Psyllid ID: psy15374

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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-----
Protein Sequence
MLAWSPEEAGEMIETYKVFENKPPDLIMEKQDVDPHSKTWNFDPVPAAQNSATSESVQPSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADRIKALGKLYKLQVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFENKPPDLIMEKQDVDPHSKTWNFG
Secondary Structure (PSIPRED)
cccccccccccccHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEcccccccccccccccccEEEcccccccEEEcccEEEEEEEccccccccHHHHHHHHHHccEEEEEEccccHHHHHHHHHHHHHHHccEEEEEccHHHHHHHHHHHHHHHccccHHHcccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccHHHcccEEccHHHHcccccHHHccccccccccccccccccccccccccccccccccccccccccEEEEcccccccHHHHHHccccccccccccccEEEccccEEEEEEEEHccccHHHHHHHHHHHccEEEEEEEcccHHHHHHHHHHHHHHcccEEEEEccHHHHHHHHHHHHHHHcccHHHHHHHccccHHHHHHHcc
Coil and Loop (DISEMBL)
mlawspeeagEMIETYKvfenkppdlimekqdvdphsktwnfdpvpaaqnsatsesvqpsragaskssnailvnprqkgnpllkhigkvpweyddsiipdyvmgRTTCALFLSIKYHALKPDYIADRIKALGKLYKlqvdskdphhaLKYLTRVCLLCDLTLmlawspeeagEMIETYKvfenkppdlimekqdvdphsktwnfg
Flexible Loop (DISEMBL)
mlawspeeagEMIETYKVFENKPPDLIMEKQDVDPHSKTWNFDPVPAAQNSATSESVQpsragaskssnailvnprqkgnpllkHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADRIKALGKLYKLQVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFENKPPDlimekqdvdphsktwnfg
Low Complexity Region (SEG)
MLAWSPEEAGEMIETYKVFENKPPDLIMEKQDVDPHSKTWNFDPVPAAQNSATSESVQPSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADRIKALGKLYKLQVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFENKPPDLIMEKQDVDPHSKTWNFG
Disordered region (IsUnstruct)
********************************************************************************PLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADRIKALGKLYKLQVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFE***********************
Disordered Region (DISOPRED)
MLAWS**EAGE**********************************************************AILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADRIKALGKLYKLQVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFEN*************PHSKTWNF*
Disordered Region (DISEMBL)
********AGEMIETYKVFENKPPDLIMEKQDVDPHSKTWNFDPVPA********************SNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADRIKALGKLYKLQVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFENKPPDLIMEKQDVDPHSKTWNFG
Disordered Region (DISPRO)
MLAWSPEEAGEMIETYKVFENKPPDLIMEK**************************************NAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADRIKALGKLYKLQVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFENKPPDLIMEKQDVDPHSKTWNFG
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLAWSPEEAGEMIETYKVFENKPPDLIMEKQDVDPHSKTWNFDPVPAAQNSATSESVQPSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADRIKALGKLYKLQVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFENKPPDLIMEKQDVDPHSKTWNFG
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	205	2.2.26 [Sep-21-2011]
P07992	297	DNA excision repair prote	no	N/A	0.624	0.430	0.589	3e-42
Q1LZ75	294	DNA excision repair prote	yes	N/A	0.624	0.435	0.582	4e-42
P07903	298	DNA excision repair prote	yes	N/A	0.707	0.486	0.538	2e-41
Q06182	252	Mating-type switching pro	yes	N/A	0.712	0.579	0.490	3e-35
Q9MA98	410	DNA excision repair prote	yes	N/A	0.780	0.390	0.455	2e-32
P06838	210	DNA repair protein RAD10	yes	N/A	0.546	0.533	0.336	6e-13
Q55GG6	514	DNA excision repair prote	yes	N/A	0.580	0.231	0.296	1e-10

>sp|P07992|ERCC1_HUMAN DNA excision repair protein ERCC-1 OS=Homo sapiens GN=ERCC1 PE=1 SV=1

 Score =  171 bits (433), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 79/134 (58%), Positives = 104/134 (77%), Gaps = 6/134 (4%)

Query: 68  SNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADR 127
           SN+I+V+PRQ+GNP+LK +  VPWE+ D +IPDYV+G++TCALFLS++YH L PDYI  R
Sbjct: 98  SNSIIVSPRQRGNPVLKFVRNVPWEFGD-VIPDYVLGQSTCALFLSLRYHNLHPDYIHGR 156

Query: 128 IKALGKLYKL-----QVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFE 182
           +++LGK + L     QVD KDP  ALK L ++C+L D TL+LAWSPEEAG  +ETYK +E
Sbjct: 157 LQSLGKNFALRVLLVQVDVKDPQQALKELAKMCILADCTLILAWSPEEAGRYLETYKAYE 216

Query: 183 NKPPDLIMEKQDVD 196
            KP DL+MEK + D
Sbjct: 217 QKPADLLMEKLEQD 230

Structure-specific DNA repair endonuclease responsible for the 5'-incision during DNA repair.
Homo sapiens (taxid: 9606)

>sp|Q1LZ75|ERCC1_BOVIN DNA excision repair protein ERCC-1 OS=Bos taurus GN=ERCC1 PE=2 SV=1

 Score =  171 bits (432), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 78/134 (58%), Positives = 104/134 (77%), Gaps = 6/134 (4%)

Query: 68  SNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADR 127
           SN+I+V+PRQ+GNP+L+ +  VPWE+ D ++PDYV+G++TCALFLS++YH L PDYI  R
Sbjct: 94  SNSIIVSPRQRGNPVLRFVRNVPWEFGD-VLPDYVLGQSTCALFLSLRYHNLHPDYIHQR 152

Query: 128 IKALGKLYKL-----QVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFE 182
           +++LGK Y L     QVD KDP  ALK L ++C+L D TL+LAWSPEEAG  +ETYK +E
Sbjct: 153 LQSLGKSYALRVLLVQVDVKDPQQALKELAKMCILADCTLILAWSPEEAGRYLETYKAYE 212

Query: 183 NKPPDLIMEKQDVD 196
            KP DL+MEK + D
Sbjct: 213 QKPADLLMEKLEQD 226

Structure-specific DNA repair endonuclease responsible for the 5'-incision during DNA repair.

Bos taurus (taxid: 9913)

>sp|P07903|ERCC1_MOUSE DNA excision repair protein ERCC-1 OS=Mus musculus GN=Ercc1 PE=2 SV=2

 Score =  168 bits (426), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 83/154 (53%), Positives = 111/154 (72%), Gaps = 9/154 (5%)

Query: 45  VPAAQNSATSES-VQPSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVM 103
           VP     A  E+  Q  + GA   SN+I+V+PRQ+GNP+LK +  VPWE+ + +IPDYV+
Sbjct: 76  VPTGSEPAAGENPSQTLKTGAK--SNSIIVSPRQRGNPVLKFVRNVPWEFGE-VIPDYVL 132

Query: 104 GRTTCALFLSIKYHALKPDYIADRIKALGKLYKL-----QVDSKDPHHALKYLTRVCLLC 158
           G++TCALFLS++YH L PDYI +R+++LGK + L     QVD KDP  ALK L ++C+L 
Sbjct: 133 GQSTCALFLSLRYHNLHPDYIHERLQSLGKNFALRVLLVQVDVKDPQQALKELAKMCILA 192

Query: 159 DLTLMLAWSPEEAGEMIETYKVFENKPPDLIMEK 192
           D TL+LAWS EEAG  +ETYK +E KP DL+MEK
Sbjct: 193 DCTLVLAWSAEEAGRYLETYKAYEQKPADLLMEK 226

Structure-specific DNA repair endonuclease responsible for the 5'-incision during DNA repair.

Mus musculus (taxid: 10090)

>sp|Q06182|SWI10_SCHPO Mating-type switching protein swi10 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=swi10 PE=3 SV=1

 Score =  148 bits (373), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 75/153 (49%), Positives = 101/153 (66%), Gaps = 7/153 (4%)

Query: 58  QPSRAGASK-SSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKY 116
           QP+    S+ ++++ILVNPRQKGNPLL H+  VPWEY D I+PD+VMG   C+LFLS+KY
Sbjct: 29  QPTPQKVSRVTAHSILVNPRQKGNPLLPHVRNVPWEYTD-IVPDFVMGTGICSLFLSLKY 87

Query: 117 HALKPDYIADRIKALGKLYKLQ-----VDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEA 171
           H L P+YI  RI  LGK Y L+     VD ++   +++ L +  ++   TL+LAWS EEA
Sbjct: 88  HHLHPEYIYSRISKLGKSYNLRILLILVDVENHQASIQELVKTSIVNQYTLILAWSSEEA 147

Query: 172 GEMIETYKVFENKPPDLIMEKQDVDPHSKTWNF 204
              +ETYK +EN  P LIMEK   D  S+  +F
Sbjct: 148 ARYLETYKAYENMSPALIMEKPSTDYLSQVQSF 180

Involved in termination of copy-synthesis during mating-type switching. Involved in nucleotide excision repair of DNA damaged with UV light, bulky adducts, or cross-linking agents. Along with RAD16 forms an endonuclease that specifically degrades single-stranded DNA.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q9MA98|ERCC1_ARATH DNA excision repair protein ERCC-1 OS=Arabidopsis thaliana GN=ERCC1 PE=2 SV=1

 Score =  139 bits (349), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 76/167 (45%), Positives = 102/167 (61%), Gaps = 7/167 (4%)

Query: 35  PHSKTWNFDPVPAAQNSATSESVQPSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYD 94
           PHS +        A +S+T  +     +  +++ NAILV+ RQKGNPLLKHI  V W + 
Sbjct: 91  PHSSSQTHQ-TDGASSSSTPVATGSVPSNTTQNRNAILVSHRQKGNPLLKHIRNVKWVFS 149

Query: 95  DSIIPDYVMGRTTCALFLSIKYHALKPDYIADRIKALGKLYKL-----QVDSKDPHHALK 149
           D IIPDYV+G+ +CAL+LS++YH L PDY+  RI+ L K +KL      VD +D    L 
Sbjct: 150 D-IIPDYVLGQNSCALYLSLRYHLLHPDYLYFRIRELQKNFKLSVVLCHVDVEDTVKPLL 208

Query: 150 YLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFENKPPDLIMEKQDVD 196
            +T+  LL D TL+ AWS  E    +ET KV+ENKP DLI  + D D
Sbjct: 209 EVTKTALLHDCTLLCAWSMTECARYLETIKVYENKPADLIQGQMDTD 255

Seems to be involved in nucleotide excision repair (NER) of damaged DNA (dark repair mechanism). The UVH1/RAD1-ERCC1/RAD10 complex may act as an endonuclease making DNA incision 5' to the lesion site. In vitro, is implicated in double strand breaks (DSBs) repair and is required for homologous recombination in the presence of non-homologous overhangs. In vitro, is involved in chromosomal recombination between tandem repeats in both direct and inverted orientations. May mediate the induction of a DNA-damage sensitive cell-cycle checkpoint during the G2 phase.

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 1

EC: .

EC: -

EC: .

EC: -

>sp|P06838|RAD10_YEAST DNA repair protein RAD10 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RAD10 PE=1 SV=1

 Score = 74.3 bits (181), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 41/122 (33%), Positives = 65/122 (53%), Gaps = 10/122 (8%)

Query: 64  ASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDS-----IIPDYVMGRTTCALFLSIKYHA 118
           +++    +LVN  QK NPLL H+    W Y  S     I  DY++ R    LFL++ YH 
Sbjct: 86  STRPGKTVLVNTTQKENPLLNHLKSTNWRYVSSTGINMIYYDYLV-RGRSVLFLTLTYHK 144

Query: 119 LKPDYIADRIKALGK----LYKLQVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGEM 174
           L  DYI+ R++ L +    +    VD  +    L  +T++C+    TL+LA++ E+A + 
Sbjct: 145 LYVDYISRRMQPLSRNENNILIFIVDDNNSEDTLNDITKLCMFNGFTLLLAFNFEQAAKY 204

Query: 175 IE 176
           IE
Sbjct: 205 IE 206

Involved in nucleotide excision repair of DNA damaged with UV light, bulky adducts, or cross-linking agents. Along with RAD1 forms an endonuclease that specifically degrades single-stranded DNA.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q55GG6|ERCC1_DICDI DNA excision repair protein ERCC-1 OS=Dictyostelium discoideum GN=ercc1 PE=3 SV=1

 Score = 66.2 bits (160), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 40/135 (29%), Positives = 65/135 (48%), Gaps = 16/135 (11%)

Query: 71  ILVNPRQKGNPLLKHIGK-VPWEYDDSIIPDYVMGRTTCALFL-SIKYHALKPDYIADRI 128
           I  N +Q+G+ ++    K +  EY +   PD+++   T   +L S+K H   P+ I DRI
Sbjct: 217 IYANSKQRGSLMMNSFSKNIIIEYSELQYPDFILNSNTLVFYLPSLKTHRDNPNLIQDRI 276

Query: 129 KALGKL------YKLQV--------DSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGEM 174
           K L  L      + L++        DS +    +  L  + +    TL++ WS  EA + 
Sbjct: 277 KGLSTLMTNSDSFTLRILLVFADLSDSDNCEQFINELNLIAIKLQFTLIVCWSQIEAAKY 336

Query: 175 IETYKVFENKPPDLI 189
           +E YK F N+ PD I
Sbjct: 337 LEAYKTFNNRAPDPI 351

Structure-specific DNA repair endonuclease responsible for the 5'-incision during DNA repair.

Dictyostelium discoideum (taxid: 44689)

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	205
193683523	267	PREDICTED: DNA excision repair protein E	0.765	0.588	0.604	3e-52
383848015	249	PREDICTED: DNA excision repair protein E	0.702	0.578	0.626	4e-50
328776660	255	PREDICTED: DNA excision repair protein E	0.702	0.564	0.62	5e-49
340726144	254	PREDICTED: DNA excision repair protein E	0.702	0.566	0.6	1e-48
350405231	254	PREDICTED: DNA excision repair protein E	0.702	0.566	0.6	2e-48
156551812	261	PREDICTED: DNA excision repair protein E	0.653	0.513	0.628	3e-48
189241644	245	PREDICTED: similar to excision repair cr	0.746	0.624	0.591	4e-48
125807281	260	GA10163 [Drosophila pseudoobscura pseudo	0.809	0.638	0.534	6e-48
380024818	254	PREDICTED: DNA excision repair protein E	0.702	0.566	0.6	1e-47
195149698	260	GL11250 [Drosophila persimilis] gi|19410	0.809	0.638	0.534	2e-47

>gi|193683523|ref|XP_001944270.1| PREDICTED: DNA excision repair protein ERCC-1-like [Acyrthosiphon pisum]

 Score =  210 bits (535), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 98/162 (60%), Positives = 124/162 (76%), Gaps = 5/162 (3%)

Query: 47  AAQNSATSESVQPSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRT 106
           A  N  ++ SV  S   ++ S + +LVN +Q+GNPLLK I  VPWEY D I+PDYVMGRT
Sbjct: 34  ATSNQPSTSSVNQSPVKSNASVSGVLVNNKQRGNPLLKSIVNVPWEYSDDILPDYVMGRT 93

Query: 107 TCALFLSIKYHALKPDYIADRIKALGKLYK-----LQVDSKDPHHALKYLTRVCLLCDLT 161
           TCALFLS++YH LKPDYI +R+K+LGKLY+     LQ+D K+PH  LK LTR+CL  +LT
Sbjct: 94  TCALFLSLRYHMLKPDYIYNRVKSLGKLYELRVLLLQIDVKEPHAPLKQLTRMCLAAELT 153

Query: 162 LMLAWSPEEAGEMIETYKVFENKPPDLIMEKQDVDPHSKTWN 203
           LMLAW+ EEAG++IETYK+FENKPPDLIMEK + D +S+  N
Sbjct: 154 LMLAWTSEEAGKLIETYKIFENKPPDLIMEKAEADDYSRIAN 195

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383848015|ref|XP_003699648.1| PREDICTED: DNA excision repair protein ERCC-1-like [Megachile rotundata]

 Score =  203 bits (516), Expect = 4e-50,   Method: Compositional matrix adjust.
 Identities = 94/150 (62%), Positives = 117/150 (78%), Gaps = 6/150 (4%)

Query: 59  PSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHA 118
           PS+   S   N +LVN +QKGNPLLK++  VPWEY + I+PDYVMG+T+CALFLSI+YH 
Sbjct: 38  PSKIKNSSKFNTLLVNLKQKGNPLLKYVTNVPWEYSE-IVPDYVMGKTSCALFLSIRYHQ 96

Query: 119 LKPDYIADRIKALGKLYKL-----QVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGE 173
           L PDYI +R+KALG +Y L     QVD  DPHHALK+LTRVC+L DLTLMLAW+ E+AG+
Sbjct: 97  LNPDYIHERLKALGNMYNLRVLLVQVDVADPHHALKHLTRVCILADLTLMLAWNAEDAGK 156

Query: 174 MIETYKVFENKPPDLIMEKQDVDPHSKTWN 203
           +IETYK++ENKPPD IME+ D  P+ K  N
Sbjct: 157 IIETYKIYENKPPDAIMERSDTAPYQKIVN 186

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328776660|ref|XP_623717.3| PREDICTED: DNA excision repair protein ERCC-1 [Apis mellifera]

 Score =  199 bits (506), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 93/150 (62%), Positives = 117/150 (78%), Gaps = 6/150 (4%)

Query: 59  PSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHA 118
           PS+A  S   + +LV+ +QKGNPLLK I  VPWEY + IIPDYVMG+TTCALFLSI+YH 
Sbjct: 43  PSKAKDSLKFSTLLVSLKQKGNPLLKFINNVPWEYSE-IIPDYVMGKTTCALFLSIRYHQ 101

Query: 119 LKPDYIADRIKALGKLYKL-----QVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGE 173
           L PDYI +R+K LG +Y L     QVD  +PHHALK+LTR+C+L DLTLMLAW+PE+AG+
Sbjct: 102 LNPDYIHERLKTLGNMYNLRVLLVQVDVPEPHHALKHLTRICILADLTLMLAWNPEDAGK 161

Query: 174 MIETYKVFENKPPDLIMEKQDVDPHSKTWN 203
           +IETYK++ENKPPD IM++ D  P+ K  N
Sbjct: 162 IIETYKIYENKPPDAIMDRSDTAPYQKLVN 191

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340726144|ref|XP_003401422.1| PREDICTED: DNA excision repair protein ERCC-1-like [Bombus terrestris]

 Score =  198 bits (504), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 90/150 (60%), Positives = 117/150 (78%), Gaps = 6/150 (4%)

Query: 59  PSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHA 118
           PS+  ++   N +LV+ +QKGNPLLK I  VPWE+ + I+PDYVMG+TTCALFLSI+YH 
Sbjct: 42  PSKVTSASKFNTLLVSLKQKGNPLLKFINNVPWEFSE-IVPDYVMGKTTCALFLSIRYHQ 100

Query: 119 LKPDYIADRIKALGKLYKL-----QVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGE 173
           L PDYI +R+KALG +Y L     QVD  +P+HALK+LTR+C+L DLTLMLAW+ E+AG+
Sbjct: 101 LNPDYIHERLKALGNMYNLRVLLVQVDVAEPNHALKHLTRICILADLTLMLAWNAEDAGK 160

Query: 174 MIETYKVFENKPPDLIMEKQDVDPHSKTWN 203
           +IETYK++ENKPPD IME+ D  P+ K  N
Sbjct: 161 IIETYKIYENKPPDAIMERSDTAPYQKLMN 190

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350405231|ref|XP_003487367.1| PREDICTED: DNA excision repair protein ERCC-1-like [Bombus impatiens]

 Score =  197 bits (501), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 90/150 (60%), Positives = 117/150 (78%), Gaps = 6/150 (4%)

Query: 59  PSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHA 118
           PS+  ++   + +LV+ +QKGNPLLK I  VPWE+ + I+PDYVMG+TTCALFLSI+YH 
Sbjct: 42  PSKVTSASKFSTLLVSLKQKGNPLLKFITNVPWEFSE-IVPDYVMGKTTCALFLSIRYHQ 100

Query: 119 LKPDYIADRIKALGKLYKL-----QVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGE 173
           L PDYI +R+KALG +Y L     QVD  +PHHALK+LTR+C+L DLTLMLAW+ E+AG+
Sbjct: 101 LNPDYIHERLKALGNMYNLRVLLVQVDVAEPHHALKHLTRICILADLTLMLAWNAEDAGK 160

Query: 174 MIETYKVFENKPPDLIMEKQDVDPHSKTWN 203
           +IETYK++ENKPPD IME+ D  P+ K  N
Sbjct: 161 IIETYKIYENKPPDAIMERSDTAPYQKLMN 190

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156551812|ref|XP_001603974.1| PREDICTED: DNA excision repair protein ERCC-1-like [Nasonia vitripennis]

 Score =  197 bits (500), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 88/140 (62%), Positives = 111/140 (79%), Gaps = 6/140 (4%)

Query: 69  NAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADRI 128
           N +L+NP+Q+GNPLLKHI  VP+EY + IIPDYV+G+T+C LFLS++YH L PDYI +R+
Sbjct: 59  NPLLINPKQRGNPLLKHITSVPYEYSE-IIPDYVVGKTSCILFLSLRYHQLNPDYIHERL 117

Query: 129 KALGKLYKL-----QVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFEN 183
           K LG  Y L     QVD  +PHH+LK+LTR+C+L DLTLMLAWS EEAG++IETYK +EN
Sbjct: 118 KTLGSSYNLRVLLVQVDVAEPHHSLKHLTRICILADLTLMLAWSAEEAGKIIETYKAYEN 177

Query: 184 KPPDLIMEKQDVDPHSKTWN 203
           KPPD+IME+ D  PH K  N
Sbjct: 178 KPPDMIMERSDTAPHQKLIN 197

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|189241644|ref|XP_970360.2| PREDICTED: similar to excision repair cross-complementing 1 ercc1 [Tribolium castaneum]

 Score =  196 bits (498), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 94/159 (59%), Positives = 119/159 (74%), Gaps = 6/159 (3%)

Query: 47  AAQNSATSESVQPSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRT 106
           A  N   SE   P  + ++  ++++LV+P+Q+GNPLLK I  VPWEYDD I+PDY MGRT
Sbjct: 26  APHNRDNSEGETPQTSKSAARTHSVLVSPKQRGNPLLKSICNVPWEYDD-IVPDYQMGRT 84

Query: 107 TCALFLSIKYHALKPDYIADRIKALGKLYKL-----QVDSKDPHHALKYLTRVCLLCDLT 161
           TCALFLS++YH L PDYI +R+K LGK Y+L     QVD  DPHH LK LTRVC+L DLT
Sbjct: 85  TCALFLSLRYHNLNPDYIHERLKKLGKTYELRILLVQVDVSDPHHLLKNLTRVCILADLT 144

Query: 162 LMLAWSPEEAGEMIETYKVFENKPPDLIMEKQDVDPHSK 200
           L+LAWS EEAG++IETYK++ENKP D IMEK +  P+ +
Sbjct: 145 LILAWSAEEAGKIIETYKIYENKPADNIMEKGESSPYIR 183

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|125807281|ref|XP_001360338.1| GA10163 [Drosophila pseudoobscura pseudoobscura] gi|54635510|gb|EAL24913.1| GA10163 [Drosophila pseudoobscura pseudoobscura]

 Score =  196 bits (497), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 93/174 (53%), Positives = 127/174 (72%), Gaps = 8/174 (4%)

Query: 35  PHSKTWNFDPVPAAQ---NSATSESVQPSRAGASKSSNAILVNPRQKGNPLLKHIGKVPW 91
           P  ++    PVPAA    NS+ + S   + A  + + +++LV+ +Q+GNP+LK I  VP 
Sbjct: 25  PKVQSSTIQPVPAATSTANSSNNTSASITVAKPASNPHSVLVHSKQRGNPILKSIQNVPL 84

Query: 92  EYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADRIKALGKLYKL-----QVDSKDPHH 146
           E+ D I+PDYV+GRT+C LFLS+KYH L PDYI  R+KALGK+Y+L     QVD+ +PH+
Sbjct: 85  EFRDDIVPDYVVGRTSCILFLSLKYHNLNPDYICQRLKALGKMYELRVLLVQVDTPEPHN 144

Query: 147 ALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFENKPPDLIMEKQDVDPHSK 200
           ALK LTR+ LL DLT+MLAW+ EEAG++IETYK FE +PPDLIME+ + +PH K
Sbjct: 145 ALKSLTRISLLADLTMMLAWNAEEAGKIIETYKQFEKRPPDLIMERVESNPHQK 198

Source: Drosophila pseudoobscura pseudoobscura

Species: Drosophila pseudoobscura

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380024818|ref|XP_003696187.1| PREDICTED: DNA excision repair protein ERCC-1-like [Apis florea]

 Score =  195 bits (495), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 90/150 (60%), Positives = 115/150 (76%), Gaps = 6/150 (4%)

Query: 59  PSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHA 118
           PS+   S   + +LV+ +QKGNPLLK I  VPWEY + I+PDYVMG+TTCALFLSI+YH 
Sbjct: 42  PSKVKDSSKFSTLLVSLKQKGNPLLKFISNVPWEYSE-IVPDYVMGKTTCALFLSIRYHQ 100

Query: 119 LKPDYIADRIKALGKLYKL-----QVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGE 173
           L PDYI +R+K LG +Y L     QVD  +PHHALK+LTR+C+L DLTLMLAW+ E+AG+
Sbjct: 101 LNPDYIHERLKTLGNMYNLRVLLVQVDVPEPHHALKHLTRICILADLTLMLAWNAEDAGK 160

Query: 174 MIETYKVFENKPPDLIMEKQDVDPHSKTWN 203
           +IETYK++ENKPPD IM++ D  P+ K  N
Sbjct: 161 IIETYKIYENKPPDAIMDRSDTAPYQKLVN 190

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195149698|ref|XP_002015793.1| GL11250 [Drosophila persimilis] gi|194109640|gb|EDW31683.1| GL11250 [Drosophila persimilis]

 Score =  194 bits (493), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 93/174 (53%), Positives = 126/174 (72%), Gaps = 8/174 (4%)

Query: 35  PHSKTWNFDPVPAAQ---NSATSESVQPSRAGASKSSNAILVNPRQKGNPLLKHIGKVPW 91
           P  +     PVPAA    NS+ + S   + A  + + +++LV+ +Q+GNP+LK I  VP 
Sbjct: 25  PKVQPSTIQPVPAATSTANSSNNTSASITVAKPASNPHSVLVHSKQRGNPILKSIQNVPL 84

Query: 92  EYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADRIKALGKLYKL-----QVDSKDPHH 146
           E+ D I+PDYV+GRT+C LFLS+KYH L PDYI  R+KALGK+Y+L     QVD+ +PH+
Sbjct: 85  EFRDDIVPDYVVGRTSCILFLSLKYHNLNPDYICQRLKALGKMYELRVLLVQVDTPEPHN 144

Query: 147 ALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFENKPPDLIMEKQDVDPHSK 200
           ALK LTR+ LL DLT+MLAW+ EEAG++IETYK FE +PPDLIME+ + +PH K
Sbjct: 145 ALKSLTRISLLADLTMMLAWNAEEAGKIIETYKQFEKRPPDLIMERVESNPHQK 198

Source: Drosophila persimilis

Species: Drosophila persimilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

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	205
FB|FBgn0028434	259	Ercc1 "Ercc1" [Drosophila mela	0.765	0.606	0.547	3.9e-44
UNIPROTKB|F1PPD0	323	ERCC1 "Uncharacterized protein	0.731	0.464	0.540	6.6e-42
ZFIN|ZDB-GENE-040426-2606	342	ercc1 "excision repair cross-c	0.712	0.426	0.529	5.9e-41
UNIPROTKB|Q1LZ75	294	ERCC1 "DNA excision repair pro	0.712	0.496	0.531	1.2e-40
UNIPROTKB|K7EP14	258	ERCC1 "DNA excision repair pro	0.663	0.527	0.569	3.3e-40
UNIPROTKB|K7ER89	234	ERCC1 "DNA excision repair pro	0.663	0.581	0.569	3.3e-40
UNIPROTKB|P07992	297	ERCC1 "DNA excision repair pro	0.663	0.457	0.569	3.3e-40
UNIPROTKB|Q6UIQ5	251	ERCC1 "Excision repair protein	0.663	0.541	0.569	3.3e-40
MGI|MGI:95412	298	Ercc1 "excision repair cross-c	0.707	0.486	0.538	6.8e-40
RGD|1306992	298	Ercc1 "excision repair cross-c	0.712	0.489	0.529	6.8e-40

FB|FBgn0028434 Ercc1 "Ercc1" [Drosophila melanogaster (taxid:7227)]

 Score = 465 (168.7 bits), Expect = 3.9e-44, P = 3.9e-44
 Identities = 92/168 (54%), Positives = 122/168 (72%)

Query:    44 PVPAAQNSATSESVQPSRAG----ASKSSN--AILVNPRQKGNPLLKHIGKVPWEYDDSI 97
             P   A N A S S +PS +G       +SN   +LV+ +Q+GNP+LK I  VP E+ D I
Sbjct:    30 PAATAVNPAPSNSTEPSGSGRPAPGKPASNPHCVLVHSKQRGNPILKSILNVPLEFRDDI 89

Query:    98 IPDYVMGRTTCALFLSIKYHALKPDYIADRIKALGKLYKL-----QVDSKDPHHALKYLT 152
             +PDYV+GRT+C L+LS+KYH L PDYI  R+KALGK+Y+L     QVD+ +P++ALK LT
Sbjct:    90 VPDYVVGRTSCVLYLSLKYHNLNPDYICQRLKALGKMYELRVLLVQVDTPEPNNALKSLT 149

Query:   153 RVCLLCDLTLMLAWSPEEAGEMIETYKVFENKPPDLIMEKQDVDPHSK 200
             R+ LL DLT+MLAW+ EEAG++IETYK FE +PPDLIME+ + +PH K
Sbjct:   150 RISLLADLTMMLAWNAEEAGKIIETYKQFEKRPPDLIMERVESNPHQK 197

GO:0000014 "single-stranded DNA specific endodeoxyribonuclease activity" evidence=ISS

GO:0006296 "nucleotide-excision repair, DNA incision, 5'-to lesion" evidence=ISS

GO:0046982 "protein heterodimerization activity" evidence=IPI

GO:0005515 "protein binding" evidence=IPI

GO:0003684 "damaged DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006289 "nucleotide-excision repair" evidence=IMP

GO:0043234 "protein complex" evidence=IDA

GO:0007131 "reciprocal meiotic recombination" evidence=IMP

GO:0048812 "neuron projection morphogenesis" evidence=IMP

UNIPROTKB|F1PPD0 ERCC1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 444 (161.4 bits), Expect = 6.6e-42, P = 6.6e-42
 Identities = 86/159 (54%), Positives = 115/159 (72%)

Query:    44 PVPAAQNSATSESV-QPSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYV 102
             P P      T E+  Q S+ GA   SN+I+V+PRQ+GNP+LK +  VPWE+ D ++PDYV
Sbjct:    75 PHPTGPEPLTGETPNQASKPGAK--SNSIIVSPRQRGNPVLKFVRNVPWEFGD-VLPDYV 131

Query:   103 MGRTTCALFLSIKYHALKPDYIADRIKALGKLYKL-----QVDSKDPHHALKYLTRVCLL 157
             +G++TCALFLS++YH L PDYI +R+++LGK + L     QVD KDP  ALK L ++C+L
Sbjct:   132 LGQSTCALFLSLRYHNLHPDYIHERLQSLGKSFALRVLLVQVDVKDPQQALKELAKMCIL 191

Query:   158 CDLTLMLAWSPEEAGEMIETYKVFENKPPDLIMEKQDVD 196
              D TL+LAWSPEEAG  +ETYK +E KP DL+MEK + D
Sbjct:   192 ADCTLVLAWSPEEAGRYLETYKAYEQKPADLLMEKLEQD 230

GO:0006281 "DNA repair" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0004519 "endonuclease activity" evidence=IEA

GO:0003684 "damaged DNA binding" evidence=IEA

ZFIN|ZDB-GENE-040426-2606 ercc1 "excision repair cross-complementing rodent repair deficiency, complementation group 1" [Danio rerio (taxid:7955)]

 Score = 435 (158.2 bits), Expect = 5.9e-41, P = 5.9e-41
 Identities = 82/155 (52%), Positives = 110/155 (70%)

Query:    43 DPVPAAQNSATSESVQPSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYV 102
             D       S+ S  V P   G   S N+I+V+PRQ+GNP+LK +  VPWE+ + ++PDYV
Sbjct:   117 DQTKGEGQSSESFVVPPHLLG---SGNSIIVSPRQRGNPILKFVRNVPWEFGE-VVPDYV 172

Query:   103 MGRTTCALFLSIKYHALKPDYIADRIKALGKLYKL-----QVDSKDPHHALKYLTRVCLL 157
             +GRTTCALFLS++YH L P+Y+ +R+K LG+ + L     QVD KDPHHALK L R+C++
Sbjct:   173 LGRTTCALFLSVRYHNLNPNYVHERLKQLGQSFSLRILLVQVDVKDPHHALKELARICIM 232

Query:   158 CDLTLMLAWSPEEAGEMIETYKVFENKPPDLIMEK 192
              D TL+LAWSPEEAG  +ETYK +E KP DL+ E+
Sbjct:   233 ADCTLILAWSPEEAGRYLETYKSYEKKPADLLKEQ 267

GO:0003677 "DNA binding" evidence=IEA

GO:0004519 "endonuclease activity" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003684 "damaged DNA binding" evidence=IEA

UNIPROTKB|Q1LZ75 ERCC1 "DNA excision repair protein ERCC-1" [Bos taurus (taxid:9913)]

 Score = 432 (157.1 bits), Expect = 1.2e-40, P = 1.2e-40
 Identities = 84/158 (53%), Positives = 113/158 (71%)

Query:    44 PVPAAQNSATSESVQPSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVM 103
             P P A+ +      Q  + GA   SN+I+V+PRQ+GNP+L+ +  VPWE+ D ++PDYV+
Sbjct:    76 PEPLAEETPN----QAPKPGAK--SNSIIVSPRQRGNPVLRFVRNVPWEFGD-VLPDYVL 128

Query:   104 GRTTCALFLSIKYHALKPDYIADRIKALGKLYKL-----QVDSKDPHHALKYLTRVCLLC 158
             G++TCALFLS++YH L PDYI  R+++LGK Y L     QVD KDP  ALK L ++C+L 
Sbjct:   129 GQSTCALFLSLRYHNLHPDYIHQRLQSLGKSYALRVLLVQVDVKDPQQALKELAKMCILA 188

Query:   159 DLTLMLAWSPEEAGEMIETYKVFENKPPDLIMEKQDVD 196
             D TL+LAWSPEEAG  +ETYK +E KP DL+MEK + D
Sbjct:   189 DCTLILAWSPEEAGRYLETYKAYEQKPADLLMEKLEQD 226

GO:0006295 "nucleotide-excision repair, DNA incision, 3'-to lesion" evidence=ISS

GO:0003684 "damaged DNA binding" evidence=ISS

GO:0008022 "protein C-terminus binding" evidence=ISS

GO:0006979 "response to oxidative stress" evidence=ISS

GO:0006312 "mitotic recombination" evidence=ISS

GO:0006296 "nucleotide-excision repair, DNA incision, 5'-to lesion" evidence=ISS

GO:0003697 "single-stranded DNA binding" evidence=ISS

GO:0000109 "nucleotide-excision repair complex" evidence=ISS

GO:0000014 "single-stranded DNA specific endodeoxyribonuclease activity" evidence=ISS

GO:0000784 "nuclear chromosome, telomeric region" evidence=ISS

GO:0043566 "structure-specific DNA binding" evidence=ISS

GO:0032205 "negative regulation of telomere maintenance" evidence=ISS

GO:0051276 "chromosome organization" evidence=IEA

GO:0048477 "oogenesis" evidence=IEA

GO:0045190 "isotype switching" evidence=IEA

GO:0043066 "negative regulation of apoptotic process" evidence=IEA

GO:0035264 "multicellular organism growth" evidence=IEA

GO:0035166 "post-embryonic hemopoiesis" evidence=IEA

GO:0019904 "protein domain specific binding" evidence=IEA

GO:0010259 "multicellular organismal aging" evidence=IEA

GO:0010165 "response to X-ray" evidence=IEA

GO:0009650 "UV protection" evidence=IEA

GO:0008584 "male gonad development" evidence=IEA

GO:0008283 "cell proliferation" evidence=IEA

GO:0007283 "spermatogenesis" evidence=IEA

GO:0007281 "germ cell development" evidence=IEA

GO:0006949 "syncytium formation" evidence=IEA

GO:0006302 "double-strand break repair" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0001302 "replicative cell aging" evidence=IEA

GO:0000720 "pyrimidine dimer repair by nucleotide-excision repair" evidence=IEA

UNIPROTKB|K7EP14 ERCC1 "DNA excision repair protein ERCC-1" [Homo sapiens (taxid:9606)]

 Score = 428 (155.7 bits), Expect = 3.3e-40, P = 3.3e-40
 Identities = 82/144 (56%), Positives = 108/144 (75%)

Query:    58 QPSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYH 117
             Q  + GA   SN+I+V+PRQ+GNP+LK +  VPWE+ D +IPDYV+G++TCALFLS++YH
Sbjct:    90 QALKPGAK--SNSIIVSPRQRGNPVLKFVRNVPWEFGD-VIPDYVLGQSTCALFLSLRYH 146

Query:   118 ALKPDYIADRIKALGKLYKL-----QVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAG 172
              L PDYI  R+++LGK + L     QVD KDP  ALK L ++C+L D TL+LAWSPEEAG
Sbjct:   147 NLHPDYIHGRLQSLGKNFALRVLLVQVDVKDPQQALKELAKMCILADCTLILAWSPEEAG 206

Query:   173 EMIETYKVFENKPPDLIMEKQDVD 196
               +ETYK +E KP DL+MEK + D
Sbjct:   207 RYLETYKAYEQKPADLLMEKLEQD 230

GO:0003684 "damaged DNA binding" evidence=IEA

GO:0004519 "endonuclease activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

UNIPROTKB|K7ER89 ERCC1 "DNA excision repair protein ERCC-1" [Homo sapiens (taxid:9606)]

 Score = 428 (155.7 bits), Expect = 3.3e-40, P = 3.3e-40
 Identities = 82/144 (56%), Positives = 108/144 (75%)

Query:    58 QPSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYH 117
             Q  + GA   SN+I+V+PRQ+GNP+LK +  VPWE+ D +IPDYV+G++TCALFLS++YH
Sbjct:    90 QALKPGAK--SNSIIVSPRQRGNPVLKFVRNVPWEFGD-VIPDYVLGQSTCALFLSLRYH 146

Query:   118 ALKPDYIADRIKALGKLYKL-----QVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAG 172
              L PDYI  R+++LGK + L     QVD KDP  ALK L ++C+L D TL+LAWSPEEAG
Sbjct:   147 NLHPDYIHGRLQSLGKNFALRVLLVQVDVKDPQQALKELAKMCILADCTLILAWSPEEAG 206

Query:   173 EMIETYKVFENKPPDLIMEKQDVD 196
               +ETYK +E KP DL+MEK + D
Sbjct:   207 RYLETYKAYEQKPADLLMEKLEQD 230

GO:0003684 "damaged DNA binding" evidence=IEA

GO:0004519 "endonuclease activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

UNIPROTKB|P07992 ERCC1 "DNA excision repair protein ERCC-1" [Homo sapiens (taxid:9606)]

 Score = 428 (155.7 bits), Expect = 3.3e-40, P = 3.3e-40
 Identities = 82/144 (56%), Positives = 108/144 (75%)

Query:    58 QPSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYH 117
             Q  + GA   SN+I+V+PRQ+GNP+LK +  VPWE+ D +IPDYV+G++TCALFLS++YH
Sbjct:    90 QALKPGAK--SNSIIVSPRQRGNPVLKFVRNVPWEFGD-VIPDYVLGQSTCALFLSLRYH 146

Query:   118 ALKPDYIADRIKALGKLYKL-----QVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAG 172
              L PDYI  R+++LGK + L     QVD KDP  ALK L ++C+L D TL+LAWSPEEAG
Sbjct:   147 NLHPDYIHGRLQSLGKNFALRVLLVQVDVKDPQQALKELAKMCILADCTLILAWSPEEAG 206

Query:   173 EMIETYKVFENKPPDLIMEKQDVD 196
               +ETYK +E KP DL+MEK + D
Sbjct:   207 RYLETYKAYEQKPADLLMEKLEQD 230

GO:0000720 "pyrimidine dimer repair by nucleotide-excision repair" evidence=IEA

GO:0001302 "replicative cell aging" evidence=IEA

GO:0006302 "double-strand break repair" evidence=IEA

GO:0006949 "syncytium formation" evidence=IEA

GO:0007281 "germ cell development" evidence=IEA

GO:0007283 "spermatogenesis" evidence=IEA

GO:0007584 "response to nutrient" evidence=IEA

GO:0008283 "cell proliferation" evidence=IEA

GO:0008584 "male gonad development" evidence=IEA

GO:0009650 "UV protection" evidence=IEA

GO:0009744 "response to sucrose stimulus" evidence=IEA

GO:0010165 "response to X-ray" evidence=IEA

GO:0010259 "multicellular organismal aging" evidence=IEA

GO:0035166 "post-embryonic hemopoiesis" evidence=IEA

GO:0035264 "multicellular organism growth" evidence=IEA

GO:0043066 "negative regulation of apoptotic process" evidence=IEA

GO:0045190 "isotype switching" evidence=IEA

GO:0048477 "oogenesis" evidence=IEA

GO:0048568 "embryonic organ development" evidence=IEA

GO:0051276 "chromosome organization" evidence=IEA

GO:0000784 "nuclear chromosome, telomeric region" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0043566 "structure-specific DNA binding" evidence=IDA

GO:0032205 "negative regulation of telomere maintenance" evidence=IMP

GO:0006296 "nucleotide-excision repair, DNA incision, 5'-to lesion" evidence=IMP

GO:0006295 "nucleotide-excision repair, DNA incision, 3'-to lesion" evidence=IMP

GO:0006312 "mitotic recombination" evidence=IMP

GO:0008022 "protein C-terminus binding" evidence=IPI

GO:0000014 "single-stranded DNA specific endodeoxyribonuclease activity" evidence=IDA

GO:0000109 "nucleotide-excision repair complex" evidence=IDA

GO:0003697 "single-stranded DNA binding" evidence=IDA

GO:0006979 "response to oxidative stress" evidence=IMP

GO:0003684 "damaged DNA binding" evidence=IDA

GO:0019904 "protein domain specific binding" evidence=IPI

GO:0006289 "nucleotide-excision repair" evidence=IGI;IDA;TAS

GO:0006310 "DNA recombination" evidence=IGI

GO:0000718 "nucleotide-excision repair, DNA damage removal" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006281 "DNA repair" evidence=TAS

GO:0006283 "transcription-coupled nucleotide-excision repair" evidence=TAS

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|Q6UIQ5 ERCC1 "Excision repair protein" [Pan troglodytes (taxid:9598)]

 Score = 428 (155.7 bits), Expect = 3.3e-40, P = 3.3e-40
 Identities = 82/144 (56%), Positives = 108/144 (75%)

Query:    58 QPSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYH 117
             Q  + GA   SN+I+V+PRQ+GNP+LK +  VPWE+ D +IPDYV+G++TCALFLS++YH
Sbjct:    47 QALKPGAK--SNSIIVSPRQRGNPVLKFVRNVPWEFGD-VIPDYVLGQSTCALFLSLRYH 103

Query:   118 ALKPDYIADRIKALGKLYKL-----QVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAG 172
              L PDYI  R+++LGK + L     QVD KDP  ALK L ++C+L D TL+LAWSPEEAG
Sbjct:   104 NLHPDYIHGRLQSLGKNFALRVLLVQVDVKDPQQALKELAKMCILADCTLILAWSPEEAG 163

Query:   173 EMIETYKVFENKPPDLIMEKQDVD 196
               +ETYK +E KP DL+MEK + D
Sbjct:   164 RYLETYKAYEQKPADLLMEKLEQD 187

GO:0000109 "nucleotide-excision repair complex" evidence=ISS

GO:0000784 "nuclear chromosome, telomeric region" evidence=ISS

GO:0003684 "damaged DNA binding" evidence=ISS

GO:0003697 "single-stranded DNA binding" evidence=ISS

GO:0006295 "nucleotide-excision repair, DNA incision, 3'-to lesion" evidence=ISS

GO:0006296 "nucleotide-excision repair, DNA incision, 5'-to lesion" evidence=ISS

GO:0006312 "mitotic recombination" evidence=ISS

GO:0006979 "response to oxidative stress" evidence=ISS

GO:0008022 "protein C-terminus binding" evidence=ISS

GO:0032205 "negative regulation of telomere maintenance" evidence=ISS

GO:0000014 "single-stranded DNA specific endodeoxyribonuclease activity" evidence=ISS

GO:0043566 "structure-specific DNA binding" evidence=ISS

MGI|MGI:95412 Ercc1 "excision repair cross-complementing rodent repair deficiency, complementation group 1" [Mus musculus (taxid:10090)]

 Score = 425 (154.7 bits), Expect = 6.8e-40, P = 6.8e-40
 Identities = 83/154 (53%), Positives = 111/154 (72%)

Query:    45 VPAAQNSATSESV-QPSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVM 103
             VP     A  E+  Q  + GA   SN+I+V+PRQ+GNP+LK +  VPWE+ + +IPDYV+
Sbjct:    76 VPTGSEPAAGENPSQTLKTGAK--SNSIIVSPRQRGNPVLKFVRNVPWEFGE-VIPDYVL 132

Query:   104 GRTTCALFLSIKYHALKPDYIADRIKALGKLYKL-----QVDSKDPHHALKYLTRVCLLC 158
             G++TCALFLS++YH L PDYI +R+++LGK + L     QVD KDP  ALK L ++C+L 
Sbjct:   133 GQSTCALFLSLRYHNLHPDYIHERLQSLGKNFALRVLLVQVDVKDPQQALKELAKMCILA 192

Query:   159 DLTLMLAWSPEEAGEMIETYKVFENKPPDLIMEK 192
             D TL+LAWS EEAG  +ETYK +E KP DL+MEK
Sbjct:   193 DCTLVLAWSAEEAGRYLETYKAYEQKPADLLMEK 226

GO:0000109 "nucleotide-excision repair complex" evidence=ISO

GO:0000720 "pyrimidine dimer repair by nucleotide-excision repair" evidence=IMP

GO:0000784 "nuclear chromosome, telomeric region" evidence=ISO

GO:0001094 "TFIID-class transcription factor binding" evidence=IDA

GO:0001302 "replicative cell aging" evidence=IMP

GO:0003677 "DNA binding" evidence=IEA

GO:0003684 "damaged DNA binding" evidence=ISO

GO:0003697 "single-stranded DNA binding" evidence=ISO

GO:0004518 "nuclease activity" evidence=IEA

GO:0004519 "endonuclease activity" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=ISO

GO:0005669 "transcription factor TFIID complex" evidence=IDA

GO:0006281 "DNA repair" evidence=IMP

GO:0006289 "nucleotide-excision repair" evidence=ISO;IMP

GO:0006295 "nucleotide-excision repair, DNA incision, 3'-to lesion" evidence=ISO

GO:0006296 "nucleotide-excision repair, DNA incision, 5'-to lesion" evidence=ISO

GO:0006302 "double-strand break repair" evidence=IMP

GO:0006310 "DNA recombination" evidence=ISO;IMP

GO:0006312 "mitotic recombination" evidence=ISO

GO:0006949 "syncytium formation" evidence=IMP

GO:0006974 "response to DNA damage stimulus" evidence=IMP

GO:0006979 "response to oxidative stress" evidence=ISO

GO:0007281 "germ cell development" evidence=IMP

GO:0007283 "spermatogenesis" evidence=IMP

GO:0008022 "protein C-terminus binding" evidence=ISO

GO:0008283 "cell proliferation" evidence=IMP

GO:0008584 "male gonad development" evidence=IMP

GO:0009650 "UV protection" evidence=IMP

GO:0010165 "response to X-ray" evidence=IMP

GO:0010259 "multicellular organismal aging" evidence=IMP

GO:0016787 "hydrolase activity" evidence=IEA

GO:0017025 "TBP-class protein binding" evidence=IPI

GO:0019904 "protein domain specific binding" evidence=ISO

GO:0032205 "negative regulation of telomere maintenance" evidence=ISO

GO:0035166 "post-embryonic hemopoiesis" evidence=IMP

GO:0035264 "multicellular organism growth" evidence=IGI;IMP

GO:0043066 "negative regulation of apoptotic process" evidence=IMP

GO:0045190 "isotype switching" evidence=IMP

GO:0048468 "cell development" evidence=IMP

GO:0048477 "oogenesis" evidence=IMP

GO:0051276 "chromosome organization" evidence=IMP

RGD|1306992 Ercc1 "excision repair cross-complementing rodent repair deficiency, complementation group 1" [Rattus norvegicus (taxid:10116)]

 Score = 425 (154.7 bits), Expect = 6.8e-40, P = 6.8e-40
 Identities = 81/153 (52%), Positives = 110/153 (71%)

Query:    45 VPAAQNSATSESVQPSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMG 104
             VP     AT +S   +    +KSS+ I+V+PRQ+GNP+LK +  VPWE+ + + PDYV+G
Sbjct:    76 VPTGSEPATGDSPSQTLKAGTKSSS-IIVSPRQRGNPVLKFVRSVPWEFGE-VTPDYVLG 133

Query:   105 RTTCALFLSIKYHALKPDYIADRIKALGKLYKL-----QVDSKDPHHALKYLTRVCLLCD 159
             ++TCALFLS++YH L PDYI +R+++LGK + L     QVD KDP  ALK L ++C+L D
Sbjct:   134 QSTCALFLSLRYHNLHPDYIHERLQSLGKNFALRVLLVQVDVKDPQQALKELAKICILAD 193

Query:   160 LTLMLAWSPEEAGEMIETYKVFENKPPDLIMEK 192
              TL+LAWS EEAG  +ETYK +E KP DL+MEK
Sbjct:   194 CTLVLAWSAEEAGRYLETYKAYEQKPADLLMEK 226

GO:0000014 "single-stranded DNA specific endodeoxyribonuclease activity" evidence=IEA;ISO

GO:0000109 "nucleotide-excision repair complex" evidence=IEA;ISO

GO:0000720 "pyrimidine dimer repair by nucleotide-excision repair" evidence=IEA;ISO

GO:0000784 "nuclear chromosome, telomeric region" evidence=IEA;ISO

GO:0001094 "TFIID-class transcription factor binding" evidence=ISO

GO:0001302 "replicative cell aging" evidence=IEA;ISO

GO:0003674 "molecular_function" evidence=ND

GO:0003684 "damaged DNA binding" evidence=IEA;ISO

GO:0003697 "single-stranded DNA binding" evidence=IEA;ISO

GO:0005634 "nucleus" evidence=ISO;IDA

GO:0005669 "transcription factor TFIID complex" evidence=ISO

GO:0005737 "cytoplasm" evidence=IEA;ISO

GO:0006281 "DNA repair" evidence=ISO

GO:0006289 "nucleotide-excision repair" evidence=ISO

GO:0006295 "nucleotide-excision repair, DNA incision, 3'-to lesion" evidence=IEA;ISO

GO:0006296 "nucleotide-excision repair, DNA incision, 5'-to lesion" evidence=IEA;ISO

GO:0006302 "double-strand break repair" evidence=IEA;ISO

GO:0006310 "DNA recombination" evidence=ISO

GO:0006312 "mitotic recombination" evidence=IEA;ISO

GO:0006949 "syncytium formation" evidence=IEA;ISO

GO:0006974 "response to DNA damage stimulus" evidence=ISO

GO:0006979 "response to oxidative stress" evidence=IEA;ISO

GO:0007281 "germ cell development" evidence=IEA;ISO

GO:0007283 "spermatogenesis" evidence=IEA;ISO

GO:0007584 "response to nutrient" evidence=IEP

GO:0008022 "protein C-terminus binding" evidence=IEA;ISO

GO:0008283 "cell proliferation" evidence=IEA;ISO

GO:0008584 "male gonad development" evidence=IEA;ISO

GO:0009628 "response to abiotic stimulus" evidence=IEP

GO:0009650 "UV protection" evidence=IEA;ISO

GO:0009744 "response to sucrose stimulus" evidence=IEP

GO:0010165 "response to X-ray" evidence=IEA;ISO

GO:0010259 "multicellular organismal aging" evidence=IEA;ISO

GO:0017025 "TBP-class protein binding" evidence=ISO

GO:0019904 "protein domain specific binding" evidence=IEA;ISO

GO:0032205 "negative regulation of telomere maintenance" evidence=IEA;ISO

GO:0035166 "post-embryonic hemopoiesis" evidence=IEA;ISO

GO:0035264 "multicellular organism growth" evidence=IEA;ISO

GO:0043066 "negative regulation of apoptotic process" evidence=IEA;ISO

GO:0045190 "isotype switching" evidence=IEA;ISO

GO:0048468 "cell development" evidence=ISO

GO:0048477 "oogenesis" evidence=IEA;ISO

GO:0048568 "embryonic organ development" evidence=IEP

GO:0051276 "chromosome organization" evidence=IEA;ISO

GO:0005730 "nucleolus" evidence=ISO

GO:0043566 "structure-specific DNA binding" evidence=ISO

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q1LZ75	ERCC1_BOVIN	No assigned EC number	0.5820	0.6243	0.4353	yes	N/A
P07903	ERCC1_MOUSE	No assigned EC number	0.5389	0.7073	0.4865	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	205
TIGR00597	112	TIGR00597, rad10, DNA repair protein rad10	2e-45
pfam03834	68	pfam03834, Rad10, Binding domain of DNA repair pro	2e-34
COG5241	224	COG5241, RAD10, Nucleotide excision repair endonuc	6e-32
COG5241	224	COG5241, RAD10, Nucleotide excision repair endonuc	0.003

>gnl|CDD|129685 TIGR00597, rad10, DNA repair protein rad10

 Score =  146 bits (369), Expect = 2e-45
 Identities = 69/113 (61%), Positives = 86/113 (76%), Gaps = 6/113 (5%)

Query: 69  NAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADRI 128
           N+ILVNPRQKGNPLLKH+  VPWEY D +IPDYV+G+ TCALFLS++YH L PDYI  R+
Sbjct: 1   NSILVNPRQKGNPLLKHVRNVPWEYGD-VIPDYVLGQGTCALFLSLRYHNLHPDYIHRRL 59

Query: 129 KALGKLYKL-----QVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIE 176
           ++LGK + L     QVD K+P  ALK L ++C+L D TL+LAWS EEA   +E
Sbjct: 60  QSLGKNFNLRILLVQVDVKNPQQALKELAKMCILNDCTLILAWSFEEAARYLE 112

All proteins in this family for which functions are known are components in a multiprotein endonuclease complex (usually made up of Rad1 and Rad10 homologs). This complex is used primarily for nucleotide excision repair but also for some aspects of recombination repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 112

>gnl|CDD|190768 pfam03834, Rad10, Binding domain of DNA repair protein Ercc1 (rad10/Swi10)

 Score =  116 bits (294), Expect = 2e-34
 Identities = 45/69 (65%), Positives = 55/69 (79%), Gaps = 1/69 (1%)

Query: 69  NAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADRI 128
           ++ILV+PRQKGNPLLKH+  VPWEY D I+PDYV+G+T C LFLS+KYH L P+YI  R+
Sbjct: 1   SSILVSPRQKGNPLLKHLKNVPWEYSD-IVPDYVVGKTRCVLFLSLKYHRLHPEYIYTRL 59

Query: 129 KALGKLYKL 137
           K L K Y L
Sbjct: 60  KKLQKNYNL 68

Ercc1 and XPF (xeroderma pigmentosum group F-complementing protein) are two structure-specific endonucleases of a class of seven containing an ERCC4 domain. Together they form an obligate complex that functions primarily in nucleotide excision repair (NER), a versatile pathway able to detect and remove a variety of DNA lesions induced by UV light and environmental carcinogens, and secondarily in DNA interstrand cross-link repair and telomere maintenance. This domain in fact binds simultaneously to both XPF and single-stranded DNA; this ternary complex explains the important role of Ercc1 in targeting its catalytic XPF partner to the NER pre-incision complex. Length = 68

>gnl|CDD|227566 COG5241, RAD10, Nucleotide excision repair endonuclease NEF1, RAD10 subunit [DNA replication, recombination, and repair]

 Score =  115 bits (288), Expect = 6e-32
 Identities = 48/164 (29%), Positives = 72/164 (43%), Gaps = 11/164 (6%)

Query: 41  NFDPVPAAQNSATSESVQPSRAGASKS---SNAILVNPRQKGNPLLKHIGKVPWEYDDSI 97
           N DP       A    ++  ++GA  +   S  I V+P QKGNP L       W Y+  I
Sbjct: 3   NTDPTSFESILAGVAKLRKEKSGADTTGSQSLEIDVSPLQKGNPQLSRRINSNWVYNAFI 62

Query: 98  IPDYVMGRTTCALFLSIKYHALKPDYIADRIKALGKLYKLQ-----VDSKDPHHALKYLT 152
            PD         LFLS+++H+ +P+YI  RI  L K YK +     VDS +   +++ L 
Sbjct: 63  KPDEWTDSKATDLFLSLRFHSTRPEYIVLRISKL-KSYKERPLLNHVDSTNWRASIQELV 121

Query: 153 RVCLLCDLTLMLAWSPEEAGEMIETYKVFENKPPDLIMEKQDVD 196
               +   T+ L +S EE      T    +     +I   Q +D
Sbjct: 122 STTGIN--TIYLDYSVEERSRYFLTLTYHKLYSDYIIRRMQSLD 163

Length = 224

>gnl|CDD|227566 COG5241, RAD10, Nucleotide excision repair endonuclease NEF1, RAD10 subunit [DNA replication, recombination, and repair]

 Score = 36.9 bits (85), Expect = 0.003
 Identities = 8/33 (24%), Positives = 12/33 (36%)

Query: 2   LAWSPEEAGEMIETYKVFENKPPDLIMEKQDVD 34
           L +S EE      T    +     +I   Q +D
Sbjct: 131 LDYSVEERSRYFLTLTYHKLYSDYIIRRMQSLD 163

Length = 224

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	205
KOG2841|consensus	254		100.0
TIGR00597	112	rad10 DNA repair protein rad10. All proteins in th	100.0
PF03834	69	Rad10: Binding domain of DNA repair protein Ercc1	100.0
COG5241	224	RAD10 Nucleotide excision repair endonuclease NEF1	100.0
KOG2841|consensus	254		99.27
COG5241	224	RAD10 Nucleotide excision repair endonuclease NEF1	98.84
PRK13766	773	Hef nuclease; Provisional	96.95
PF07279	218	DUF1442: Protein of unknown function (DUF1442); In	80.79

>KOG2841|consensus

Probab=100.00  E-value=1e-54  Score=376.35  Aligned_cols=142  Identities=57%  Similarity=0.952  Sum_probs=136.3

Q ss_pred             CCCCCCCeEEeCCcccCCcccccccccceeecCCCCcceeecCceeEEEEeecccccChhHHHHHHHhhcccceE-----
Q psy15374         63 GASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADRIKALGKLYKL-----  137 (205)
Q Consensus        63 ~~~~~~~~I~Vs~~QkGNPlL~~i~~vpwe~~d~i~~Dy~ig~~~~vLFLSLkyH~L~P~YI~~Ri~~L~~~y~l-----  137 (205)
                      ++..+++.|+||++|||||||+|||||+|+|+|+|.|||++|+++||||||||||++|||||++||++|+++|.+     
T Consensus        50 ~~~~~~~~Ilvn~rQkGNplLk~vrnv~w~f~ddi~PDf~lg~~~cvLyLSl~yH~l~pdYi~~Ri~~l~k~yk~~VLl~  129 (254)
T KOG2841|consen   50 PVTVPGGHILVNPRQKGNPLLKHVRNVKWEFGDDIIPDFVLGRGCCVLYLSLKYHKLHPDYIYRRIRKLGKNYKLRVLLV  129 (254)
T ss_pred             CCCCCCceEEeccccccChHHHHHhcCCeEecCCCCcceEecCceEEEEeehHhhhcCcHHHHHHHHHhcccccceEEEE
Confidence            445789999999999999999999999999998899999999999999999999999999999999999999863     


Q ss_pred             EEcCCChHHHHHHHHHHHHhcCcEEEeecChHHHHHHHHHHHhhhCCCcchhccccCCCcccccccC
Q psy15374        138 QVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFENKPPDLIMEKQDVDPHSKTWNF  204 (205)
Q Consensus       138 ~VDv~d~~~~L~eL~~~c~~~~~TLilawS~eEaa~Yie~~K~~e~k~~d~i~~~~~~d~~s~~~~~  204 (205)
                      +||++|++++|+||+++|+.++|||+||||.||||+|||+||.||++|+|+||++.+.||++++..|
T Consensus       130 ~vd~~e~~~~l~el~k~~~l~~~Tl~lA~s~EeaaryIE~~k~~ek~p~dli~~~~~~d~ls~~~~~  196 (254)
T KOG2841|consen  130 HVDMEEPYKPLLELTKTCDLNDVTLVLAWSMEEAARYIETYKEYEKKPIDLIMERKDRDLLSSLLGF  196 (254)
T ss_pred             EecCcchHHHHHHHHHHHHhhceeeeeeccHHHHHHHHHHHHHhhcCCchhhhhcccccHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999987654

>TIGR00597 rad10 DNA repair protein rad10

Probab=100.00  E-value=1.4e-54  Score=339.91  Aligned_cols=107  Identities=64%  Similarity=1.166  Sum_probs=104.1

Q ss_pred             CeEEeCCcccCCcccccccccceeecCCCCcceeecCceeEEEEeecccccChhHHHHHHHhhcccceE-----EEcCCC
Q psy15374         69 NAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADRIKALGKLYKL-----QVDSKD  143 (205)
Q Consensus        69 ~~I~Vs~~QkGNPlL~~i~~vpwe~~d~i~~Dy~ig~~~~vLFLSLkyH~L~P~YI~~Ri~~L~~~y~l-----~VDv~d  143 (205)
                      ++|+||++|||||+|++||||||||+| |+|||++|+++||||||||||+||||||++||++|+++|.+     +||++|
T Consensus         1 ~~ilvs~~QkgNPlL~~i~nv~wey~d-i~~Dy~~g~~~~vLFLSLkYH~L~peYi~~Ri~~L~~~~~lrvLL~~VDv~~   79 (112)
T TIGR00597         1 NSILVNPRQKGNPLLKHVRNVPWEYGD-VIPDYVLGQGTCALFLSLRYHNLHPDYIHRRLQSLGKNFNLRILLVQVDVKN   79 (112)
T ss_pred             CcEEeCccccCChHHHHHhcCCeEecC-cCCCEEEcCccEEEEEEhhhhccCHHHHHHHHHHhccccceeEEEEEEeCCc
Confidence            579999999999999999999999986 99999999999999999999999999999999999999864     999999


Q ss_pred             hHHHHHHHHHHHHhcCcEEEeecChHHHHHHHH
Q psy15374        144 PHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIE  176 (205)
Q Consensus       144 ~~~~L~eL~~~c~~~~~TLilawS~eEaa~Yie  176 (205)
                      ++++|+||+++|+.+|||||||||+||||||||
T Consensus        80 ~~~~L~eL~k~~~~~~~TLilaws~eEaa~YlE  112 (112)
T TIGR00597        80 PQQALKELAKMCILNDCTLILAWSFEEAARYLE  112 (112)
T ss_pred             hHHHHHHHHHHHHHcCcEEEEECCHHHHHHhhC
Confidence            999999999999999999999999999999997

All proteins in this family for which functions are known are components in a multiprotein endonuclease complex (usually made up of Rad1 and Rad10 homologs). This complex is used primarily for nucleotide excision repair but also for some aspects of recombination repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PF03834 Rad10: Binding domain of DNA repair protein Ercc1 (rad10/Swi10); InterPro: IPR004579 All proteins in this family for which functions are known are components in a multiprotein endonuclease complex (usually made up of Rad1 and Rad10 homologs)

Probab=100.00  E-value=1.9e-37  Score=224.65  Aligned_cols=69  Identities=74%  Similarity=1.325  Sum_probs=57.5

Q ss_pred             CeEEeCCcccCCcccccccccceeecCCCCcceeecCceeEEEEeecccccChhHHHHHHHhhcccceE
Q psy15374         69 NAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADRIKALGKLYKL  137 (205)
Q Consensus        69 ~~I~Vs~~QkGNPlL~~i~~vpwe~~d~i~~Dy~ig~~~~vLFLSLkyH~L~P~YI~~Ri~~L~~~y~l  137 (205)
                      ++|+||++|||||||++|+||||||+++|+|||++|+++||||||||||+|||+||++||++|+++|.+
T Consensus         1 ~~I~vn~~QkGNplL~~i~nv~we~~~~i~~Dy~vg~~~~vLFLSLkYH~L~P~YI~~Ri~~L~~~~~~   69 (69)
T PF03834_consen    1 NSILVNPRQKGNPLLKHIRNVPWEYDSDIVPDYVVGSTTCVLFLSLKYHRLHPEYIHERIKKLGKNYNL   69 (69)
T ss_dssp             SSEEE-GGGTT-CHHHH--SS-EEE----SSSEEEETTEEEEEEEHHHHHHSTCHHHHHHHHHTTSSS-
T ss_pred             CcEEECchhcCChHHHHHhcCCeEecCCCCCCEEECCeEEEEEEeeeeecCCHHHHHHHHHHhhhhcCC
Confidence            579999999999999999999999955599999999999999999999999999999999999999864

This complex is used primarily for nucleotide excision repair but also for some aspects of recombination repair. In yeast, Rad10 works as a heterodimer with Rad1, and is involved in nucleotide excision repair of DNA damaged with UV light, bulky adducts or cross-linking agents. The complex forms an endonuclease which specifically degrades single-stranded DNA. Ercc1 and XPF (xeroderma pigmentosum group F-complementing protein) are two structure-specific endonucleases of a class of seven containing an ERCC4 domain. Together they form an obligate complex that functions primarily in nucleotide excision repair (NER), a versatile pathway able to detect and remove a variety of DNA lesions induced by UV light and environmental carcinogens, and secondarily in DNA inter-strand cross-link repair and telomere maintenance. This domain in fact binds simultaneously to both XPF and single-stranded DNA; this ternary complex explains the important role of Ercc1 in targeting its catalytic XPF partner to the NER pre-incision complex [].; GO: 0003684 damaged DNA binding, 0004519 endonuclease activity, 0006281 DNA repair, 0005634 nucleus; PDB: 2JNW_A 2JPD_A 2A1I_A.

>COG5241 RAD10 Nucleotide excision repair endonuclease NEF1, RAD10 subunit [DNA replication, recombination, and repair]

Probab=100.00  E-value=1.2e-35  Score=250.69  Aligned_cols=129  Identities=33%  Similarity=0.437  Sum_probs=123.0

Q ss_pred             CCCCeEEeCCcccCCcccccccccceeecCCCCcceeecCceeEEEEeecccccChhHHHHHHHhhcccceE-----EEc
Q psy15374         66 KSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADRIKALGKLYKL-----QVD  140 (205)
Q Consensus        66 ~~~~~I~Vs~~QkGNPlL~~i~~vpwe~~d~i~~Dy~ig~~~~vLFLSLkyH~L~P~YI~~Ri~~L~~~y~l-----~VD  140 (205)
                      +....|.|||+|||||+|.+.+|++|+|++-|+|||++|+..|-||||||||.+||+||+.||.+| |.|..     +||
T Consensus        31 s~s~~I~vsplQkgnp~l~~~~N~~w~y~~~i~Pd~~~~s~~~~lflslrfhs~~Peyi~~riSkl-KsYk~r~LL~hvd  109 (224)
T COG5241          31 SQSLEIDVSPLQKGNPQLSRRINSNWVYNAFIKPDEWTDSKATDLFLSLRFHSTRPEYIVLRISKL-KSYKERPLLNHVD  109 (224)
T ss_pred             CeeeEEecChhhcCCCcccccccCcceeccccCcchhhcchHHHHHHHHhhhcCCCceEEEeeecc-ccccccceeeeec
Confidence            366799999999999999999999999998899999999999999999999999999999999999 67752     999


Q ss_pred             CCChHHHHHHHHHHHHhcCcEEEeecChHHHHHHHHHHHhhhCCCcchhccccCCCc
Q psy15374        141 SKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFENKPPDLIMEKQDVDP  197 (205)
Q Consensus       141 v~d~~~~L~eL~~~c~~~~~TLilawS~eEaa~Yie~~K~~e~k~~d~i~~~~~~d~  197 (205)
                      ++|++.+++||-.....+  ||+|+||.|||+||++||+.+++.++++||++...||
T Consensus       110 ~~N~~asIqElv~Tt~in--ti~l~~svee~sry~~t~~~~~~~s~~iir~~~s~d~  164 (224)
T COG5241         110 STNWRASIQELVSTTGIN--TIYLDYSVEERSRYFLTLTYHKLYSDYIIRRMQSLDR  164 (224)
T ss_pred             cccHHHHHHHHHHhcccc--eeehhhhhhHHHHHHHHhHHHhhcCHHHHHhcCCCcc
Confidence            999999999999998877  9999999999999999999999999999999999998

>KOG2841|consensus

Probab=99.27  E-value=3.3e-13  Score=118.04  Aligned_cols=57  Identities=44%  Similarity=0.559  Sum_probs=54.3

Q ss_pred             CcccCchhhhhhhhhhhhccCCCCCcccccCCCCCCccccccCCCCccCCCCCCCCCCCCc
Q psy15374          1 MLAWSPEEAGEMIETYKVFENKPPDLIMEKQDVDPHSKTWNFDPVPAAQNSATSESVQPSR   61 (205)
Q Consensus         1 ilaWS~eEaarylEtyK~~E~kp~d~i~e~~~~~~~~~~~~~lt~~~~~n~~~~~t~~~~~   61 (205)
                      +||||.||||||||+||.||+||+|+||++.+.|+++++..|||.+|.+||    |++..+
T Consensus       155 ~lA~s~EeaaryIE~~k~~ek~p~dli~~~~~~d~ls~~~~~Lt~i~~VnK----tda~~L  211 (254)
T KOG2841|consen  155 VLAWSMEEAARYIETYKEYEKKPIDLIMERKDRDLLSSLLGFLTTIPGVNK----TDAQLL  211 (254)
T ss_pred             eeeccHHHHHHHHHHHHHhhcCCchhhhhcccccHHHHHHHHHHhCCCCCc----ccHHHH
Confidence            589999999999999999999999999999999999999999999999999    777654

>COG5241 RAD10 Nucleotide excision repair endonuclease NEF1, RAD10 subunit [DNA replication, recombination, and repair]

Probab=98.84  E-value=6e-10  Score=95.04  Aligned_cols=115  Identities=26%  Similarity=0.533  Sum_probs=99.5

Q ss_pred             CCCCCCeEEeCCcc---cCCccccccccccee-----e-----cCCCCcceeecCceeEEEEeecccccChhHHHHHHHh
Q psy15374         64 ASKSSNAILVNPRQ---KGNPLLKHIGKVPWE-----Y-----DDSIIPDYVMGRTTCALFLSIKYHALKPDYIADRIKA  130 (205)
Q Consensus        64 ~~~~~~~I~Vs~~Q---kGNPlL~~i~~vpwe-----~-----~d~i~~Dy~ig~~~~vLFLSLkyH~L~P~YI~~Ri~~  130 (205)
                      ...+.-.+++..+|   +-||||.|+....|.     +     -+.|+-||.+.. .+.+|++++||.+.-+||..|+.+
T Consensus        83 s~~Peyi~~riSklKsYk~r~LL~hvd~~N~~asIqElv~Tt~inti~l~~svee-~sry~~t~~~~~~~s~~iir~~~s  161 (224)
T COG5241          83 STRPEYIVLRISKLKSYKERPLLNHVDSTNWRASIQELVSTTGINTIYLDYSVEE-RSRYFLTLTYHKLYSDYIIRRMQS  161 (224)
T ss_pred             cCCCceEEEeeeccccccccceeeeeccccHHHHHHHHHHhcccceeehhhhhhH-HHHHHHHhHHHhhcCHHHHHhcCC
Confidence            44456667788889   999999999888887     3     134778999876 788999999999999999999999


Q ss_pred             hc--ccceE---EEcCCChHHHHHHHHHHHHhcC-----cEEEeecChHHHHHHHHHHH
Q psy15374        131 LG--KLYKL---QVDSKDPHHALKYLTRVCLLCD-----LTLMLAWSPEEAGEMIETYK  179 (205)
Q Consensus       131 L~--~~y~l---~VDv~d~~~~L~eL~~~c~~~~-----~TLilawS~eEaa~Yie~~K  179 (205)
                      +.  +.|+.   -||-.|.++.|.++.++|..++     ++++++|.++.|++|||.+.
T Consensus       162 ~d~s~~fl~~i~~Vnksds~~~L~d~g~L~rf~gaSrdE~e~l~g~g~~ka~~~ieyln  220 (224)
T COG5241         162 LDRSNEFLILIFIVNKSDSEDTLNDIGKLCRFNGASRDEFELLLGFGFEKAAKYIEYLN  220 (224)
T ss_pred             CcccccceEEEEeeccccHHHHHHHHHHHHHHhccchhHHHHHHccCHHHHHHHHHHhc
Confidence            97  45654   8999999999999999999999     99999999999999999763

>PRK13766 Hef nuclease; Provisional

Probab=96.95  E-value=0.005  Score=60.97  Aligned_cols=115  Identities=17%  Similarity=0.294  Sum_probs=85.6

Q ss_pred             CCCCCCeEEeCCcccCCcccccc--cccceeecCCCCcceeecCceeE-------EEEeecccccChhHHHHHHHhhccc
Q psy15374         64 ASKSSNAILVNPRQKGNPLLKHI--GKVPWEYDDSIIPDYVMGRTTCA-------LFLSIKYHALKPDYIADRIKALGKL  134 (205)
Q Consensus        64 ~~~~~~~I~Vs~~QkGNPlL~~i--~~vpwe~~d~i~~Dy~ig~~~~v-------LFLSLkyH~L~P~YI~~Ri~~L~~~  134 (205)
                      +....-.|+|-.|-....+...+  ..++.+...--+.||+++..+||       |--|++--     -+++++..|++.
T Consensus       558 ~~~~~~~i~vD~RE~~~~~~~~l~~~g~~~~~~~L~~gDy~~~~~~~vERK~~~Dl~~s~~~~-----r~~~q~~~l~~~  632 (773)
T PRK13766        558 DEPEGPKIIVDSRELRSNVARHLKRLGAEVELKTLEVGDYVVSDRVAVERKTAEDFVDSIIDR-----RLFEQVKDLKRA  632 (773)
T ss_pred             CCCCCcEEEEeCCCccchhhHHHHhCCCEEEEEecCCCCEEccCCeEEEeCcHHHHHHHhhcC-----cHHHHHHHHHhc
Confidence            34455578888886444465655  35667765545689999988877       44466643     366778888776


Q ss_pred             ce---EEEcCC-------ChHHHHHHHHHHHHhcCcEEEeecChHHHHHHHHHHHhhhC
Q psy15374        135 YK---LQVDSK-------DPHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFEN  183 (205)
Q Consensus       135 y~---l~VDv~-------d~~~~L~eL~~~c~~~~~TLilawS~eEaa~Yie~~K~~e~  183 (205)
                      |.   |+|.-+       +++.+...|..+++..+++++.+||++|+|+||+.++..+.
T Consensus       633 ~~~~~lliE~~~~~~~~~~~~~i~~~l~~l~~~~~~~ii~~~~~~eta~~l~~l~~~~~  691 (773)
T PRK13766        633 YERPVLIIEGDLYTIRNIHPNAIRGALASIAVDFGIPILFTRDEEETADLLKVIAKREQ  691 (773)
T ss_pred             CCCcEEEEEcCchhhcccCHHHHHHHHHHHHHHcCceEEEeCCHHHHHHHHHHHHhhcc
Confidence            64   344433       46788899999999999999999999999999999999886

>PF07279 DUF1442: Protein of unknown function (DUF1442); InterPro: IPR009902 This family consists of several hypothetical Arabidopsis thaliana proteins of around 225 residues in length

Probab=80.79  E-value=0.75  Score=40.45  Aligned_cols=135  Identities=21%  Similarity=0.305  Sum_probs=70.0

Q ss_pred             cccCchhhhh-hhhhhhhccCCCCCcccccCCCCCCccccccCCCCccCCCCC------C--CCCCCC--c--cCCCCCC
Q psy15374          2 LAWSPEEAGE-MIETYKVFENKPPDLIMEKQDVDPHSKTWNFDPVPAAQNSAT------S--ESVQPS--R--AGASKSS   68 (205)
Q Consensus         2 laWS~eEaar-ylEtyK~~E~kp~d~i~e~~~~~~~~~~~~~lt~~~~~n~~~------~--~t~~~~--~--~~~~~~~   68 (205)
                      |+||||-|.+ ||.|-|+.++.-     |.       ...||+-.-.+-|.++      +  .+.+|+  +  |+.-+.+
T Consensus         3 l~WSpe~AtkAYl~Tvk~c~~~~-----ep-------~~aEfISAlAAG~nAkliVe~~s~g~~~~ttiaLaaAAr~TgG   70 (218)
T PF07279_consen    3 LVWSPENATKAYLDTVKMCKKFK-----EP-------GVAEFISALAAGWNAKLIVEAWSSGGAISTTIALAAAARQTGG   70 (218)
T ss_pred             ceeChhHHHHHHHHHHHHhhhcC-----CC-------CHHHHHHHHhccccceEEEEEecCCCchHhHHHHHHHHHhcCC
Confidence            7999999865 999999987532     21       2334443333333322      1  111222  2  2444555


Q ss_pred             CeEEeCCcccC-CcccccccccceeecCCCCcceeecCceeEEEEeecccccChhHHHHHHHhhcccceEEEcCCChHHH
Q psy15374         69 NAILVNPRQKG-NPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADRIKALGKLYKLQVDSKDPHHA  147 (205)
Q Consensus        69 ~~I~Vs~~QkG-NPlL~~i~~vpwe~~d~i~~Dy~ig~~~~vLFLSLkyH~L~P~YI~~Ri~~L~~~y~l~VDv~d~~~~  147 (205)
                      .-|-|-+.++. .-..+.|.    +.+-...++|++|..              |+-+-.+++.+   =-++||.+. ++.
T Consensus        71 R~vCIvp~~~~~~~~~~~l~----~~~~~~~vEfvvg~~--------------~e~~~~~~~~i---DF~vVDc~~-~d~  128 (218)
T PF07279_consen   71 RHVCIVPDEQSLSEYKKALG----EAGLSDVVEFVVGEA--------------PEEVMPGLKGI---DFVVVDCKR-EDF  128 (218)
T ss_pred             eEEEEcCChhhHHHHHHHHh----hccccccceEEecCC--------------HHHHHhhccCC---CEEEEeCCc-hhH
Confidence            55666655444 22233344    333224578999873              44343333322   135888764 444


Q ss_pred             HHHHHHHHHh-cCcEEEeecChHH
Q psy15374        148 LKYLTRVCLL-CDLTLMLAWSPEE  170 (205)
Q Consensus       148 L~eL~~~c~~-~~~TLilawS~eE  170 (205)
                      ++++-++.-. ..-++++|.+.-.
T Consensus       129 ~~~vl~~~~~~~~GaVVV~~Na~~  152 (218)
T PF07279_consen  129 AARVLRAAKLSPRGAVVVCYNAFS  152 (218)
T ss_pred             HHHHHHHhccCCCceEEEEecccc
Confidence            4333333323 4567888887544

The function of this family is unknown.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	205
2a1i_A	146	Crystal Structure Of The Central Domain Of Human Er		3e-42
2jpd_A	135	Solution Structure Of The Ercc1 Central Domain Leng		1e-39
2jnw_A	133	Solution Structure Of A Ercc1-Xpa Heterodimer Lengt		4e-37

>pdb|2A1I|A Chain A, Crystal Structure Of The Central Domain Of Human Ercc1 Length = 146

Iteration: 1
 Score =  167 bits (424), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 78/130 (60%), Positives = 102/130 (78%), Gaps = 6/130 (4%)
Query: 68  SNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADR 127
           SN+I+V+PRQ+GNP+LK +  VPWE+ D +IPDYV+G++TCALFLS++YH L PDYI  R
Sbjct: 17  SNSIIVSPRQRGNPVLKFVRNVPWEFGD-VIPDYVLGQSTCALFLSLRYHNLHPDYIHGR 75
Query: 128 IKALGKLYKL-----QVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFE 182
           +++LGK + L     QVD KDP  ALK L ++C+L D TL+LAWSPEEAG  +ETYK +E
Sbjct: 76  LQSLGKNFALRVLLVQVDVKDPQQALKELAKMCILADCTLILAWSPEEAGRYLETYKAYE 135
Query: 183 NKPPDLIMEK 192
            KP DL+MEK
Sbjct: 136 QKPADLLMEK 145

>pdb|2JPD|A Chain A, Solution Structure Of The Ercc1 Central Domain Length = 135

Iteration: 1
 Score =  159 bits (401), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 74/126 (58%), Positives = 97/126 (76%), Gaps = 6/126 (4%)
Query: 68  SNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADR 127
           SN+I+V+PRQ+GNP+LK +  VPWE+ D +IPDYV+G++TCALFLS++YH L PDYI  R
Sbjct: 4   SNSIIVSPRQRGNPVLKFVRNVPWEFGD-VIPDYVLGQSTCALFLSLRYHNLHPDYIHGR 62
Query: 128 IKALGKLYKL-----QVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFE 182
           +++LGK + L     QVD KDP  ALK L ++C+L D TL+LAWSPEEAG  +ETYK +E
Sbjct: 63  LQSLGKNFALRVLLVQVDVKDPQQALKELAKMCILADCTLILAWSPEEAGRYLETYKAYE 122
Query: 183 NKPPDL 188
            KP  L
Sbjct: 123 QKPGGL 128

>pdb|2JNW|A Chain A, Solution Structure Of A Ercc1-Xpa Heterodimer Length = 133

Iteration: 1
 Score =  150 bits (379), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 70/117 (59%), Positives = 92/117 (78%), Gaps = 6/117 (5%)
Query: 68  SNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADR 127
           SN+I+V+PRQ+GNP+LK +  VPWE+ D +IPDYV+G++TCALFLS++YH L PDYI  R
Sbjct: 17  SNSIIVSPRQRGNPVLKFVRNVPWEFGD-VIPDYVLGQSTCALFLSLRYHNLHPDYIHGR 75
Query: 128 IKALGKLYKL-----QVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYK 179
           +++LGK + L     QVD KDP  ALK L ++C+L D TL+LAWSPEEAG  +ETYK
Sbjct: 76  LQSLGKNFALRVLLVQVDVKDPQQALKELAKMCILADCTLILAWSPEEAGRYLETYK 132

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	205
2a1i_A	146	DNA excision repair protein ERCC-1; XPF, central d	3e-66
2a1i_A	146	DNA excision repair protein ERCC-1; XPF, central d	9e-11
2a1j_B	91	DNA excision repair protein ERCC-1; XPF, xeroderma	1e-04
2a1j_B	91	DNA excision repair protein ERCC-1; XPF, xeroderma	1e-04

>2a1i_A DNA excision repair protein ERCC-1; XPF, central domain, DNA repair, endonuclease, DNA binding protein; HET: DNA; 1.90A {Homo sapiens} SCOP: c.52.1.20 PDB: 2jnw_A* 2jpd_A* Length = 146

 Score =  199 bits (508), Expect = 3e-66
 Identities = 79/145 (54%), Positives = 104/145 (71%), Gaps = 6/145 (4%)

Query: 53  TSESVQPSRAGASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFL 112
            S       +     SN+I+V+PRQ+GNP+LK +  VPWE+ D +IPDYV+G++TCALFL
Sbjct: 2   GSSHHHHHHSQDPAKSNSIIVSPRQRGNPVLKFVRNVPWEFGD-VIPDYVLGQSTCALFL 60

Query: 113 SIKYHALKPDYIADRIKALGKLYKL-----QVDSKDPHHALKYLTRVCLLCDLTLMLAWS 167
           S++YH L PDYI  R+++LGK + L     QVD KDP  ALK L ++C+L D TL+LAWS
Sbjct: 61  SLRYHNLHPDYIHGRLQSLGKNFALRVLLVQVDVKDPQQALKELAKMCILADCTLILAWS 120

Query: 168 PEEAGEMIETYKVFENKPPDLIMEK 192
           PEEAG  +ETYK +E KP DL+MEK
Sbjct: 121 PEEAGRYLETYKAYEQKPADLLMEK 145

>2a1i_A DNA excision repair protein ERCC-1; XPF, central domain, DNA repair, endonuclease, DNA binding protein; HET: DNA; 1.90A {Homo sapiens} SCOP: c.52.1.20 PDB: 2jnw_A* 2jpd_A* Length = 146

 Score = 56.8 bits (137), Expect = 9e-11
 Identities = 21/30 (70%), Positives = 25/30 (83%)

Query: 1   MLAWSPEEAGEMIETYKVFENKPPDLIMEK 30
           +LAWSPEEAG  +ETYK +E KP DL+MEK
Sbjct: 116 ILAWSPEEAGRYLETYKAYEQKPADLLMEK 145

>2a1j_B DNA excision repair protein ERCC-1; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5 Length = 91

 Score = 39.0 bits (91), Expect = 1e-04
 Identities = 8/27 (29%), Positives = 12/27 (44%)

Query: 16 YKVFENKPPDLIMEKQDVDPHSKTWNF 42
          +      P DL+MEK + D  S+    
Sbjct: 7  HHHHSQDPADLLMEKLEQDFVSRVTEC 33

>2a1j_B DNA excision repair protein ERCC-1; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5 Length = 91

 Score = 39.0 bits (91), Expect = 1e-04
 Identities = 8/27 (29%), Positives = 12/27 (44%)

Query: 178 YKVFENKPPDLIMEKQDVDPHSKTWNF 204
           +      P DL+MEK + D  S+    
Sbjct: 7   HHHHSQDPADLLMEKLEQDFVSRVTEC 33

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	205
2a1i_A	146	DNA excision repair protein ERCC-1; XPF, central d	100.0
2bgw_A	219	XPF endonuclease; hydrolase, structure specific en	99.62
1j23_A	143	HEF nuclease, ATP-dependent RNA helicase, putative	85.68
2bgw_A	219	XPF endonuclease; hydrolase, structure specific en	84.5

>2a1i_A DNA excision repair protein ERCC-1; XPF, central domain, DNA repair, endonuclease, DNA binding protein; HET: DNA; 1.90A {Homo sapiens} SCOP: c.52.1.20 PDB: 2jnw_A* 2jpd_A*

Probab=100.00  E-value=3.3e-61  Score=391.06  Aligned_cols=129  Identities=60%  Similarity=1.136  Sum_probs=120.9

Q ss_pred             CCCCCCeEEeCCcccCCcccccccccceeecCCCCcceeecCceeEEEEeecccccChhHHHHHHHhhcccceE-----E
Q psy15374         64 ASKSSNAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADRIKALGKLYKL-----Q  138 (205)
Q Consensus        64 ~~~~~~~I~Vs~~QkGNPlL~~i~~vpwe~~d~i~~Dy~ig~~~~vLFLSLkyH~L~P~YI~~Ri~~L~~~y~l-----~  138 (205)
                      .+.++++|+||++|||||||++||||||||+| |+|||++|+++||||||||||+|||+||++||++|+++|.+     +
T Consensus        13 ~~~~~~~IlVs~rQkGNPlL~~irnv~we~~d-I~~Dyvvg~~tcvLFLSLkYH~L~PeYI~~Ri~~L~~~y~lrVLL~~   91 (146)
T 2a1i_A           13 DPAKSNSIIVSPRQRGNPVLKFVRNVPWEFGD-VIPDYVLGQSTCALFLSLRYHNLHPDYIHGRLQSLGKNFALRVLLVQ   91 (146)
T ss_dssp             -----CCEEECGGGTTCGGGGGCCSSCEEECC-CSSSEEEETTEEEEEEEHHHHHHSTTHHHHHHHHHTTSSSEEEEEEE
T ss_pred             CCCCCceEEECchhcCChHHHHHhcCCeEecC-cCCCEEecCeeEEEEEecHHhccCHHHHHHHHHHhccccceEEEEEE
Confidence            44578899999999999999999999999976 99999999999999999999999999999999999999864     9


Q ss_pred             EcCCChHHHHHHHHHHHHhcCcEEEeecChHHHHHHHHHHHhhhCCCcchhcccc
Q psy15374        139 VDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFENKPPDLIMEKQ  193 (205)
Q Consensus       139 VDv~d~~~~L~eL~~~c~~~~~TLilawS~eEaa~Yie~~K~~e~k~~d~i~~~~  193 (205)
                      |||+|++++|+|||++|+.+|||||||||+||||+|||+||+||+||+|+||++.
T Consensus        92 VDv~d~~~~L~eL~~~c~~~~~TLiLawS~eEaa~Yle~~k~~e~k~~d~i~~~~  146 (146)
T 2a1i_A           92 VDVKDPQQALKELAKMCILADCTLILAWSPEEAGRYLETYKAYEQKPADLLMEKL  146 (146)
T ss_dssp             CCSSSCHHHHHHHHHHHHHHTCEEEEESSHHHHHHHHHHHHTCCSSCCCHHHHHC
T ss_pred             EeCCChHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHHHHHhccCChhHhhcCC
Confidence            9999999999999999999999999999999999999999999999999999873

>2bgw_A XPF endonuclease; hydrolase, structure specific endonuclease, nucleotide excision repair; 2.8A {Aeropyrum pernix} SCOP: a.60.2.5 c.52.1.20 PDB: 2bhn_A

Probab=99.62  E-value=5.6e-16  Score=130.01  Aligned_cols=116  Identities=14%  Similarity=0.181  Sum_probs=100.5

Q ss_pred             CCCCeEEeCCcccCCcccccccc--cceeecCCCCcceeecCceeE------EEE-eecccccChhHHHHHHHhhcccce
Q psy15374         66 KSSNAILVNPRQKGNPLLKHIGK--VPWEYDDSIIPDYVMGRTTCA------LFL-SIKYHALKPDYIADRIKALGKLYK  136 (205)
Q Consensus        66 ~~~~~I~Vs~~QkGNPlL~~i~~--vpwe~~d~i~~Dy~ig~~~~v------LFL-SLkyH~L~P~YI~~Ri~~L~~~y~  136 (205)
                      ...-.|+|+.||+|||+++++++  |+|++..-.++||++|...||      .|+ ||+++     ++++|++.|.+.|.
T Consensus         6 ~~~~~iivD~RE~~s~~~~~l~~~gv~~~~~~L~vgDy~~~~~~~VERKs~~Dl~~Si~~~-----Rl~~Q~~~l~~~~~   80 (219)
T 2bgw_A            6 GGRPRVYVDVREERSPVPSILESLGVQVIPKQLPMGDYLVSDSIIVERKTSSDFAKSLFDG-----RLFEQASRLAEHYE   80 (219)
T ss_dssp             CSSCEEEEETTTTTSSHHHHHHHTTCEEEEECCSSSSEEEETTEEEEEEEHHHHHHHHHHS-----HHHHHHHHHHHHCS
T ss_pred             CCCeEEEEECCCcccHhHHHHHhCCCEEEEEEcCcCCEEeeCCeEEEeCCHHHHHHHhhcC-----cHHHHHHHHHHhcC
Confidence            34568999999999999999876  999998756899999997665      677 89995     68899999987664


Q ss_pred             -----EEEcCCC------hHHHHHHHHHHHHhcCcEEEeecChHHHHHHHHHHHhhhCCCc
Q psy15374        137 -----LQVDSKD------PHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFENKPP  186 (205)
Q Consensus       137 -----l~VDv~d------~~~~L~eL~~~c~~~~~TLilawS~eEaa~Yie~~K~~e~k~~  186 (205)
                           +.+|..+      +++++..|+.+|+..+++++.+||++|+|+||+.++.+++++.
T Consensus        81 ~~~lliE~d~~~~~~~~~~~~i~~~l~~~~~~~~~~vi~t~s~~eta~~l~~l~~~~~~~~  141 (219)
T 2bgw_A           81 TVFIIVEGPPVPRRYRGRERSLYAAMAALQLDYGIRLMNTMDPKGTALVIESLARLSTREG  141 (219)
T ss_dssp             EEEEEEESCSSCGGGTTTHHHHHHHHHHHHHHSCCEEEEESSHHHHHHHHHHHHHHHSCBC
T ss_pred             CcEEEEEecCccccccCCHHHHHHHHHHHHHHCCceEEEcCCHHHHHHHHHHHHHhccccc
Confidence                 3677777      8899999999999999999999999999999999999997653

>1j23_A HEF nuclease, ATP-dependent RNA helicase, putative; structure-specific endonuclease, hydrolase; 1.78A {Pyrococcus furiosus} SCOP: c.52.1.20 PDB: 1j22_A 1j24_A 1j25_A

Probab=85.68  E-value=2.5  Score=33.00  Aligned_cols=110  Identities=19%  Similarity=0.274  Sum_probs=75.4

Q ss_pred             eEEeCCcccCCcccccc--cccceeecCCCCcceeecCceeE-------EEEeecccccChhHHHHHHHhhcccce----
Q psy15374         70 AILVNPRQKGNPLLKHI--GKVPWEYDDSIIPDYVMGRTTCA-------LFLSIKYHALKPDYIADRIKALGKLYK----  136 (205)
Q Consensus        70 ~I~Vs~~QkGNPlL~~i--~~vpwe~~d~i~~Dy~ig~~~~v-------LFLSLkyH~L~P~YI~~Ri~~L~~~y~----  136 (205)
                      .|+|-.|.....+...+  ++++.+...--+.||+++...||       |--|++.-+     +++.+..|.+.|.    
T Consensus         6 ~IiVD~RE~~s~~~~~L~~~gv~~~~~~L~vGDyi~~~~~~VERKs~~DL~~Si~dgR-----l~~Q~~rL~~~~~~~~~   80 (143)
T 1j23_A            6 KVVVDSRELRSEVVKRLKLLGVKLEVKTLDVGDYIISEDVAIERKSANDLIQSIIDGG-----LFDQVKRLKEAYSRPIM   80 (143)
T ss_dssp             EEEEEGGGTTSHHHHHHHHTTCEEEEECCSSCSEECSSSEEEEEEEHHHHHHHHHTTC-----HHHHHHHHHHHCSEEEE
T ss_pred             EEEEECCCcchHhHHHHHHCCCeEEEEECCCCCEEecCCcEEEeccHHHHHHhhhcch-----HHHHHHHHHhcCCccEE
Confidence            68888886555676666  46788877656689999876666       333555533     3333344433332    


Q ss_pred             EEE-cCC-----ChHHHHHHHHHHHHhcCcEEEeecChHHHHHHHHHHHhhhCC
Q psy15374        137 LQV-DSK-----DPHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFENK  184 (205)
Q Consensus       137 l~V-Dv~-----d~~~~L~eL~~~c~~~~~TLilawS~eEaa~Yie~~K~~e~k  184 (205)
                      |+- |..     .++.....|..+.+..++.++-+=|++|.|+||..++..|+.
T Consensus        81 LIE~~~~~~~~~~~~~l~~al~~~~~~~g~~vi~t~~~~~Ta~~l~~l~~~~q~  134 (143)
T 1j23_A           81 IVEGSLYGIRNVHPNAIRGAIAAVTVDFGVPIIFSSTPEETAQYIFLIAKREQE  134 (143)
T ss_dssp             EEESCCTTCCSSCHHHHHHHHHHHHHTSCCCEEEESSHHHHHHHHHHHHHHHHH
T ss_pred             EEEcCCcccccCCHHHHHHHHHHHHHHcCeeEEEcCCHHHHHHHHHHHHHhhcc
Confidence            211 211     356677788888888999999999999999999999887753

>2bgw_A XPF endonuclease; hydrolase, structure specific endonuclease, nucleotide excision repair; 2.8A {Aeropyrum pernix} SCOP: a.60.2.5 c.52.1.20 PDB: 2bhn_A

Probab=84.50  E-value=0.12  Score=42.56  Aligned_cols=24  Identities=17%  Similarity=0.270  Sum_probs=20.9

Q ss_pred             CcccCchhhhhhhhhhhhccCCCC
Q psy15374          1 MLAWSPEEAGEMIETYKVFENKPP   24 (205)
Q Consensus         1 ilaWS~eEaarylEtyK~~E~kp~   24 (205)
                      +.+||++|+|+||+.++.++.++.
T Consensus       118 i~t~s~~eta~~l~~l~~~~~~~~  141 (219)
T 2bgw_A          118 MNTMDPKGTALVIESLARLSTREG  141 (219)
T ss_dssp             EEESSHHHHHHHHHHHHHHHSCBC
T ss_pred             EEcCCHHHHHHHHHHHHHhccccc
Confidence            468999999999999999996654

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	205
d2a1ia1	129	c.52.1.20 (A:99-227) DNA excision repair protein E	1e-67
d2a1ia1	129	c.52.1.20 (A:99-227) DNA excision repair protein E	3e-11

>d2a1ia1 c.52.1.20 (A:99-227) DNA excision repair protein ERCC-1 {Human (Homo sapiens) [TaxId: 9606]} Length = 129

class: Alpha and beta proteins (a/b)
fold: Restriction endonuclease-like
superfamily: Restriction endonuclease-like
family: XPF/Rad1/Mus81 nuclease
domain: DNA excision repair protein ERCC-1
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  201 bits (512), Expect = 1e-67
 Identities = 77/129 (59%), Positives = 101/129 (78%), Gaps = 6/129 (4%)

Query: 69  NAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADRI 128
           N+I+V+PRQ+GNP+LK +  VPWE+ D +IPDYV+G++TCALFLS++YH L PDYI  R+
Sbjct: 1   NSIIVSPRQRGNPVLKFVRNVPWEFGD-VIPDYVLGQSTCALFLSLRYHNLHPDYIHGRL 59

Query: 129 KALGKLYKL-----QVDSKDPHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFEN 183
           ++LGK + L     QVD KDP  ALK L ++C+L D TL+LAWSPEEAG  +ETYK +E 
Sbjct: 60  QSLGKNFALRVLLVQVDVKDPQQALKELAKMCILADCTLILAWSPEEAGRYLETYKAYEQ 119

Query: 184 KPPDLIMEK 192
           KP DL+MEK
Sbjct: 120 KPADLLMEK 128

>d2a1ia1 c.52.1.20 (A:99-227) DNA excision repair protein ERCC-1 {Human (Homo sapiens) [TaxId: 9606]} Length = 129

class: Alpha and beta proteins (a/b)
fold: Restriction endonuclease-like
superfamily: Restriction endonuclease-like
family: XPF/Rad1/Mus81 nuclease
domain: DNA excision repair protein ERCC-1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.6 bits (137), Expect = 3e-11
 Identities = 21/30 (70%), Positives = 25/30 (83%)

Query: 1   MLAWSPEEAGEMIETYKVFENKPPDLIMEK 30
           +LAWSPEEAG  +ETYK +E KP DL+MEK
Sbjct: 99  ILAWSPEEAGRYLETYKAYEQKPADLLMEK 128

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	205
d2a1ia1	129	DNA excision repair protein ERCC-1 {Human (Homo sa	100.0
d1j23a_	131	Putative ATP-dependent RNA helicase Hef, nuclease	90.12
d2bgwa2	133	XPF endonuclease {Aeropyrum pernix [TaxId: 56636]}	88.93

>d2a1ia1 c.52.1.20 (A:99-227) DNA excision repair protein ERCC-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Restriction endonuclease-like
superfamily: Restriction endonuclease-like
family: XPF/Rad1/Mus81 nuclease
domain: DNA excision repair protein ERCC-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=3.6e-62  Score=387.85  Aligned_cols=124  Identities=62%  Similarity=1.176  Sum_probs=120.6

Q ss_pred             CeEEeCCcccCCcccccccccceeecCCCCcceeecCceeEEEEeecccccChhHHHHHHHhhcccceE-----EEcCCC
Q psy15374         69 NAILVNPRQKGNPLLKHIGKVPWEYDDSIIPDYVMGRTTCALFLSIKYHALKPDYIADRIKALGKLYKL-----QVDSKD  143 (205)
Q Consensus        69 ~~I~Vs~~QkGNPlL~~i~~vpwe~~d~i~~Dy~ig~~~~vLFLSLkyH~L~P~YI~~Ri~~L~~~y~l-----~VDv~d  143 (205)
                      ++|+||+||||||+|++||||||||+| |+|||++|+++||||||||||+||||||++||++|+++|.+     +||++|
T Consensus         1 ~~ilVs~rQkgNplL~~i~~v~we~~d-i~~Dyvvg~~~~vLFLSLkYH~L~peYI~~Ri~~L~~~y~lrVLL~~VDv~d   79 (129)
T d2a1ia1           1 NSIIVSPRQRGNPVLKFVRNVPWEFGD-VIPDYVLGQSTCALFLSLRYHNLHPDYIHGRLQSLGKNFALRVLLVQVDVKD   79 (129)
T ss_dssp             CCEEECGGGTTCGGGGGCCSSCEEECC-CSSSEEEETTEEEEEEEHHHHHHSTTHHHHHHHHHTTSSSEEEEEEECCSSS
T ss_pred             CcEEEcchhcCCcHHHHHhcCCeeecC-cCCCeEecCccEEEEEehhhhccChHHHHHHHHHhccCcceEEEEEEEeCCC
Confidence            589999999999999999999999987 99999999999999999999999999999999999999874     999999


Q ss_pred             hHHHHHHHHHHHHhcCcEEEeecChHHHHHHHHHHHhhhCCCcchhcccc
Q psy15374        144 PHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFENKPPDLIMEKQ  193 (205)
Q Consensus       144 ~~~~L~eL~~~c~~~~~TLilawS~eEaa~Yie~~K~~e~k~~d~i~~~~  193 (205)
                      ++++|+|||++|+.+|||||||||+||||+|||+||+||+||||.||+|+
T Consensus        80 ~~~~L~eL~~~c~~~~~TLilaws~eEaa~YlE~~k~~e~~~~d~i~~~~  129 (129)
T d2a1ia1          80 PQQALKELAKMCILADCTLILAWSPEEAGRYLETYKAYEQKPADLLMEKL  129 (129)
T ss_dssp             CHHHHHHHHHHHHHHTCEEEEESSHHHHHHHHHHHHTCCSSCCCHHHHHC
T ss_pred             hHHHHHHHHHHHHHcCCEEEEEcCHHHHHHHHHHHHHhcCCCHHHHHhcC
Confidence            99999999999999999999999999999999999999999999999874

>d1j23a_ c.52.1.20 (A:) Putative ATP-dependent RNA helicase Hef, nuclease domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: Restriction endonuclease-like
superfamily: Restriction endonuclease-like
family: XPF/Rad1/Mus81 nuclease
domain: Putative ATP-dependent RNA helicase Hef, nuclease domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=90.12  E-value=0.33  Score=35.51  Aligned_cols=111  Identities=19%  Similarity=0.225  Sum_probs=74.4

Q ss_pred             eEEeCCcccCCcccccc--cccceeecCCCCcceeecCceeE-------EEEeecccccChhHHHHHHHhhcccceEEE-
Q psy15374         70 AILVNPRQKGNPLLKHI--GKVPWEYDDSIIPDYVMGRTTCA-------LFLSIKYHALKPDYIADRIKALGKLYKLQV-  139 (205)
Q Consensus        70 ~I~Vs~~QkGNPlL~~i--~~vpwe~~d~i~~Dy~ig~~~~v-------LFLSLkyH~L~P~YI~~Ri~~L~~~y~l~V-  139 (205)
                      .|+|-.|-+.+.+...+  .+++.+...--+.||+++...+|       |--|++..++.-+  -.||++..+...++| 
T Consensus         2 ~iiiD~RE~~~~~~~~l~~~gi~~~~~~L~~GDy~~~~~~~VERKt~~Dl~~Si~dgR~~~Q--~~rl~~~~~~~~~lIE   79 (131)
T d1j23a_           2 KVVVDSRELRSEVVKRLKLLGVKLEVKTLDVGDYIISEDVAIERKSANDLIQSIIDGGLFDQ--VKRLKEAYSRPIMIVE   79 (131)
T ss_dssp             EEEEEGGGTTSHHHHHHHHTTCEEEEECCSSCSEECSSSEEEEEEEHHHHHHHHHTTCHHHH--HHHHHHHCSEEEEEEE
T ss_pred             EEEEECCCCChHHHHHHHHCCCEEEEEECCCCCEEEECCEEEEEecchhhhhhhhcchHHHH--HHHHHccCCceEEEEE
Confidence            36777776555555554  47788887766789999876665       4447776654433  345555443322332 


Q ss_pred             ----cCC--ChHHHHHHHHHHHHhcCcEEEeecChHHHHHHHHHHHhhh
Q psy15374        140 ----DSK--DPHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKVFE  182 (205)
Q Consensus       140 ----Dv~--d~~~~L~eL~~~c~~~~~TLilawS~eEaa~Yie~~K~~e  182 (205)
                          +..  .+.....-|..+.+..|+.++-+=|.+|+|.||..+..-+
T Consensus        80 g~~~~~~~~~~~~i~~al~~~~~~~~~~vi~t~~~~~Ta~~l~~l~~r~  128 (131)
T d1j23a_          80 GSLYGIRNVHPNAIRGAIAAVTVDFGVPIIFSSTPEETAQYIFLIAKRE  128 (131)
T ss_dssp             SCCTTCCSSCHHHHHHHHHHHHHTSCCCEEEESSHHHHHHHHHHHHHHH
T ss_pred             echHHhccccHHHHHHHHHHHHHhcCcEEEEeCCHHHHHHHHHHHHHHh
Confidence                222  2456777888888899999999999999999998876543

>d2bgwa2 c.52.1.20 (A:16-148) XPF endonuclease {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: Restriction endonuclease-like
superfamily: Restriction endonuclease-like
family: XPF/Rad1/Mus81 nuclease
domain: XPF endonuclease
species: Aeropyrum pernix [TaxId: 56636]

Probab=88.93  E-value=1  Score=32.82  Aligned_cols=110  Identities=15%  Similarity=0.136  Sum_probs=69.9

Q ss_pred             CeEEeCCcccCCcccccc--cccceeecCCCCcceeecCceeE-------EEEeecccccChhHHHHHHHhhcccceEEE
Q psy15374         69 NAILVNPRQKGNPLLKHI--GKVPWEYDDSIIPDYVMGRTTCA-------LFLSIKYHALKPDYIADRIKALGKLYKLQV  139 (205)
Q Consensus        69 ~~I~Vs~~QkGNPlL~~i--~~vpwe~~d~i~~Dy~ig~~~~v-------LFLSLkyH~L~P~YI~~Ri~~L~~~y~l~V  139 (205)
                      -.|+|-.|-+.-.+...+  .+++.+...--+.||+++...+|       |--|++..++.-+  ..||++-.+.-.++|
T Consensus         4 p~IiiD~RE~~s~~~~~l~~~gi~~~~~~L~~GDy~i~~~~iIERKt~~Dl~~Si~dgR~~eQ--~~rL~~~~~~~~~LI   81 (133)
T d2bgwa2           4 PRVYVDVREERSPVPSILESLGVQVIPKQLPMGDYLVSDSIIVERKTSSDFAKSLFDGRLFEQ--ASRLAEHYETVFIIV   81 (133)
T ss_dssp             CEEEEETTTTTSSHHHHHHHTTCEEEEECCSSSSEEEETTEEEEEEEHHHHHHHHHHSHHHHH--HHHHHHHCSEEEEEE
T ss_pred             CEEEEECCCCcchhhHHHHHCCCEEEEEEcCCcCEEEecCEEEEEechhHhhhhccCChHHHH--HHHHHhcCCCeEEEE
Confidence            378888887655555555  47888887766689999876655       3335655443211  223333222212233


Q ss_pred             c--CCC------hHHHHHHHHHHHHhcCcEEEeecChHHHHHHHHHHHh
Q psy15374        140 D--SKD------PHHALKYLTRVCLLCDLTLMLAWSPEEAGEMIETYKV  180 (205)
Q Consensus       140 D--v~d------~~~~L~eL~~~c~~~~~TLilawS~eEaa~Yie~~K~  180 (205)
                      -  ..+      +...+.-|..+-+..|+.++-+=|++|.|+||..+..
T Consensus        82 Eg~~~~~~~~~~~~~l~~al~~l~~~~g~~vi~t~~~~eTa~~l~~lak  130 (133)
T d2bgwa2          82 EGPPVPRRYRGRERSLYAAMAALQLDYGIRLMNTMDPKGTALVIESLAR  130 (133)
T ss_dssp             ESCSSCGGGTTTHHHHHHHHHHHHHHSCCEEEEESSHHHHHHHHHHHHH
T ss_pred             EcCcchhhccCCHHHHHHHHHHHHHHcCceEEEeCCHHHHHHHHHHHhc
Confidence            2  111      3455666777777889999999999999999987754