroviral integrase, catalytic domain {Rous sarco	92.85
d1exqa_	154	Retroviral integrase, catalytic domain {Human immu	83.91

>d1cxqa_ c.55.3.2 (A:) Retroviral integrase, catalytic domain {Rous sarcoma virus RSV [TaxId: 11886]}

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Ribonuclease H-like
family: Retroviral integrase, catalytic domain
domain: Retroviral integrase, catalytic domain
species: Rous sarcoma virus RSV [TaxId: 11886]

Probab=92.85  E-value=0.083  Score=40.62  Aligned_cols=86  Identities=16%  Similarity=0.198  Sum_probs=61.4

Q ss_pred             cccccccccCccccCCCceeEEEEEeeCCCceEEEecCCCCCCCHHHHHHHHHHHHHhcCCCCCCeeeeeHHH--HHHHH
Q 020416           99 TEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQ--MQTII  176 (326)
Q Consensus        99 ~iWELDFYSRPilD~~GKKlWELLICDs~~~F~y~~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~~IRfFR~Q--M~nmI  176 (326)
                      .+|++||-.-|.   .|.+.|=++|.|.-+.+.+.  ++....++..+..++..++...|  .|..|+.=+..  +..-+
T Consensus         8 ~~w~~D~~~~~~---~~~~~~l~v~vD~~Sr~i~~--~~~~~~t~~~~~~~l~~~~~~~g--~p~~i~sDnG~~F~s~~~   80 (147)
T d1cxqa_           8 QIWQTDFTLEPR---MAPRSWLAVTVDTASSAIVV--TQHGRVTSVAAQHHWATAIAVLG--RPKAIKTDNGSCFTSKST   80 (147)
T ss_dssp             CEEEEEEEECGG---GTTSCEEEEEEETTTCCEEE--EEESSCCHHHHHHHHHHHHHHHC--CCSEEECCSCHHHHSHHH
T ss_pred             CEEEEEEEEecC---CCCeEEEEEEEecccceecc--cccCccchHHHHHHHHHHHHHhC--CCeEEEecccccccchhh
Confidence            589999844332   24445777777766655554  55666789999999999998875  59999864422  23567


Q ss_pred             HHHHhhCCCcccccc
Q 020416          177 TKACKELDIKPIPSK  191 (326)
Q Consensus       177 ~kAc~eLgI~v~PSR  191 (326)
                      +..|+++||+...+.
T Consensus        81 ~~~~~~~gI~~~~~~   95 (147)
T d1cxqa_          81 REWLARWGIAHTTGI   95 (147)
T ss_dssp             HHHHHHHTCEEECCC
T ss_pred             hhhhhheeEEeeeec
Confidence            889999999987665

>d1exqa_ c.55.3.2 (A:) Retroviral integrase, catalytic domain {Human immunodeficiency virus type 1 [TaxId: 11676]}

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Ribonuclease H-like
family: Retroviral integrase, catalytic domain
domain: Retroviral integrase, catalytic domain
species: Human immunodeficiency virus type 1 [TaxId: 11676]

Probab=83.91  E-value=1.4  Score=34.01  Aligned_cols=93  Identities=16%  Similarity=0.127  Sum_probs=64.0

Q ss_pred             cccccccccCccccCCCceeEEEEEeeCCCceEEEecCCCCCCCHHHHHHHHHHHHHhcCCCCCCeeeeeHHHHH--HHH
Q 020416           99 TEWELDFCSRPILDIRGKKIWELVVCDGSLSLQYTKYFPNNVINSITLKEAIVAICDDLGVPIPEKIRFFRSQMQ--TII  176 (326)
Q Consensus        99 ~iWELDFYSRPilD~~GKKlWELLICDs~~~F~y~~~CP~s~VNS~WL~~AL~~ai~~~~~~~P~~IRfFR~QM~--nmI  176 (326)
                      .+||+||..-     +||-+  |++.|.-+.|-+...+++..  +.-.+..|..++.. +  .|..|+.=|..-+  ..+
T Consensus         4 g~W~~D~~~~-----~~k~i--lv~vD~~Sr~~~~~~~~~~~--~~~v~~~l~~~~~~-~--~p~~I~sDnG~eF~s~~~   71 (154)
T d1exqa_           4 GIWQLDCTHL-----EGKVI--LVAVHVASGYIEAEVIPAET--GQETAYFLLKLAGR-W--PVKTIHTDNGSNFTGATV   71 (154)
T ss_dssp             GEEEEEEEEE-----TTEEE--EEEEETTTTEEEEEEESSSS--HHHHHHHHHHHHHH-S--CCCEEECCCCGGGTSHHH
T ss_pred             CceeeEEEEE-----CCEEE--EEEEECcCCcEEEEEecCcc--hHHHHhhhhhheec-c--CCCEEEEcCCccccchhh
Confidence            4899999752     45533  56667778899998888865  45567888877653 4  3888875443322  567


Q ss_pred             HHHHhhCCCccccc------------cchHHHHHHHHHH
Q 020416          177 TKACKELDIKPIPS------------KRCLSLLLWLEER  203 (326)
Q Consensus       177 ~kAc~eLgI~v~PS------------RRT~aL~~WLeER  203 (326)
                      +.-|+++||+..-|            |..-.|++.|...
T Consensus        72 ~~~~~~~gi~~~~s~p~~Pq~nG~vEr~~r~l~~~lr~~  110 (154)
T d1exqa_          72 RAACDWAGIKQEDGIPYNPQSQGVVESMNKELKKIIGQV  110 (154)
T ss_dssp             HHHHHHHTCEECSCCCC-------CCSSHHHHHHHHHHH
T ss_pred             hhhhhhcccccccccCcccccccHHHHHHHHHHHhhhhh
Confidence            78899999987766            4555666666443