Citrus Sinensis ID: 028022

---

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-----
Protein Sequence
MDSEPNTGEGSSSSSTAAAAAALQQQLQQAPESSTSPPAAAAPPSRYESQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHPNPPAPCACPLKQAWGSLDALIGRLRAAYEENGGRPESNPFGARAVRIYLREVRESQAKARGIPYEKKKRKRPVVTAASGINSGQSSGTSSGAGAGEASGNATGAATTTTV
Secondary Structure (PSIPRED)
cccccccccccccccccHHHHHHHHHHccccccccccccccccccHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHccccEEEEcccccccccccccccccccHHcccHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHcccHHHHccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHcccccccHHcccHHHHHHHHHHHHHccccEEccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHccccHHHHccccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
mdsepntgegssssSTAAAAAALQQQLqqapesstsppaaaappsryesqkrRDWNTFLQYLknhkppltlarcsgAHVIEFLKYLDQfgktkvhisgcpyfghpnppapcacplkqAWGSLDALIGRLRAAYeenggrpesnpfgARAVRIYLREVRESqakargipyekkkrkrpvvtaasginsgqssgtssgagageasgnatgaattttv
Flexible Loop (DISEMBL)
mdsepntgegsssSSTAAAAAALQQQLQQAPESSTSPPAAaappsryesqkrRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHPNPPAPCACPLKQAWGSLDALIGRLRAAYeenggrpesnpfgaRAVRIYLRevresqakargipyekkkrkrpvvtaasginsgqssgtssgagageasgnatgaattttv
Low Complexity Region (SEG)
MDSEPNTGEGssssstaaaaaalqqqlqqapesstsppaaaappsRYESQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHPNPPAPCACPLKQAWGSLDALIGRLRAAYEENGGRPESNPFGARAVRIYLREVRESQAKARGIPYEKKKRKRPVVTAASGINsgqssgtssgagageasgnatgaattttV
Disordered region (IsUnstruct)
*****************************************************DWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHPNPPAPCACPLKQAWGSLDALIGRLRAAY************GARAVRIYLR************************************************************
Disordered Region (DISOPRED)
*********************************************************FLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCP**GHPNPPAPCACPLKQAWGSLDALIGRLRA***************ARAVRIYLREVRESQ************************************************ATTT**
Disordered Region (DISEMBL)
**************************************************KRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHPNPPAPCACPLKQAWGSLDALIGRLRAAYEENGGRPESNPFGARAVRIYLREVRESQAKARGIPY************ASGI******************************
Disordered Region (DISPRO)
********************************************SRYESQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHPNPPAPCACPLKQAWGSLDALIGRLRAAYEENGGRPESNPFGARAVRIYLREVRESQAKARGIPYE*KK******************************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MDSEPNTGEGSSSSSTAAAAAALQQQLQQAPESSTSPPAAAAPPSRYESQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHPNPPAPCACPLKQAWGSLDALIGRLRAAYEENGGRPESNPFGARAVRIYLREVRESQAKARGIPYEKKKRKRPVVTAASGINSGQSSGTSSGAGAGEASGNATGAATTTTV
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

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	215
224105897	223	predicted protein [Populus trichocarpa]	0.809	0.780	0.827	6e-80
224055375	228	predicted protein [Populus trichocarpa]	0.651	0.614	0.930	1e-73
297848996	198	hypothetical protein ARALYDRAFT_887918 [	0.772	0.838	0.784	1e-73
18390725	196	uncharacterized protein [Arabidopsis tha	0.772	0.846	0.779	1e-73
356537589	235	PREDICTED: uncharacterized protein LOC10	0.744	0.680	0.805	4e-73
357491035	257	hypothetical protein MTR_5g072510 [Medic	0.665	0.556	0.861	3e-71
357458123	223	hypothetical protein MTR_3g031830 [Medic	0.725	0.699	0.832	2e-69
297789570	193	hypothetical protein ARALYDRAFT_920315 [	0.716	0.797	0.793	3e-69
413945122	301	putative protein of unknown function (DU	0.613	0.438	0.901	7e-69
297822735	193	hypothetical protein ARALYDRAFT_901988 [	0.716	0.797	0.787	9e-69

>gi|224105897|ref|XP_002313971.1| predicted protein [Populus trichocarpa] gi|222850379|gb|EEE87926.1| predicted protein [Populus trichocarpa]

 Score =  302 bits (774), Expect = 6e-80,   Method: Compositional matrix adjust.
 Identities = 149/180 (82%), Positives = 161/180 (89%), Gaps = 6/180 (3%)

Query: 4   EPNTGEGSSSSSTAAAAAALQQQLQQAPESSTSPPAAAAPPSRYESQKRRDWNTFLQYLK 63
           +PN+GE   S+ +++A+A+L QQ  Q PE S+ P    APPSRYESQKRRDWNTFLQYLK
Sbjct: 12  DPNSGEPGPSAGSSSASASLPQQ--QQPEGSSPP----APPSRYESQKRRDWNTFLQYLK 65

Query: 64  NHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHPNPPAPCACPLKQAWGSLD 123
           NHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHI+GCPYFGHPNPPAPC+CPLKQAWGSLD
Sbjct: 66  NHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHITGCPYFGHPNPPAPCSCPLKQAWGSLD 125

Query: 124 ALIGRLRAAYEENGGRPESNPFGARAVRIYLREVRESQAKARGIPYEKKKRKRPVVTAAS 183
           ALIGRLRAAYEENGGRPESNPFGARAVRIYLREVRE QAKARGIPYEKKKRKR  V  A+
Sbjct: 126 ALIGRLRAAYEENGGRPESNPFGARAVRIYLREVREGQAKARGIPYEKKKRKRSNVAVAT 185

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224055375|ref|XP_002298496.1| predicted protein [Populus trichocarpa] gi|222845754|gb|EEE83301.1| predicted protein [Populus trichocarpa]

 Score =  281 bits (720), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 134/144 (93%), Positives = 138/144 (95%), Gaps = 4/144 (2%)

Query: 35  TSPPAAAAPPSRYESQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKV 94
           +SPPA   PPSRYESQKRRDWNTFLQY+KNHKPPLTLARCSGAHVIEFLKYLDQFGKTKV
Sbjct: 40  SSPPA---PPSRYESQKRRDWNTFLQYIKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKV 96

Query: 95  HISGCPYFGHPNPPAPCACPLKQAWGSLDALIGRLRAAYEENGGRPESNPFGARAVRIYL 154
           HI+GCPYFGHPNPPAPC+CPLKQAWGSLDALIGRLRAAYEENGG PESNPFGARAVRIYL
Sbjct: 97  HITGCPYFGHPNPPAPCSCPLKQAWGSLDALIGRLRAAYEENGGLPESNPFGARAVRIYL 156

Query: 155 REVRESQAKARGIPYE-KKKRKRP 177
           REVRE QAKARGIPYE KKKRKRP
Sbjct: 157 REVREGQAKARGIPYEKKKKRKRP 180

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297848996|ref|XP_002892379.1| hypothetical protein ARALYDRAFT_887918 [Arabidopsis lyrata subsp. lyrata] gi|297338221|gb|EFH68638.1| hypothetical protein ARALYDRAFT_887918 [Arabidopsis lyrata subsp. lyrata]

 Score =  281 bits (719), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 135/172 (78%), Positives = 145/172 (84%), Gaps = 6/172 (3%)

Query: 31  PESSTSPPAAAAPPSRYESQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFG 90
           P   +SPPA    PSRYESQKRRDWNTFLQYLKNHKPPL L+RCSGAHVIEFLKYLDQFG
Sbjct: 21  PSFVSSPPAT---PSRYESQKRRDWNTFLQYLKNHKPPLALSRCSGAHVIEFLKYLDQFG 77

Query: 91  KTKVHISGCPYFGHPNPPAPCACPLKQAWGSLDALIGRLRAAYEENGGRPESNPFGARAV 150
           KTKVH++ CPYFGH  PP+PC+CPLKQAWGSLDALIGRLRAAYEENGGRP+SNPF  RAV
Sbjct: 78  KTKVHVAACPYFGHQQPPSPCSCPLKQAWGSLDALIGRLRAAYEENGGRPDSNPFATRAV 137

Query: 151 RIYLREVRESQAKARGIPYEKKKRKRP--VVTAASGI-NSGQSSGTSSGAGA 199
           RIYLREVRESQAKARGIPYEKKKRKRP  V T    + +S QS G +   GA
Sbjct: 138 RIYLREVRESQAKARGIPYEKKKRKRPPTVTTVRVDVASSRQSDGDACNVGA 189

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18390725|ref|NP_563780.1| uncharacterized protein [Arabidopsis thaliana] gi|8954037|gb|AAF82211.1|AC067971_19 Strong similarity to an unknown protein At2g31160 gi|3746060 from Arabidopsis thaliana BAC F7F1 gb|AC005311. EST gb|AI998165 comes from this gene [Arabidopsis thaliana] gi|21555695|gb|AAM63916.1| unknown [Arabidopsis thaliana] gi|28392914|gb|AAO41893.1| unknown protein [Arabidopsis thaliana] gi|56236136|gb|AAV84524.1| At1g07090 [Arabidopsis thaliana] gi|88193786|gb|ABD42982.1| At1g07090 [Arabidopsis thaliana] gi|332189955|gb|AEE28076.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  281 bits (718), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 134/172 (77%), Positives = 143/172 (83%), Gaps = 6/172 (3%)

Query: 31  PESSTSPPAAAAPPSRYESQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFG 90
           P   +SPPA    PSRYESQKRRDWNTFLQYLKNHKPPL L+RCSGAHVIEFLKYLDQFG
Sbjct: 19  PSFVSSPPAT---PSRYESQKRRDWNTFLQYLKNHKPPLALSRCSGAHVIEFLKYLDQFG 75

Query: 91  KTKVHISGCPYFGHPNPPAPCACPLKQAWGSLDALIGRLRAAYEENGGRPESNPFGARAV 150
           KTKVH++ CPYFGH  PP+PC+CPLKQAWGSLDALIGRLRAAYEENGGRP+SNPF ARAV
Sbjct: 76  KTKVHVAACPYFGHQQPPSPCSCPLKQAWGSLDALIGRLRAAYEENGGRPDSNPFAARAV 135

Query: 151 RIYLREVRESQAKARGIPYEKKKRKRPVVTAASGIN---SGQSSGTSSGAGA 199
           RIYLREVRESQAKARGIPYEKKKRKRP       ++   S QS G     GA
Sbjct: 136 RIYLREVRESQAKARGIPYEKKKRKRPPTVTTVRVDVASSRQSDGDPCNVGA 187

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356537589|ref|XP_003537309.1| PREDICTED: uncharacterized protein LOC100775798 [Glycine max]

 Score =  280 bits (715), Expect = 4e-73,   Method: Compositional matrix adjust.
 Identities = 137/170 (80%), Positives = 145/170 (85%), Gaps = 10/170 (5%)

Query: 11  SSSSSTAAAAAALQQQLQQAPESSTSPPAAAAPPSRYESQKRRDWNTFLQYLKNHKPPLT 70
           S SS+ A +A A  Q     PE S+      AP SRYESQKRRDWNTFLQYL+NH+PPLT
Sbjct: 23  SGSSAPATSAPAPTQ-----PEGSS-----PAPLSRYESQKRRDWNTFLQYLQNHRPPLT 72

Query: 71  LARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHPNPPAPCACPLKQAWGSLDALIGRLR 130
           LARCSGAHVIEFLKYLDQFGKTKVH++GCPYFGHPNPPAPC CPLKQAWGSLDALIGRLR
Sbjct: 73  LARCSGAHVIEFLKYLDQFGKTKVHVTGCPYFGHPNPPAPCTCPLKQAWGSLDALIGRLR 132

Query: 131 AAYEENGGRPESNPFGARAVRIYLREVRESQAKARGIPYEKKKRKRPVVT 180
           AAYEENGGRPESNPFGARAVR  LREVRE QAKARGIPYEKKKRKR  +T
Sbjct: 133 AAYEENGGRPESNPFGARAVRTCLREVREGQAKARGIPYEKKKRKRTTMT 182

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357491035|ref|XP_003615805.1| hypothetical protein MTR_5g072510 [Medicago truncatula] gi|355517140|gb|AES98763.1| hypothetical protein MTR_5g072510 [Medicago truncatula]

 Score =  273 bits (698), Expect = 3e-71,   Method: Compositional matrix adjust.
 Identities = 124/144 (86%), Positives = 133/144 (92%), Gaps = 1/144 (0%)

Query: 37  PPAAAAP-PSRYESQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVH 95
           P + A P PSRYESQKRRDWNTF QYL+NHKPPLTLA CSGAHVIEFLKYLDQFGKTKVH
Sbjct: 27  PSSPATPTPSRYESQKRRDWNTFQQYLRNHKPPLTLALCSGAHVIEFLKYLDQFGKTKVH 86

Query: 96  ISGCPYFGHPNPPAPCACPLKQAWGSLDALIGRLRAAYEENGGRPESNPFGARAVRIYLR 155
           + GCPYFG PNPP+PCACPLKQAWGSLDALIGRLRAA+EENGG+PESNPFG RAVRIYLR
Sbjct: 87  VIGCPYFGQPNPPSPCACPLKQAWGSLDALIGRLRAAFEENGGKPESNPFGTRAVRIYLR 146

Query: 156 EVRESQAKARGIPYEKKKRKRPVV 179
           EV++ QAKARG+PYEKKKRKRP V
Sbjct: 147 EVKDGQAKARGVPYEKKKRKRPTV 170

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357458123|ref|XP_003599342.1| hypothetical protein MTR_3g031830 [Medicago truncatula] gi|355488390|gb|AES69593.1| hypothetical protein MTR_3g031830 [Medicago truncatula]

 Score =  267 bits (683), Expect = 2e-69,   Method: Compositional matrix adjust.
 Identities = 139/167 (83%), Positives = 145/167 (86%), Gaps = 11/167 (6%)

Query: 28  QQAPESSTSPPAAAAPP-----------SRYESQKRRDWNTFLQYLKNHKPPLTLARCSG 76
           +Q P S+TSPP    P            SRYESQKRRDWNTFLQYL+NHKPPLTL RCSG
Sbjct: 13  EQLPSSTTSPPIVVQPEGSSPAPPPAPPSRYESQKRRDWNTFLQYLQNHKPPLTLVRCSG 72

Query: 77  AHVIEFLKYLDQFGKTKVHISGCPYFGHPNPPAPCACPLKQAWGSLDALIGRLRAAYEEN 136
           AHVIEFLKYLDQFGKTKVH+SGCPYFGHPNPPAPCACPLKQAWGSLDALIGRLRAAYEEN
Sbjct: 73  AHVIEFLKYLDQFGKTKVHVSGCPYFGHPNPPAPCACPLKQAWGSLDALIGRLRAAYEEN 132

Query: 137 GGRPESNPFGARAVRIYLREVRESQAKARGIPYEKKKRKRPVVTAAS 183
           GGRPESNPFGA+AVRIYLREVRE QAKARGIPYEKKKRKRP VT A+
Sbjct: 133 GGRPESNPFGAKAVRIYLREVREGQAKARGIPYEKKKRKRPAVTVAA 179

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297789570|ref|XP_002862737.1| hypothetical protein ARALYDRAFT_920315 [Arabidopsis lyrata subsp. lyrata] gi|297308435|gb|EFH38995.1| hypothetical protein ARALYDRAFT_920315 [Arabidopsis lyrata subsp. lyrata]

 Score =  266 bits (681), Expect = 3e-69,   Method: Compositional matrix adjust.
 Identities = 123/155 (79%), Positives = 135/155 (87%), Gaps = 1/155 (0%)

Query: 46  RYESQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHP 105
           RYESQKRRDWNTFLQYL+NHKPPLTL RCSGAHV+EFLKYLDQFGKTKVH+  CP+FGHP
Sbjct: 26  RYESQKRRDWNTFLQYLRNHKPPLTLTRCSGAHVLEFLKYLDQFGKTKVHVETCPFFGHP 85

Query: 106 NPPAPCACPLKQAWGSLDALIGRLRAAYEENGGRPESNPFGARAVRIYLREVRESQAKAR 165
           +PP+ C+CP KQAWGSLDALIGRLRAAYEENGGRP+SNPF ARAVRIYLREV+ESQAKAR
Sbjct: 86  DPPSSCSCPHKQAWGSLDALIGRLRAAYEENGGRPDSNPFAARAVRIYLREVKESQAKAR 145

Query: 166 GIPYEKKKRKR-PVVTAASGINSGQSSGTSSGAGA 199
           GIPYEKKKRKR P VT+        SS T  G+ +
Sbjct: 146 GIPYEKKKRKRKPTVTSVRLDVDLTSSVTGDGSNS 180

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|413945122|gb|AFW77771.1| putative protein of unknown function (DUF640) domain family protein [Zea mays]

 Score =  265 bits (678), Expect = 7e-69,   Method: Compositional matrix adjust.
 Identities = 119/132 (90%), Positives = 126/132 (95%)

Query: 45  SRYESQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGH 104
           SRYESQKRRDWNTFLQYL+NHKPPLTLARCSGAHVIEFL+YLDQFGKTKVH  GC YFG 
Sbjct: 82  SRYESQKRRDWNTFLQYLRNHKPPLTLARCSGAHVIEFLRYLDQFGKTKVHAEGCAYFGQ 141

Query: 105 PNPPAPCACPLKQAWGSLDALIGRLRAAYEENGGRPESNPFGARAVRIYLREVRESQAKA 164
           PNPPAPC CPL+QAWGSLDALIGRLRAAYEE+GGRPESNPF A+AVRIYLR+VRE+QAKA
Sbjct: 142 PNPPAPCTCPLRQAWGSLDALIGRLRAAYEESGGRPESNPFAAKAVRIYLRDVREAQAKA 201

Query: 165 RGIPYEKKKRKR 176
           RGIPYEKKKRKR
Sbjct: 202 RGIPYEKKKRKR 213

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297822735|ref|XP_002879250.1| hypothetical protein ARALYDRAFT_901988 [Arabidopsis lyrata subsp. lyrata] gi|297325089|gb|EFH55509.1| hypothetical protein ARALYDRAFT_901988 [Arabidopsis lyrata subsp. lyrata]

 Score =  265 bits (677), Expect = 9e-69,   Method: Compositional matrix adjust.
 Identities = 122/155 (78%), Positives = 135/155 (87%), Gaps = 1/155 (0%)

Query: 46  RYESQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHP 105
           RYESQKRRDWNTFLQYL+NHKPPLTL RCSGAHV++FLKYLDQFGKTKVH+  CP+FGHP
Sbjct: 26  RYESQKRRDWNTFLQYLRNHKPPLTLTRCSGAHVLKFLKYLDQFGKTKVHVETCPFFGHP 85

Query: 106 NPPAPCACPLKQAWGSLDALIGRLRAAYEENGGRPESNPFGARAVRIYLREVRESQAKAR 165
           +PP+ C+CP KQAWGSLDALIGRLRAAYEENGGRP+SNPF ARAVRIYLREV+ESQAKAR
Sbjct: 86  DPPSSCSCPHKQAWGSLDALIGRLRAAYEENGGRPDSNPFAARAVRIYLREVKESQAKAR 145

Query: 166 GIPYEKKKRKR-PVVTAASGINSGQSSGTSSGAGA 199
           GIPYEKKKRKR P VT+        SS T  G+ +
Sbjct: 146 GIPYEKKKRKRKPTVTSVRLDVDLTSSVTGDGSNS 180

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	215
TAIR|locus:2007382	196	LSH6 "AT1G07090" [Arabidopsis	0.613	0.673	0.916	1.7e-66
TAIR|locus:2082170	195	LSH4 "LIGHT SENSITIVE HYPOCOTY	0.613	0.676	0.856	8.8e-63
TAIR|locus:2171263	182	LSH5 "AT5G58500" [Arabidopsis	0.651	0.769	0.801	4.3e-61
TAIR|locus:2055897	219	LSH3 "AT2G31160" [Arabidopsis	0.641	0.630	0.775	7.1e-61
TAIR|locus:2147494	190	LSH1 "AT5G28490" [Arabidopsis	0.604	0.684	0.776	1.2e-56
TAIR|locus:2041514	177	LSH10 "AT2G42610" [Arabidopsis	0.646	0.785	0.719	4.2e-56
TAIR|locus:2100850	201	LSH2 "AT3G04510" [Arabidopsis	0.604	0.646	0.761	1.1e-55
TAIR|locus:2124067	191	LSH9 "AT4G18610" [Arabidopsis	0.609	0.685	0.704	1.7e-50
TAIR|locus:505006228	195	LSH7 "AT1G78815" [Arabidopsis	0.609	0.671	0.671	4.6e-50
TAIR|locus:2015591	164	LSH8 "AT1G16910" [Arabidopsis	0.641	0.841	0.652	1e-45

TAIR|locus:2007382 LSH6 "AT1G07090" [Arabidopsis thaliana (taxid:3702)]

 Score = 676 (243.0 bits), Expect = 1.7e-66, P = 1.7e-66
 Identities = 121/132 (91%), Positives = 127/132 (96%)

Query:    46 RYESQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHP 105
             RYESQKRRDWNTFLQYLKNHKPPL L+RCSGAHVIEFLKYLDQFGKTKVH++ CPYFGH 
Sbjct:    31 RYESQKRRDWNTFLQYLKNHKPPLALSRCSGAHVIEFLKYLDQFGKTKVHVAACPYFGHQ 90

Query:   106 NPPAPCACPLKQAWGSLDALIGRLRAAYEENGGRPESNPFGARAVRIYLREVRESQAKAR 165
              PP+PC+CPLKQAWGSLDALIGRLRAAYEENGGRP+SNPF ARAVRIYLREVRESQAKAR
Sbjct:    91 QPPSPCSCPLKQAWGSLDALIGRLRAAYEENGGRPDSNPFAARAVRIYLREVRESQAKAR 150

Query:   166 GIPYEKKKRKRP 177
             GIPYEKKKRKRP
Sbjct:   151 GIPYEKKKRKRP 162

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2082170 LSH4 "LIGHT SENSITIVE HYPOCOTYLS 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 641 (230.7 bits), Expect = 8.8e-63, P = 8.8e-63
 Identities = 113/132 (85%), Positives = 126/132 (95%)

Query:    46 RYESQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHP 105
             RYE+QKRRDWNTF QYL+NH+PPL+L+RCSGAHV+EFL+YLDQFGKTKVH   CP+FGHP
Sbjct:    48 RYENQKRRDWNTFGQYLRNHRPPLSLSRCSGAHVLEFLRYLDQFGKTKVHTHLCPFFGHP 107

Query:   106 NPPAPCACPLKQAWGSLDALIGRLRAAYEENGGRPESNPFGARAVRIYLREVRESQAKAR 165
             NPPAPCACPL+QAWGSLDALIGRLRAA+EENGG PE+NPFGARAVR+YLREVR+SQAKAR
Sbjct:   108 NPPAPCACPLRQAWGSLDALIGRLRAAFEENGGSPETNPFGARAVRLYLREVRDSQAKAR 167

Query:   166 GIPYEKKKRKRP 177
             GI YEKKKRKRP
Sbjct:   168 GISYEKKKRKRP 179

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2171263 LSH5 "AT5G58500" [Arabidopsis thaliana (taxid:3702)]

 Score = 625 (225.1 bits), Expect = 4.3e-61, P = 4.3e-61
 Identities = 113/141 (80%), Positives = 126/141 (89%)

Query:    46 RYESQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHP 105
             RYESQKRRDWNTFLQYL+NHKPPL L+RCSGAHV+EFLKYLDQFGKTKVH + CP+FG P
Sbjct:    19 RYESQKRRDWNTFLQYLRNHKPPLNLSRCSGAHVLEFLKYLDQFGKTKVHATACPFFGQP 78

Query:   106 NPPAPCACPLKQAWGSLDALIGRLRAAYEE-NGGRPESNPFGARAVRIYLREVRESQAKA 164
             NPP+ C CPLKQAWGSLDALIGRLRAA+EE  GG PESNPF A+AVRIYL+EVR++QAKA
Sbjct:    79 NPPSQCTCPLKQAWGSLDALIGRLRAAFEEIGGGLPESNPFAAKAVRIYLKEVRQTQAKA 138

Query:   165 RGIPYEKKKRKRPVVTAASGI 185
             RGIPY+KKKRKRP    A+ I
Sbjct:   139 RGIPYDKKKRKRPHTDTATPI 159

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2055897 LSH3 "AT2G31160" [Arabidopsis thaliana (taxid:3702)]

 Score = 623 (224.4 bits), Expect = 7.1e-61, P = 7.1e-61
 Identities = 107/138 (77%), Positives = 130/138 (94%)

Query:    46 RYESQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHP 105
             RYE+QKRRDWNTF QYL+NH+PPL+L+RCSGAHV+EFL+YLDQFGKTKVH + C ++GHP
Sbjct:    54 RYENQKRRDWNTFGQYLRNHRPPLSLSRCSGAHVLEFLRYLDQFGKTKVHTNICHFYGHP 113

Query:   106 NPPAPCACPLKQAWGSLDALIGRLRAAYEENGGRPESNPFGARAVRIYLREVRESQAKAR 165
             NPPAPC CPL+QAWGSLDALIGRLRAA+EENGG+PE+NPFGARAVR+YLREVR+ Q+KAR
Sbjct:   114 NPPAPCPCPLRQAWGSLDALIGRLRAAFEENGGKPETNPFGARAVRLYLREVRDMQSKAR 173

Query:   166 GIPYEKKKRKRPVVTAAS 183
             G+ YEKKKRKRP+ ++++
Sbjct:   174 GVSYEKKKRKRPLPSSST 191

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0007389 "pattern specification process" evidence=RCA

GO:0009855 "determination of bilateral symmetry" evidence=RCA

GO:0009944 "polarity specification of adaxial/abaxial axis" evidence=RCA

GO:0010014 "meristem initiation" evidence=RCA

GO:0010075 "regulation of meristem growth" evidence=RCA

GO:0048438 "floral whorl development" evidence=RCA

GO:0048439 "flower morphogenesis" evidence=RCA

TAIR|locus:2147494 LSH1 "AT5G28490" [Arabidopsis thaliana (taxid:3702)]

 Score = 583 (210.3 bits), Expect = 1.2e-56, P = 1.2e-56
 Identities = 101/130 (77%), Positives = 118/130 (90%)

Query:    46 RYESQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHP 105
             RYE+QKRRDWNTF QYL+NH+PPL+L  CSGAHV+EFL+YLDQFGKTKVH   C +FG P
Sbjct:    25 RYENQKRRDWNTFCQYLRNHRPPLSLPSCSGAHVLEFLRYLDQFGKTKVHHQNCAFFGLP 84

Query:   106 NPPAPCACPLKQAWGSLDALIGRLRAAYEENGGRPESNPFGARAVRIYLREVRESQAKAR 165
             NPPAPC CPL+QAWGSLDALIGRLRAAYEENGG PE+NPFG+RAVR++LREVR+ QAKAR
Sbjct:    85 NPPAPCPCPLRQAWGSLDALIGRLRAAYEENGGPPEANPFGSRAVRLFLREVRDFQAKAR 144

Query:   166 GIPYEKKKRK 175
             G+ YEKK+++
Sbjct:   145 GVSYEKKRKR 154

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0009416 "response to light stimulus" evidence=IMP

GO:0009637 "response to blue light" evidence=IGI

GO:0009826 "unidimensional cell growth" evidence=IMP

GO:0010114 "response to red light" evidence=IGI

GO:0010218 "response to far red light" evidence=IGI

TAIR|locus:2041514 LSH10 "AT2G42610" [Arabidopsis thaliana (taxid:3702)]

 Score = 578 (208.5 bits), Expect = 4.2e-56, P = 4.2e-56
 Identities = 100/139 (71%), Positives = 118/139 (84%)

Query:    46 RYESQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHP 105
             RYESQKRRDWNTF QYLKN +PP+ ++ CS  HV++FL+YLDQFGKTKVH+ GC ++G P
Sbjct:    25 RYESQKRRDWNTFGQYLKNQRPPVPMSHCSCNHVLDFLRYLDQFGKTKVHVPGCMFYGQP 84

Query:   106 NPPAPCACPLKQAWGSLDALIGRLRAAYEENGGRPESNPFGARAVRIYLREVRESQAKAR 165
              PPAPC CPL+QAWGSLDALIGRLRAAYEENGG PE+NPF + A+R+YLREVRE QAKAR
Sbjct:    85 EPPAPCTCPLRQAWGSLDALIGRLRAAYEENGGPPETNPFASGAIRVYLREVRECQAKAR 144

Query:   166 GIPYEKKKRKRPVVTAASG 184
             GIPY+KKK+K+P      G
Sbjct:   145 GIPYKKKKKKKPTPEMGGG 163

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2100850 LSH2 "AT3G04510" [Arabidopsis thaliana (taxid:3702)]

 Score = 574 (207.1 bits), Expect = 1.1e-55, P = 1.1e-55
 Identities = 99/130 (76%), Positives = 118/130 (90%)

Query:    46 RYESQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHP 105
             RYE+QKRRDWNTF QYL+NH PPL+LA CSGAHV++FL+YLDQFGKTKVH   C +FG P
Sbjct:    33 RYENQKRRDWNTFCQYLRNHHPPLSLASCSGAHVLDFLRYLDQFGKTKVHHQNCAFFGLP 92

Query:   106 NPPAPCACPLKQAWGSLDALIGRLRAAYEENGGRPESNPFGARAVRIYLREVRESQAKAR 165
             NPPAPC CPL+QAWGSLDALIGRLRAAYEENGG PE++PFG+R+VRI+LREVR+ QAK+R
Sbjct:    93 NPPAPCPCPLRQAWGSLDALIGRLRAAYEENGGAPETSPFGSRSVRIFLREVRDFQAKSR 152

Query:   166 GIPYEKKKRK 175
             G+ YEKK+++
Sbjct:   153 GVSYEKKRKR 162

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2124067 LSH9 "AT4G18610" [Arabidopsis thaliana (taxid:3702)]

 Score = 525 (189.9 bits), Expect = 1.7e-50, P = 1.7e-50
 Identities = 93/132 (70%), Positives = 111/132 (84%)

Query:    46 RYESQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHP 105
             RYESQKRRDWNTF+QYLK+  PPL +++    HV+ FL+YLDQFGKTKVH   C +FG P
Sbjct:    37 RYESQKRRDWNTFVQYLKSQNPPLMMSQFDYTHVLSFLRYLDQFGKTKVHHQACVFFGQP 96

Query:   106 NPPAPCACPLKQAWGSLDALIGRLRAAYEENGG-RPESNPFGARAVRIYLREVRESQAKA 164
             +PP PC CPLKQAWGSLDALIGRLRAAYEE+GG  P++NPF   ++R++LREVRESQAKA
Sbjct:    97 DPPGPCTCPLKQAWGSLDALIGRLRAAYEEHGGGSPDTNPFANGSIRVHLREVRESQAKA 156

Query:   165 RGIPYEKKKRKR 176
             RGIPY KKKR++
Sbjct:   157 RGIPYRKKKRRK 168

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009691 "cytokinin biosynthetic process" evidence=RCA

GO:0010413 "glucuronoxylan metabolic process" evidence=RCA

GO:0045492 "xylan biosynthetic process" evidence=RCA

TAIR|locus:505006228 LSH7 "AT1G78815" [Arabidopsis thaliana (taxid:3702)]

 Score = 521 (188.5 bits), Expect = 4.6e-50, P = 4.6e-50
 Identities = 88/131 (67%), Positives = 110/131 (83%)

Query:    46 RYESQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHP 105
             RYESQKRRDWNTF QYL+N +PP+ +++C   H+++FL+YLDQFGKTKVHI GC +FG  
Sbjct:    40 RYESQKRRDWNTFCQYLRNQQPPVHISQCGSNHILDFLQYLDQFGKTKVHIHGCVFFGQV 99

Query:   106 NPPAPCACPLKQAWGSLDALIGRLRAAYEENGGRPESNPFGARAVRIYLREVRESQAKAR 165
              P   C CPLKQAWGSLDALIGRLRAA+EENGG PE NPF    +R++LREVR+SQAKAR
Sbjct:   100 EPAGQCNCPLKQAWGSLDALIGRLRAAFEENGGLPERNPFAGGGIRVFLREVRDSQAKAR 159

Query:   166 GIPYEKKKRKR 176
             G+PY+K+K+++
Sbjct:   160 GVPYKKRKKRK 170

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009691 "cytokinin biosynthetic process" evidence=RCA

TAIR|locus:2015591 LSH8 "AT1G16910" [Arabidopsis thaliana (taxid:3702)]

 Score = 480 (174.0 bits), Expect = 1.0e-45, P = 1.0e-45
 Identities = 90/138 (65%), Positives = 101/138 (73%)

Query:    46 RYESQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHP 105
             RYESQK RDWNTF QYL    PP+ +  C   H+++FL+  DQFGKTKVHI GC +FG  
Sbjct:    23 RYESQKSRDWNTFCQYLMTKMPPVHVWECESNHILDFLQSRDQFGKTKVHIQGCVFFGQK 82

Query:   106 NPPAPCACPLKQAWGSLDALIGRLRAAYEENGGRPESNPFGARAVRIYLREVRESQAKAR 165
              PP  C CPLKQAWGSLDALIGRLRAAYEENGG  E NPF    +RI+LREVR SQAKAR
Sbjct:    83 EPPGECNCPLKQAWGSLDALIGRLRAAYEENGGLTEKNPFARGGIRIFLREVRGSQAKAR 142

Query:   166 GIPYEKKKRKRPVVTAAS 183
             G+ Y+KKKR   V T  S
Sbjct:   143 GVLYKKKKRLVVVGTGTS 160


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        0.318   0.136   0.428    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      215       152   0.00073  105 3  11 22  0.37    32
                                                     30  0.40    34


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:  10
  No. of states in DFA:  587 (62 KB)
  Total size of DFA:  151 KB (2091 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  15.47u 0.09s 15.56t   Elapsed:  00:00:01
  Total cpu time:  15.47u 0.09s 15.56t   Elapsed:  00:00:01
  Start:  Tue May 21 03:39:21 2013   End:  Tue May 21 03:39:22 2013

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

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	215
pfam04852	133	pfam04852, DUF640, Protein of unknown function (DU	1e-75

>gnl|CDD|191112 pfam04852, DUF640, Protein of unknown function (DUF640)

 Score =  223 bits (570), Expect = 1e-75
 Identities = 92/133 (69%), Positives = 108/133 (81%)

Query: 28  QQAPESSTSPPAAAAPPSRYESQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLD 87
            +   S  S  +     SRYESQKRRDWNTF QYL+N +PPL L++CSG HV++FL+YLD
Sbjct: 1   SERLTSECSSRSPPPALSRYESQKRRDWNTFCQYLRNQRPPLNLSKCSGNHVLDFLRYLD 60

Query: 88  QFGKTKVHISGCPYFGHPNPPAPCACPLKQAWGSLDALIGRLRAAYEENGGRPESNPFGA 147
           QFGKTKVH   C +FGHP+PPAPC CPL+QAWGSLDALIGRLRAA+EE+GG PE NPF A
Sbjct: 61  QFGKTKVHGQACGFFGHPSPPAPCPCPLRQAWGSLDALIGRLRAAFEEHGGHPEENPFAA 120

Query: 148 RAVRIYLREVRES 160
           RAVR+YLREVR+S
Sbjct: 121 RAVRLYLREVRDS 133

This family represents a conserved region found in plant proteins including Resistance protein-like protein. Length = 133

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	215
PF04852	132	DUF640: Protein of unknown function (DUF640); Inte	100.0
PF08821	107	CGGC: CGGC domain; InterPro: IPR014925 Proteins in	92.33
PF02899	84	Phage_int_SAM_1: Phage integrase, N-terminal SAM-l	91.46
cd00798	284	INT_XerDC XerD and XerC integrases, DNA breaking-r	87.74
cd00799	287	INT_Cre Cre recombinase, C-terminal catalytic doma	86.77
TIGR02225	291	recomb_XerD tyrosine recombinase XerD. The phage i	85.02
PRK00283	299	xerD site-specific tyrosine recombinase XerD; Revi	84.31

>PF04852 DUF640: Protein of unknown function (DUF640); InterPro: IPR006936 This conserved region is found in plant proteins including the resistance protein-like protein (O49468 from SWISSPROT)

Probab=100.00  E-value=5.3e-76  Score=474.75  Aligned_cols=124  Identities=77%  Similarity=1.435  Sum_probs=120.1

Q ss_pred             CCCCCCCCchhhHhhhhhHHHHHHHHHhcCCCcccccccchhHhHHhhhhcccCceeeeecCCCCCCCCCCCCCCCCchh
Q 028022           37 PPAAAAPPSRYESQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHPNPPAPCACPLK  116 (215)
Q Consensus        37 ~~~~~~~~srYesQKRRdWntF~qyL~n~rPPlsL~~Csg~hVleFLrylDqfGKTkVH~~~C~ffG~p~ppapC~CPlR  116 (215)
                      .+++++.+||||+|||||||||+|||+||+|||+|++|+++|||+||+|||||||||||.++|+|||||+||+||+||||
T Consensus         9 ~~~~~~~~SrYesQKrrdwntf~qyL~n~rPP~~L~~csg~hVl~FL~~~d~~GkTkVh~~~C~~~g~~~~p~~C~CPlr   88 (132)
T PF04852_consen    9 SRSPQPAPSRYESQKRRDWNTFGQYLRNHRPPLSLSRCSGNHVLEFLRYLDQFGKTKVHGQGCPFFGHPSPPAPCPCPLR   88 (132)
T ss_pred             CCCCCCCCcccchhhhHHHHHHHHHHHccCCCcchhhcChHHHHHHHHHHhccCCeeecCCCCCCCCCCCCCCCCCCcHH
Confidence            34455688999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcchhHHHHHHHHHHHHHhCCCCCCCccchhHHHHHHHHHHHH
Q 028022          117 QAWGSLDALIGRLRAAYEENGGRPESNPFGARAVRIYLREVRES  160 (215)
Q Consensus       117 QAWGSLDALIGRLRAAfEE~Gg~pE~NPF~araVRlYLReVRd~  160 (215)
                      ||||||||||||||||||||||+||+|||++++||+|||||||+
T Consensus        89 qAwGSlDalIGrLraafee~Gg~pe~NPf~~~~vr~yLr~vr~~  132 (132)
T PF04852_consen   89 QAWGSLDALIGRLRAAFEEHGGHPEANPFAARAVRLYLREVRDS  132 (132)
T ss_pred             HHhccHHHHHHHHHHHHHHhCCCCCCCchhhHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999985

>PF08821 CGGC: CGGC domain; InterPro: IPR014925 Proteins in this entry are a quite highly conserved sequence of CGGC in its central region

Probab=92.33  E-value=0.29  Score=38.35  Aligned_cols=66  Identities=23%  Similarity=0.530  Sum_probs=49.1

Q ss_pred             HHHHHHhcCCCccccc---ccchhHhHHhhhhcccCceeeeecCCCCCCCCCCCCCCCCchhhhcchhHHHHHHHHHHH
Q 028022           58 FLQYLKNHKPPLTLAR---CSGAHVIEFLKYLDQFGKTKVHISGCPYFGHPNPPAPCACPLKQAWGSLDALIGRLRAAY  133 (215)
Q Consensus        58 F~qyL~n~rPPlsL~~---Csg~hVleFLrylDqfGKTkVH~~~C~ffG~p~ppapC~CPlRQAWGSLDALIGRLRAAf  133 (215)
                      |.+|=.+..--+.+.+   |.+..|+..++.+-.+|-..||...|.+.+.+.+    .||.      +|.|+-.|+++|
T Consensus        30 F~~y~~~~~elvgf~~CgGCpg~~~~~~~~~l~~~~~d~IHlssC~~~~~~~~----~CP~------~~~~~~~I~~~~   98 (107)
T PF08821_consen   30 FARYDDEDVELVGFFTCGGCPGRKLVRRIKKLKKNGADVIHLSSCMVKGNPHG----PCPH------IDEIKKIIEEKF   98 (107)
T ss_pred             cccCCCCCeEEEEEeeCCCCChhHHHHHHHHHHHCCCCEEEEcCCEecCCCCC----CCCC------HHHHHHHHHHHh
Confidence            4444332222344445   4568999999999999999999999999987653    6666      899999999887

The region has many conserved cysteines and histidines suggestive of a zinc binding function.

>PF02899 Phage_int_SAM_1: Phage integrase, N-terminal SAM-like domain; InterPro: IPR004107 Proteins containing this domain cleave DNA substrates by a series of staggered cuts, during which the protein becomes covalently linked to the DNA through a catalytic tyrosine residue at the carboxy end of the alignment [, ]

Probab=91.46  E-value=0.32  Score=33.08  Aligned_cols=40  Identities=28%  Similarity=0.525  Sum_probs=31.7

Q ss_pred             hhhhhHHHHHHHHHhcCCCcccccccchhHhHHhhhhcccC
Q 028022           50 QKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFG   90 (215)
Q Consensus        50 QKRRdWntF~qyL~n~rPPlsL~~Csg~hVleFLrylDqfG   90 (215)
                      .-+++++.|.+||.+ ....++..++..||.+||.++-+.|
T Consensus        21 ~Y~~~l~~f~~~~~~-~~~~~~~~i~~~~v~~f~~~~~~~~   60 (84)
T PF02899_consen   21 SYRRDLRRFIRWLEE-HGIIDWEDITEEDVRDFLEYLAKEG   60 (84)
T ss_dssp             HHHHHHHHHHHHHHH-TTS-CGGG--HHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHhhhh-hhhhhhhhhhhHHHHHHHHHHHccC
Confidence            456899999999999 5667788899999999999987766

The phage integrase N-terminal SAM-like domain is almost always found with the signature that defines the phage integrase family (see IPR002104 from INTERPRO).; GO: 0003677 DNA binding, 0015074 DNA integration; PDB: 1Z1G_B 1Z19_A 1Z1B_A 2OXO_A 1P7D_B 3NRW_A 1A0P_A.

>cd00798 INT_XerDC XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains

Probab=87.74  E-value=2  Score=33.33  Aligned_cols=69  Identities=25%  Similarity=0.300  Sum_probs=47.4

Q ss_pred             hhhhhHHHHHHHHHhcCCCcccccccchhHhHHhhhhcccCceeeeecCCCCCCCCCCCCCCCCchhhhcchhHHHHHHH
Q 028022           50 QKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHPNPPAPCACPLKQAWGSLDALIGRL  129 (215)
Q Consensus        50 QKRRdWntF~qyL~n~rPPlsL~~Csg~hVleFLrylDqfGKTkVH~~~C~ffG~p~ppapC~CPlRQAWGSLDALIGRL  129 (215)
                      +-+..|+.|.+|+.....+. +..-+..||.+|+.++.+.|                          ....++...++-|
T Consensus        21 ~~~~~~~~~~~~~~~~~~~~-~~~l~~~~i~~~~~~~~~~~--------------------------~~~~t~~~~~~~l   73 (284)
T cd00798          21 AYRRDLERFLEFLEERGILF-PADVTPDDIRRFLAELKDQG--------------------------LSARSIARKLSAL   73 (284)
T ss_pred             HHHHHHHHHHHHHHHcCCCc-hhhCCHHHHHHHHHHhhhcC--------------------------CCHHHHHHHHHHH
Confidence            44567899999998764433 56678999999999887644                          1235677778888


Q ss_pred             HHHHHHhC--CCCCCCcc
Q 028022          130 RAAYEENG--GRPESNPF  145 (215)
Q Consensus       130 RAAfEE~G--g~pE~NPF  145 (215)
                      +++|.-..  +.-+.||+
T Consensus        74 ~~~~~~~~~~~~~~~~p~   91 (284)
T cd00798          74 RSFFKFLLREGLILANPA   91 (284)
T ss_pred             HHHHHHHHHcCCccCChh
Confidence            88776321  23445776

XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid inheritance. They share the same fold in their catalytic domain containing six conserved active site residues and the overall reaction mechanism with the DNA breaking-rejoining enzyme superfamily. In Escherichia coli, the Xer site-specific recombination system acts to convert dimeric chromosomes, which are formed by homologous recombination to monomers. Two related recombinases, XerC and XerD, bind cooperatively to a recombination site present in the E. coli chromosome. Each recombinase catalyzes the exchange of one pair of DNA strand in a reaction that proceeds through a Holliday junction intermediate. These enzymes can bridge two different and well-separated DNA sequen

>cd00799 INT_Cre Cre recombinase, C-terminal catalytic domain

Probab=86.77  E-value=5.7  Score=32.28  Aligned_cols=77  Identities=23%  Similarity=0.303  Sum_probs=52.8

Q ss_pred             hhhhhHHHHHHHHHhcCCCcccccccchhHhHHhhhhcccCceeeeecCCCCCCCCCCCCCCCCchhhhcchhHHHHHHH
Q 028022           50 QKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHPNPPAPCACPLKQAWGSLDALIGRL  129 (215)
Q Consensus        50 QKRRdWntF~qyL~n~rPPlsL~~Csg~hVleFLrylDqfGKTkVH~~~C~ffG~p~ppapC~CPlRQAWGSLDALIGRL  129 (215)
                      .-.++++.|.+|+..+.  +....-+..||.+||.||.+.                           .+..++-..++.|
T Consensus         6 ~y~~~l~~f~~~~~~~~--~~~~~~~~~~i~~~~~~l~~~---------------------------~s~~ti~~~~~~l   56 (287)
T cd00799           6 AYLSDWRRFAAWCQAHG--RTPLPASPETVTLYLTDLADS---------------------------LAPSTISRRLSAL   56 (287)
T ss_pred             HHHHHHHHHHHHHHhcC--CCCCCCCHHHHHHHHHHHHhc---------------------------cChHHHHHHHHHH
Confidence            44568889999998752  222234589999999988531                           1456888899999


Q ss_pred             HHHHHHhCCCCCCCccchhHHHHHHHHHH
Q 028022          130 RAAYEENGGRPESNPFGARAVRIYLREVR  158 (215)
Q Consensus       130 RAAfEE~Gg~pE~NPF~araVRlYLReVR  158 (215)
                      +..|+..+.   .||+....++.-|+.++
T Consensus        57 ~~~~~~~~~---~~p~~~~~~~~~~~~~~   82 (287)
T cd00799          57 SQLHRRSGL---PSPADSPLVRLVLRGIR   82 (287)
T ss_pred             HHHHHHcCC---CCCccCHHHHHHHHHHH
Confidence            999985432   58876655555555554

Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre recombinase maintains the circular phage replicon in a monomeric state by catalyzing a site-specific recombination between two loxP sites. The catalytic core domain of Cre recombinase is linked to a more divergent helical N-terminal domain, which interacts primarily with the DNA major groove proximal to the crossover region.

>TIGR02225 recomb_XerD tyrosine recombinase XerD

Probab=85.02  E-value=3.6  Score=32.34  Aligned_cols=70  Identities=26%  Similarity=0.448  Sum_probs=47.5

Q ss_pred             HhhhhhHHHHHHHHHhcCCCcccccccchhHhHHhhhhcccCceeeeecCCCCCCCCCCCCCCCCchhhhcchhHHHHHH
Q 028022           49 SQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHPNPPAPCACPLKQAWGSLDALIGR  128 (215)
Q Consensus        49 sQKRRdWntF~qyL~n~rPPlsL~~Csg~hVleFLrylDqfGKTkVH~~~C~ffG~p~ppapC~CPlRQAWGSLDALIGR  128 (215)
                      .+-++.++.|.+||..+.  ..+..-+..||.+|+.++.+.|                          ...-+++..+..
T Consensus        19 ~~~~~~~~~~~~~~~~~~--~~~~~it~~~i~~~~~~~~~~~--------------------------~~~~t~~~~~~~   70 (291)
T TIGR02225        19 EAYRRDLEKFLEFLEERG--IDLEEVDRGDIVDFLAELKEAG--------------------------LSARSIARALSA   70 (291)
T ss_pred             HHHHHHHHHHHHHHHhcC--CChHHCCHHHHHHHHHHhhcCC--------------------------CCHhHHHHHHHH
Confidence            445567888999998543  2455567899999999887643                          112367888899


Q ss_pred             HHHHHHHh--CCCCCCCccc
Q 028022          129 LRAAYEEN--GGRPESNPFG  146 (215)
Q Consensus       129 LRAAfEE~--Gg~pE~NPF~  146 (215)
                      |+++|+-.  -+-.+.|||.
T Consensus        71 l~~~~~~a~~~~~~~~np~~   90 (291)
T TIGR02225        71 LRSFYRFLLREGIREDDPSA   90 (291)
T ss_pred             HHHHHHHHHhcccccCCchh
Confidence            99888732  2334567763

The phage integrase family describes a number of recombinases with tyrosine active sites that transiently bind covalently to DNA. Many are associated with mobile DNA elements, including phage, transposons, and phase variation loci. This model represents XerD, one of two closely related chromosomal proteins along with XerC (TIGR02224). XerC and XerD are site-specific recombinases which help resolve chromosome dimers to monomers for cell division after DNA replication. In species with a large chromosome and with homologs of XerD on other replicons, the chomosomal copy was preferred for building this model. This model does not detect all XerD, as some apparent XerD examples score below the trusted and noise cutoff scores. XerC and XerD interact with cell division protein FtsK.

>PRK00283 xerD site-specific tyrosine recombinase XerD; Reviewed

Probab=84.31  E-value=2.7  Score=33.68  Aligned_cols=67  Identities=25%  Similarity=0.279  Sum_probs=46.8

Q ss_pred             hhhhHHHHHHHHHhcCCCcccccccchhHhHHhhhhcccCceeeeecCCCCCCCCCCCCCCCCchhhhcchhHHHHHHHH
Q 028022           51 KRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHPNPPAPCACPLKQAWGSLDALIGRLR  130 (215)
Q Consensus        51 KRRdWntF~qyL~n~rPPlsL~~Csg~hVleFLrylDqfGKTkVH~~~C~ffG~p~ppapC~CPlRQAWGSLDALIGRLR  130 (215)
                      -+++|+.|..||..+.-  .+...+..||.+|+.++.+.+                          .+.-++...+..|+
T Consensus        30 ~~~~~~~~~~~~~~~~~--~~~~l~~~~i~~~~~~~~~~~--------------------------~~~~t~~~~~~~l~   81 (299)
T PRK00283         30 YRRDLELFAEWLAARGL--SLAEATRDDLQAFLAELAEGG--------------------------YKATSSARRLSALR   81 (299)
T ss_pred             HHHHHHHHHHHHHhcCC--ChHHCCHHHHHHHHHHHHhCC--------------------------CCHHHHHHHHHHHH
Confidence            46688999999986533  566778999999999885431                          23347778888888


Q ss_pred             HHHHHhC--CCCCCCcc
Q 028022          131 AAYEENG--GRPESNPF  145 (215)
Q Consensus       131 AAfEE~G--g~pE~NPF  145 (215)
                      ++|+-..  +.-..|||
T Consensus        82 ~~~~~a~~~~~i~~np~   98 (299)
T PRK00283         82 RFFQFLLREGLREDDPS   98 (299)
T ss_pred             HHHHHHHHcCCcccCch
Confidence            8887331  23446776

---

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	215
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-04

>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 = 42.5 bits (99), Expect = 6e-05
 Identities = 26/156 (16%), Positives = 47/156 (30%), Gaps = 47/156 (30%)

Query: 46  RYESQKRRDWNT---------FLQYLKNHKPPLTLARCSGAHVIEFLK--YLD-QFGKTK 93
            Y   K  D +          F  ++ +H     L        +   +  +LD +F + K
Sbjct: 452 HYNIPKTFDSDDLIPPYLDQYFYSHIGHH-----LKNIEHPERMTLFRMVFLDFRFLEQK 506

Query: 94  VHISGCPYFGHPNPPAPCACPLKQAWGSL----------DALIGRLRAAYEENGGRPESN 143
           +      +    N        L+Q    L          D    RL  A  +   + E N
Sbjct: 507 IRHDSTAW----NASGSILNTLQQ----LKFYKPYICDNDPKYERLVNAILDFLPKIEEN 558

Query: 144 ----PFGARAVRIYLREVRESQAKARGIPYEKKKRK 175
                +    +RI L       A+   I +E+  ++
Sbjct: 559 LICSKY-TDLLRIAL------MAEDEAI-FEEAHKQ 586

>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 = 39.5 bits (91), Expect = 6e-04
 Identities = 29/185 (15%), Positives = 55/185 (29%), Gaps = 67/185 (36%)

Query: 20  AAALQQQLQQAPESSTSPPAAAAPPSRYESQKRRDWNTFLQYLKNH----KPPLTLARCS 75
            + ++ + +Q P   T           Y  Q+ R +N    + K +    +P L L +  
Sbjct: 95  MSPIKTEQRQ-PSMMTR---------MYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQA- 143

Query: 76  GAHVIEFLKYLDQ-----------FGKTKVHISGC---------PY------FGHPNPPA 109
                  L  L              GKT V +  C          +        +     
Sbjct: 144 -------LLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKN----- 191

Query: 110 PCACP---LKQAWGSLDALIGRLRAAYEENGGRPESNPFGARAVRIYLREVRESQAKARG 166
            C  P   L+     L  L+ ++   +        +      +++  LR + +S+     
Sbjct: 192 -CNSPETVLEM----LQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK----- 241

Query: 167 IPYEK 171
            PYE 
Sbjct: 242 -PYEN 245

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	215
1xo0_A	324	Recombinase CRE; CRE recombinase, holliday junctio	91.97
3nrw_A	117	Phage integrase/site-specific recombinase; alpha-h	85.11
1a0p_A	290	Site-specific recombinase XERD; DNA binding, DNA r	83.37

>1xo0_A Recombinase CRE; CRE recombinase, holliday junction, recombination,complex (recombinase/DNA), hydrolase, ligase/DNA complex; 2.00A {Enterobacteria phage P1} SCOP: a.60.9.1 d.163.1.1 PDB: 3crx_A* 1kbu_A 1ma7_A 1q3u_A* 1q3v_A* 3mgv_A* 1ouq_A* 1nzb_A* 2crx_A* 1xns_A 5crx_A* 1f44_A* 2hof_A 2hoi_A 4crx_A* 1drg_A 3c29_A* 3c28_A 1crx_A* 1pvr_A ...

Probab=91.97  E-value=0.35  Score=37.19  Aligned_cols=71  Identities=15%  Similarity=0.179  Sum_probs=52.8

Q ss_pred             HhhhhhHHHHHHHHHhcCCCcccccccchhHhHHhhhhcccCceeeeecCCCCCCCCCCCCCCCCchhhhcchhHHHHHH
Q 028022           49 SQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHPNPPAPCACPLKQAWGSLDALIGR  128 (215)
Q Consensus        49 sQKRRdWntF~qyL~n~rPPlsL~~Csg~hVleFLrylDqfGKTkVH~~~C~ffG~p~ppapC~CPlRQAWGSLDALIGR  128 (215)
                      ..-+++|+.|..|+..+.  +.+...+..||.+|+.++-..|                          .+..++...+..
T Consensus        24 ~~y~~~l~~~~~~~~~~~--~~~~~i~~~~i~~~~~~l~~~~--------------------------~s~~t~~~~~~~   75 (324)
T 1xo0_A           24 KMLLSVCRSWAAWCKLNN--RKWFPAEPEDVRDYLLYLQARG--------------------------LAVKTIQQHLGQ   75 (324)
T ss_dssp             HHHHHHHHHHHHHHHHHT--CCCSSCCHHHHHHHHHHHHHTT--------------------------CCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcC--CCCCCCCHHHHHHHHHHHHhcC--------------------------cCHHHHHHHHHH
Confidence            344678999999998763  2456678999999999875322                          245688999999


Q ss_pred             HHHHHHHhCCC-CCCCccch
Q 028022          129 LRAAYEENGGR-PESNPFGA  147 (215)
Q Consensus       129 LRAAfEE~Gg~-pE~NPF~a  147 (215)
                      |++.|+-.+.. +..||+..
T Consensus        76 l~~~~~~~~~~~~~~np~~~   95 (324)
T 1xo0_A           76 LNMLHRRSGLPRPSDSNAVS   95 (324)
T ss_dssp             HHHHHHHHTSCCGGGSHHHH
T ss_pred             HHHHHHHcCCCCCCcCHHHH
Confidence            99999988643 35688754

>3nrw_A Phage integrase/site-specific recombinase; alpha-helical domain, structural genomics, PSI-2, protein ST initiative; 1.70A {Haloarcula marismortui}

Probab=85.11  E-value=3  Score=28.91  Aligned_cols=69  Identities=10%  Similarity=0.070  Sum_probs=48.2

Q ss_pred             hhhhHHHHHHHHHhcCCCcccccccchhHhHHhhhhcccCceeeeecCCCCCCCCCCCCCCCCchhhhcchhHHHHHHHH
Q 028022           51 KRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHPNPPAPCACPLKQAWGSLDALIGRLR  130 (215)
Q Consensus        51 KRRdWntF~qyL~n~rPPlsL~~Csg~hVleFLrylDqfGKTkVH~~~C~ffG~p~ppapC~CPlRQAWGSLDALIGRLR  130 (215)
                      -+++++.|..||.... -..+...+..||.+|+.|+-..|                          .+..|+-..+.-||
T Consensus        32 Y~~~l~~f~~~l~~~~-~~~l~~it~~~i~~y~~~l~~~~--------------------------~s~~Ti~~~ls~lr   84 (117)
T 3nrw_A           32 FRYRLKHFVEWAEERD-ITAMRELTGWKLDEYETFRRGSD--------------------------VSPATLNGEMQTLK   84 (117)
T ss_dssp             HHHHHHHHHHHHHHTT-CCSGGGCCHHHHHHHHHHHHTSS--------------------------CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcC-CCChHHCCHHHHHHHHHHHHhCC--------------------------CCHHHHHHHHHHHH
Confidence            3578889999997642 12566778999999999874311                          24567888888888


Q ss_pred             HHHHHh--CCCCCCCccc
Q 028022          131 AAYEEN--GGRPESNPFG  146 (215)
Q Consensus       131 AAfEE~--Gg~pE~NPF~  146 (215)
                      ..|.-.  -|--+.||+.
T Consensus        85 ~f~~~l~~~g~i~~nP~~  102 (117)
T 3nrw_A           85 NWLEYLARIDVVDEDLPE  102 (117)
T ss_dssp             HHHHHHHHTTSSCTTSGG
T ss_pred             HHHHHHHHcCCcccCHHH
Confidence            888743  2445688875

>1a0p_A Site-specific recombinase XERD; DNA binding, DNA recombination; 2.50A {Escherichia coli} SCOP: a.60.9.1 d.163.1.1

Probab=83.37  E-value=2.9  Score=31.61  Aligned_cols=70  Identities=20%  Similarity=0.190  Sum_probs=48.2

Q ss_pred             HhhhhhHHHHHHHHHhcCCCcccccccchhHhHHhhhhcccCceeeeecCCCCCCCCCCCCCCCCchhhhcchhHHHHHH
Q 028022           49 SQKRRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHPNPPAPCACPLKQAWGSLDALIGR  128 (215)
Q Consensus        49 sQKRRdWntF~qyL~n~rPPlsL~~Csg~hVleFLrylDqfGKTkVH~~~C~ffG~p~ppapC~CPlRQAWGSLDALIGR  128 (215)
                      ..-++.++.|..||...  .+.+...+..||.+|+.++-..                          ..+..++...+.-
T Consensus        25 ~~y~~~l~~~~~~~~~~--~~~~~~i~~~~i~~~~~~l~~~--------------------------~~s~~t~~~~~~~   76 (290)
T 1a0p_A           25 NAYRRDLSMMVEWLHHR--GLTLATAQSDDLQALLAERLEG--------------------------GYKATSSARLLSA   76 (290)
T ss_dssp             HHHHHHHHHHHHHHHHT--SCCTTTCCHHHHHHHHHSCC---------------------------------CHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhc--CCChhhCCHHHHHHHHHHHHhc--------------------------CCCHHHHHHHHHH
Confidence            34457788899999887  3467778899999999876421                          1245678888999


Q ss_pred             HHHHHHHhC--CCCCCCccc
Q 028022          129 LRAAYEENG--GRPESNPFG  146 (215)
Q Consensus       129 LRAAfEE~G--g~pE~NPF~  146 (215)
                      |+++|+..-  +..+.|||.
T Consensus        77 l~~~~~~~~~~~~i~~np~~   96 (290)
T 1a0p_A           77 VRRLFQYLYREKFREDDPSA   96 (290)
T ss_dssp             HHHHHHHHHHTTSSSSCTTS
T ss_pred             HHHHHHHHHhCCCccCChhh
Confidence            999987542  345678985

---

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	215
d1f44a1	110	Cre recombinase {Bacteriophage P1 [TaxId: 10678]}	97.74

>d1f44a1 a.60.9.1 (A:20-129) Cre recombinase {Bacteriophage P1 [TaxId: 10678]}

class: All alpha proteins
fold: SAM domain-like
superfamily: lambda integrase-like, N-terminal domain
family: lambda integrase-like, N-terminal domain
domain: Cre recombinase
species: Bacteriophage P1 [TaxId: 10678]

Probab=97.74  E-value=7.3e-05  Score=53.17  Aligned_cols=81  Identities=19%  Similarity=0.292  Sum_probs=66.1

Q ss_pred             hhhHHHHHHHHHhcCCCcccccccchhHhHHhhhhcccCceeeeecCCCCCCCCCCCCCCCCchhhhcchhHHHHHHHHH
Q 028022           52 RRDWNTFLQYLKNHKPPLTLARCSGAHVIEFLKYLDQFGKTKVHISGCPYFGHPNPPAPCACPLKQAWGSLDALIGRLRA  131 (215)
Q Consensus        52 RRdWntF~qyL~n~rPPlsL~~Csg~hVleFLrylDqfGKTkVH~~~C~ffG~p~ppapC~CPlRQAWGSLDALIGRLRA  131 (215)
                      ++||+.|.+|+.++.-  ++..++..+|.+||.+|-.-|                          .+..|+.--|-=||.
T Consensus        27 ~~dl~~f~~w~~~~~~--~~l~~~~~~v~~yl~~l~~~g--------------------------~s~sTi~R~lsair~   78 (110)
T d1f44a1          27 LSVCRSWAAWCKLNNR--KWFPAEPEDVRDYLLYLQARG--------------------------LAVKTIQQHLGQLNM   78 (110)
T ss_dssp             HHHHHHHHHHHHHTTC--CTTTTCHHHHHHHHHHHHHTT--------------------------CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhcc--cccchhhhHHHHHHHHHHhcC--------------------------CCccHHHHHHHHHHH
Confidence            6899999999998864  455689999999999885433                          345689999999999


Q ss_pred             HHHHhCCCCCCCccchhHHHHHHHHHHHHHHh
Q 028022          132 AYEENGGRPESNPFGARAVRIYLREVRESQAK  163 (215)
Q Consensus       132 AfEE~Gg~pE~NPF~araVRlYLReVRd~QAK  163 (215)
                      .|...|-.   ||+.+..|++.|+-+|-...+
T Consensus        79 f~r~~g~~---~p~~~~~V~~~l~~i~R~~~~  107 (110)
T d1f44a1          79 LHRRSGLP---RPSDSNAVSLVMRRIRKENVD  107 (110)
T ss_dssp             HHHHTTCC---CGGGSHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCC---CCcCCHHHHHHHHHccccccC
Confidence            99988753   799999999999888876554