Psyllid ID: psy16216

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------13
Protein Sequence
YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVK
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHcHHHHHcccHHHHHHHcHHHHHHHHHcccccHHcccccEEEcccccccccHHHHHcHHHHHcccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHccEEEccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHcHHHHEccccHHHHHHHHHHHHHHHHHccccHHHccccEEcccccccccHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHccEEEcEEcccccc
Coil and Loop (DISEMBL)
YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIaasqlsntfvvgfgpdnndedARKAGVMEWLGQvysdtdtslmeNTEDFQELAIAGVIVEEIRAAVLSKTQfhcsagiahnkvk
Flexible Loop (DISEMBL)
YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTqfhcsagiahnkvk
Low Complexity Region (SEG)
YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVK
Disordered region (IsUnstruct)
*******VIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPD******RKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGI******
Disordered Region (DISOPRED)
YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV*
Disordered Region (DISEMBL)
YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVK
Disordered Region (DISPRO)
YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAH****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVK
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

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	129	2.2.26 [Sep-21-2011]
Q9JJN0	694	DNA polymerase eta OS=Mus	yes	N/A	0.937	0.174	0.455	2e-22
Q9Y253	713	DNA polymerase eta OS=Hom	yes	N/A	0.937	0.169	0.437	2e-21
Q9UNA4	740	DNA polymerase iota OS=Ho	no	N/A	0.798	0.139	0.265	3e-05
Q6R3M4	717	DNA polymerase iota OS=Mu	no	N/A	0.798	0.143	0.25	0.0002
A7Z6F3	414	DNA polymerase IV OS=Baci	yes	N/A	0.279	0.086	0.444	0.0003
P54545	414	DNA polymerase IV 1 OS=Ba	yes	N/A	0.255	0.079	0.484	0.0006

>sp|Q9JJN0|POLH_MOUSE DNA polymerase eta OS=Mus musculus GN=Polh PE=1 SV=1

 Score =  104 bits (259), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 62/136 (45%), Positives = 86/136 (63%), Gaps = 15/136 (11%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGH--IAASQLSNTFVVGF 58
           YR A  EV+ ++S F+ ++ERASIDEAYIDLT  V ER++ +    I+A  L +T++ G 
Sbjct: 92  YREASVEVMEIMSYFA-VIERASIDEAYIDLTSAVQERLQKLQGQPISADLLPSTYIEGL 150

Query: 59  --GPDNND----EDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVL 112
             GP   +    E  RK G+++WL  + SD  TS      D + L +  +IVEE+RAA+ 
Sbjct: 151 PRGPTVEETVQKEAIRKQGLLQWLDSLQSDDPTS-----PDLR-LTVGAMIVEEMRAAIE 204

Query: 113 SKTQFHCSAGIAHNKV 128
           SKT F CSAGI+HNKV
Sbjct: 205 SKTGFQCSAGISHNKV 220

DNA polymerase specifically involved in DNA repair. Plays an important role in translesion synthesis, where the normal high fidelity DNA polymerases cannot proceed and DNA synthesis stalls. Plays an important role in the repair of UV-induced pyrimidine dimers. Depending on the context, it inserts the correct base, but causes frequent base transitions and transversions. May play a role in hypermutation at immunoglobulin genes. Forms a Schiff base with 5'-deoxyribose phosphate at abasic sites, but does not have lyase activity. Targets POLI to replication foci.
Mus musculus (taxid: 10090)
EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: 7

>sp|Q9Y253|POLH_HUMAN DNA polymerase eta OS=Homo sapiens GN=POLH PE=1 SV=1

 Score =  101 bits (251), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 60/137 (43%), Positives = 83/137 (60%), Gaps = 16/137 (11%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGH--IAASQLSNTFVVGF 58
           YR A  EV+ ++S F+ ++ERASIDEAY+DLT  V ER++ +    I+A  L +T++ G 
Sbjct: 92  YREASVEVMEIMSRFA-VIERASIDEAYVDLTSAVQERLQKLQGQPISADLLPSTYIEGL 150

Query: 59  --GPDNNDEDA-----RKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAV 111
             GP   +E       RK G+ +WL  +  D  TS      D Q L +  VIVEE+RAA+
Sbjct: 151 PQGPTTAEETVQKEGMRKQGLFQWLDSLQIDNLTS-----PDLQ-LTVGAVIVEEMRAAI 204

Query: 112 LSKTQFHCSAGIAHNKV 128
             +T F CSAGI+HNKV
Sbjct: 205 ERETGFQCSAGISHNKV 221

DNA polymerase specifically involved in DNA repair. Plays an important role in translesion synthesis, where the normal high fidelity DNA polymerases cannot proceed and DNA synthesis stalls. Plays an important role in the repair of UV-induced pyrimidine dimers. Depending on the context, it inserts the correct base, but causes frequent base transitions and transversions. May play a role in hypermutation at immunoglobulin genes. Forms a Schiff base with 5'-deoxyribose phosphate at abasic sites, but does not have lyase activity. Targets POLI to replication foci.

Homo sapiens (taxid: 9606)

EC: 2

EC: .

EC: 7

EC: .

EC: 7

EC: .

EC: 7

>sp|Q9UNA4|POLI_HUMAN DNA polymerase iota OS=Homo sapiens GN=POLI PE=1 SV=3

 Score = 47.0 bits (110), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 34/128 (26%), Positives = 59/128 (46%), Gaps = 25/128 (19%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGP 60
           YR    +V  +L EFS +VER   DE ++DLT++V +R++    + + +LS   V     
Sbjct: 127 YREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVEKRLQ---QLQSDELSAVTVS---- 179

Query: 61  DNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCS 120
                           G VY++   +L++       L +   I  E+R A+ ++      
Sbjct: 180 ----------------GHVYNNQSINLLDVLH--IRLLVGSQIAAEMREAMYNQLGLTGC 221

Query: 121 AGIAHNKV 128
           AG+A NK+
Sbjct: 222 AGVASNKL 229

Error-prone DNA polymerase specifically involved in DNA repair. Plays an important role in translesion synthesis, where the normal high-fidelity DNA polymerases cannot proceed and DNA synthesis stalls. Favors Hoogsteen base-pairing in the active site. Inserts the correct base with high-fidelity opposite an adenosine template. Exhibits low fidelity and efficiency opposite a thymidine template, where it will preferentially insert guanosine. May play a role in hypermutation of immunogobulin genes. Forms a Schiff base with 5'-deoxyribose phosphate at abasic sites, but may not have lyase activity.

Homo sapiens (taxid: 9606)

EC: 2

EC: .

EC: 7

EC: .

EC: 7

EC: .

EC: 7

>sp|Q6R3M4|POLI_MOUSE DNA polymerase iota OS=Mus musculus GN=Poli PE=1 SV=1

 Score = 44.3 bits (103), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 32/128 (25%), Positives = 57/128 (44%), Gaps = 25/128 (19%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGP 60
           YR    +V  +L EFS  VER   DE ++DLT++V +R++    + + ++ +  V     
Sbjct: 102 YREMSYKVTELLEEFSPAVERLGFDENFVDLTEMVEKRLQ---QLPSEEVPSVTV----- 153

Query: 61  DNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCS 120
                           G VY++   +L       + L +   I  E+R A+ ++      
Sbjct: 154 ---------------FGHVYNNQSVNLHNIMH--RRLVVGSQIAAEMREAMYNQLGLTGC 196

Query: 121 AGIAHNKV 128
           AG+A NK+
Sbjct: 197 AGVAPNKL 204

Error-prone DNA polymerase specifically involved in DNA repair. Plays an important role in translesion synthesis, where the normal high-fidelity DNA polymerases cannot proceed and DNA synthesis stalls. Favors Hoogsteen base-pairing in the active site. Inserts the correct base with high-fidelity opposite an adenosine template. Exhibits low fidelity and efficiency opposite a thymidine template, where it will preferentially insert guanosine. May play a role in hypermutation of immunogobulin genes. Forms a Schiff base with 5'-deoxyribose phosphate at abasic sites, but may not have lyase activity.

Mus musculus (taxid: 10090)

EC: 2

EC: .

EC: 7

EC: .

EC: 7

EC: .

EC: 7

>sp|A7Z6F3|DPO4_BACA2 DNA polymerase IV OS=Bacillus amyloliquefaciens (strain FZB42) GN=dinB PE=3 SV=1

 Score = 43.9 bits (102), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 16/36 (44%), Positives = 28/36 (77%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVH 36
           YR++ +E+ ++L E++++VE  SIDE Y+D+TD  H
Sbjct: 84  YRSSSKEMFSILREYTDLVEPVSIDEGYMDITDTPH 119

Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. May be involved in translesional synthesis, in conjunction with the beta clamp from PolIII.

Bacillus amyloliquefaciens (strain FZB42) (taxid: 326423)

EC: 2

EC: .

EC: 7

EC: .

EC: 7

EC: .

EC: 7

>sp|P54545|DPO41_BACSU DNA polymerase IV 1 OS=Bacillus subtilis (strain 168) GN=dinB1 PE=3 SV=2

 Score = 42.7 bits (99), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 16/33 (48%), Positives = 25/33 (75%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTD 33
           YRN+ R +  +L E++++VE  SIDE Y+D+TD
Sbjct: 84  YRNSSRAMFTILREYTDLVEPVSIDEGYMDMTD 116

Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. May be involved in translesional synthesis, in conjunction with the beta clamp from PolIII.

Bacillus subtilis (strain 168) (taxid: 224308)

EC: 2

EC: .

EC: 7

EC: .

EC: 7

EC: .

EC: 7

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	129
380014904	700	PREDICTED: DNA polymerase eta-like [Apis	0.945	0.174	0.503	3e-26
350412770	818	PREDICTED: DNA polymerase eta-like [Bomb	0.922	0.145	0.525	6e-26
340710696	820	PREDICTED: DNA polymerase eta-like [Bomb	0.922	0.145	0.518	8e-26
328786259	689	PREDICTED: DNA polymerase eta [Apis mell	0.945	0.177	0.496	7e-25
383850772	774	PREDICTED: DNA polymerase eta-like [Mega	0.930	0.155	0.477	5e-24
291244467	289	PREDICTED: DNA-directed DNA polymerase e	0.914	0.408	0.467	1e-23
197245419	753	DNA-directed DNA polymerase eta [Nasonia	0.922	0.158	0.454	3e-22
157817057	689	DNA polymerase eta [Rattus norvegicus] g	0.937	0.175	0.463	3e-22
307200513	827	DNA polymerase eta [Harpegnathos saltato	0.945	0.147	0.438	3e-22
111308137	294	Zgc:136881 [Danio rerio]	0.945	0.414	0.488	2e-21

>gi|380014904|ref|XP_003691455.1| PREDICTED: DNA polymerase eta-like [Apis florea]

 Score =  123 bits (308), Expect = 3e-26,   Method: Composition-based stats.
 Identities = 66/131 (50%), Positives = 91/131 (69%), Gaps = 9/131 (6%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIA--ASQLSNTFVVGF 58
           YRNAGREVI ++ E  N++ERAS+DEAY+D+TD+VH+RM +  + +  A+QLSNTFVVG+
Sbjct: 93  YRNAGREVINIIKEHCNVIERASVDEAYLDITDMVHKRMSTNLNFSDLATQLSNTFVVGY 152

Query: 59  GP-DNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQF 117
                NDE+ R  G+  W+  V+ +      E+ E  Q+LAIAG+IVE+IR  +  K  F
Sbjct: 153 SEIGKNDEEERSKGIKTWIKNVFEE-----FEDIEA-QKLAIAGLIVEKIRTDISDKIGF 206

Query: 118 HCSAGIAHNKV 128
            CSAGIA NK+
Sbjct: 207 KCSAGIAQNKI 217

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350412770|ref|XP_003489756.1| PREDICTED: DNA polymerase eta-like [Bombus impatiens]

 Score =  122 bits (305), Expect = 6e-26,   Method: Composition-based stats.
 Identities = 71/135 (52%), Positives = 91/135 (67%), Gaps = 16/135 (11%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMK----SIGHIAASQLSNTFVV 56
           YR+AGREVI V+ +  NI+ERAS+DEAY+D+TD+V +RM     S+ H+  +QLSNTFVV
Sbjct: 93  YRSAGREVINVIKKHCNIIERASVDEAYLDITDLVCKRMSTYSISLNHL-VTQLSNTFVV 151

Query: 57  GFGP-DNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDF--QELAIAGVIVEEIRAAVLS 113
           G+     NDE+ R  G   W+  V+        EN ED   Q+LAIAG+IVEEIRA +  
Sbjct: 152 GYSEVGKNDEEERSKGTETWIMNVF--------ENLEDIEAQKLAIAGLIVEEIRADIFD 203

Query: 114 KTQFHCSAGIAHNKV 128
           KT F CSAGIA NK+
Sbjct: 204 KTGFRCSAGIAGNKI 218

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340710696|ref|XP_003393922.1| PREDICTED: DNA polymerase eta-like [Bombus terrestris]

 Score =  121 bits (304), Expect = 8e-26,   Method: Composition-based stats.
 Identities = 70/135 (51%), Positives = 91/135 (67%), Gaps = 16/135 (11%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMK----SIGHIAASQLSNTFVV 56
           YR+AGREVI V+ +  NI+ERAS+DEAY+D+TD+V ++M     S+ H+  +QLSNTFVV
Sbjct: 93  YRSAGREVINVIKKHCNIIERASVDEAYLDITDLVCKKMSTYSISLNHL-VTQLSNTFVV 151

Query: 57  GFGP-DNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDF--QELAIAGVIVEEIRAAVLS 113
           G+     NDE+ R  G   W+  V+        EN ED   Q+LAIAG+IVEEIRA +  
Sbjct: 152 GYSEVGKNDEEERSKGTKTWIMNVF--------ENLEDIEAQKLAIAGLIVEEIRADIFD 203

Query: 114 KTQFHCSAGIAHNKV 128
           KT F CSAGIA NK+
Sbjct: 204 KTGFRCSAGIAENKI 218

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328786259|ref|XP_001122310.2| PREDICTED: DNA polymerase eta [Apis mellifera]

 Score =  118 bits (296), Expect = 7e-25,   Method: Composition-based stats.
 Identities = 65/131 (49%), Positives = 89/131 (67%), Gaps = 9/131 (6%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIA--ASQLSNTFVVGF 58
           YR+AG EVI V+ E  NI+ERAS+DEAY+D+TD+VH+RM +  + +  A+QLSNTFVVG+
Sbjct: 93  YRSAGCEVINVIKEHCNIIERASVDEAYLDITDMVHKRMSTNLNFSNLATQLSNTFVVGY 152

Query: 59  GP-DNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQF 117
                NDE+ R  G   W+  ++ +      E+ E  Q+ AIAG+IVE+IRA +  K  F
Sbjct: 153 SEIGKNDEEERSKGTKIWIKNIFEE-----FEDIEA-QKFAIAGLIVEKIRADIFDKIGF 206

Query: 118 HCSAGIAHNKV 128
            CSAGIA NK+
Sbjct: 207 KCSAGIAQNKI 217

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383850772|ref|XP_003700950.1| PREDICTED: DNA polymerase eta-like [Megachile rotundata]

 Score =  115 bits (288), Expect = 5e-24,   Method: Composition-based stats.
 Identities = 64/134 (47%), Positives = 91/134 (67%), Gaps = 14/134 (10%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKS---IGHIAASQLSNTFVVG 57
           YR+AGR+V+ V+ +  NI+ERAS+DEAY+D+TD+V +RM +         +QLSNTF+VG
Sbjct: 93  YRSAGRDVLNVIKKHCNIIERASVDEAYLDITDIVAKRMSTSFLSQEYLVTQLSNTFIVG 152

Query: 58  FGP-DNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDF--QELAIAGVIVEEIRAAVLSK 114
           +     NDE+ R+ GV  WL        T++ E  ED   QELA+AGVIVEE+R  + ++
Sbjct: 153 YSEIGKNDEEQRRKGVNAWL--------TNIFEELEDVQAQELALAGVIVEELRQDIYNE 204

Query: 115 TQFHCSAGIAHNKV 128
           T F CSAGI++NK+
Sbjct: 205 TGFKCSAGISNNKI 218

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|291244467|ref|XP_002742117.1| PREDICTED: DNA-directed DNA polymerase eta-like, partial [Saccoglossus kowalevskii]

 Score =  114 bits (285), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 64/137 (46%), Positives = 87/137 (63%), Gaps = 19/137 (13%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAAS--QLSNTFVVGF 58
           YR+A  EV+ VL  FS  VERAS+DEAYIDLTD + ++M+ IG +  S   L NTFVVG+
Sbjct: 89  YRDACVEVMEVLCTFSKCVERASVDEAYIDLTDEIDKKMEEIGDVDVSIDMLPNTFVVGW 148

Query: 59  -GPDNNDE------DARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAV 111
            G +NND       +++ +GV +WL   +S           + + LAI  VIVEE+R AV
Sbjct: 149 DGKENNDPNEEPPLESQTSGVFQWLNNCHSI----------EHKRLAIGAVIVEEMRKAV 198

Query: 112 LSKTQFHCSAGIAHNKV 128
             KT+F CSAG++HNK+
Sbjct: 199 YQKTEFRCSAGVSHNKI 215

Source: Saccoglossus kowalevskii

Species: Saccoglossus kowalevskii

Genus: Saccoglossus

Family: Harrimaniidae

Class: Enteropneusta

Phylum: Hemichordata

Superkingdom: Eukaryota

>gi|197245419|ref|NP_001127801.1| DNA-directed DNA polymerase eta [Nasonia vitripennis]

 Score =  109 bits (273), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 60/132 (45%), Positives = 82/132 (62%), Gaps = 13/132 (9%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERM-KSI--GHIAASQLSNTFVVG 57
           YR+AGREVI VL ++ NIVERAS+DEAY+D+T +V +++ K I      + QL N+++VG
Sbjct: 92  YRSAGREVIDVLKKYCNIVERASVDEAYLDITQIVDDKLSKEIIDSDSISKQLENSYIVG 151

Query: 58  FG-PDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQ 116
           F   D N+E+ R  G+ +WL ++  D            Q LAIAG  VE IR  V   T 
Sbjct: 152 FSESDINNEEQRSKGLQDWLSELADDI---------QIQRLAIAGAFVEHIRKEVYDTTG 202

Query: 117 FHCSAGIAHNKV 128
           F CSAGI+ NK+
Sbjct: 203 FRCSAGISFNKI 214

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157817057|ref|NP_001101674.1| DNA polymerase eta [Rattus norvegicus] gi|149069361|gb|EDM18802.1| polymerase (DNA directed), eta (RAD 30 related) (predicted) [Rattus norvegicus]

 Score =  109 bits (273), Expect = 3e-22,   Method: Composition-based stats.
 Identities = 63/136 (46%), Positives = 87/136 (63%), Gaps = 15/136 (11%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGH--IAASQLSNTFVVGF 58
           YR A  EV+ ++S F+ ++ERASIDEAYIDLT+ V ER++ +    ++A  L +T++ G 
Sbjct: 92  YREASVEVMEIMSHFA-VIERASIDEAYIDLTNAVQERLEKLQGQPVSADLLPSTYIEGL 150

Query: 59  --GPDNND----EDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVL 112
             GP   D    ED RK G+++WLG +  D  TS      D + L +  VIVEE+RAA+ 
Sbjct: 151 PRGPAVEDTVEKEDIRKQGLLQWLGSLEKDDPTS-----PDLR-LTVGAVIVEEMRAAIE 204

Query: 113 SKTQFHCSAGIAHNKV 128
            KT F CSAGI+HNKV
Sbjct: 205 RKTGFQCSAGISHNKV 220

Source: Rattus norvegicus

Species: Rattus norvegicus

Genus: Rattus

Family: Muridae

Order: Rodentia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|307200513|gb|EFN80675.1| DNA polymerase eta [Harpegnathos saltator]

 Score =  109 bits (273), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 57/130 (43%), Positives = 86/130 (66%), Gaps = 8/130 (6%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSI-GHIAASQLSNTFVVGFG 59
           YR AG EVI V+ +  N++ERAS+DEAY+D+TD+V +R+  I  +   S L+NTFVVG+ 
Sbjct: 91  YRKAGHEVIKVIRKHCNVIERASVDEAYLDITDIVEKRLDKISSNELISSLANTFVVGYS 150

Query: 60  P-DNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFH 118
               +DE+ R  G+  W+   + +       +    Q+LA+AG+IVEEIRA++ ++T F 
Sbjct: 151 EIGKSDEEERHKGLQTWILDSFKEL------HDIQAQKLAVAGMIVEEIRASIYNETGFR 204

Query: 119 CSAGIAHNKV 128
           CSAGI+ NK+
Sbjct: 205 CSAGISQNKI 214

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|111308137|gb|AAI21715.1| Zgc:136881 [Danio rerio]

 Score =  107 bits (266), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 66/135 (48%), Positives = 85/135 (62%), Gaps = 13/135 (9%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMK--SIGHIAASQLSNTFVVGF 58
           YR A  EVI V+S F+ ++ERASIDEAY+DLT  V ER+K  S+  I A QL NT + GF
Sbjct: 92  YREASVEVIEVMSRFA-VIERASIDEAYMDLTASVQERLKNTSVQDITAQQLKNTHIQGF 150

Query: 59  GPDNN----DEDA-RKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLS 113
                    D DA R AG+ +WL  + S T++S      D + LA+  +IVE++RAAV  
Sbjct: 151 PTQQENTHLDRDAQRAAGLQQWLDLLSSSTESS----PADLR-LAVGALIVEQMRAAVEE 205

Query: 114 KTQFHCSAGIAHNKV 128
            T F CSAGI+HNKV
Sbjct: 206 HTGFRCSAGISHNKV 220

Source: Danio rerio

Species: Danio rerio

Genus: Danio

Family: Cyprinidae

Order: Cypriniformes

Class: Actinopterygii

Phylum: Chordata

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	129
RGD|1309893	689	Polh "polymerase (DNA directed	0.937	0.175	0.470	2.2e-22
ZFIN|ZDB-GENE-060421-4949	749	polh "polymerase (DNA directed	0.945	0.162	0.496	7.1e-22
UNIPROTKB|E2RC81	712	POLH "Uncharacterized protein"	0.937	0.169	0.467	2.2e-21
MGI|MGI:1891457	694	Polh "polymerase (DNA directed	0.937	0.174	0.463	5.7e-21
UNIPROTKB|B4DG64	651	POLH "DNA polymerase eta" [Hom	0.937	0.185	0.445	6e-20
UNIPROTKB|F1MZ79	710	POLH "Uncharacterized protein"	0.937	0.170	0.430	7.1e-20
UNIPROTKB|Q9Y253	713	POLH "DNA polymerase eta" [Hom	0.937	0.169	0.445	7.2e-20
UNIPROTKB|F1RRJ6	698	POLH "Uncharacterized protein"	0.930	0.171	0.427	6.4e-19
FB|FBgn0037141	885	DNApol-eta "DNApol-eta" [Droso	0.976	0.142	0.398	1.6e-15
UNIPROTKB|F1NCM3	657	POLH "Uncharacterized protein"	0.899	0.176	0.451	2.6e-15

RGD|1309893 Polh "polymerase (DNA directed), eta" [Rattus norvegicus (taxid:10116)]

 Score = 269 (99.8 bits), Expect = 2.2e-22, P = 2.2e-22
 Identities = 64/136 (47%), Positives = 88/136 (64%)

Query:     1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSI-GH-IAASQLSNTFVVGF 58
             YR A  EV+ ++S F+ ++ERASIDEAYIDLT+ V ER++ + G  ++A  L +T++ G 
Sbjct:    92 YREASVEVMEIMSHFA-VIERASIDEAYIDLTNAVQERLEKLQGQPVSADLLPSTYIEGL 150

Query:    59 --GPDNND----EDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVL 112
               GP   D    ED RK G+++WLG +  D  TS      D + L +  VIVEE+RAA+ 
Sbjct:   151 PRGPAVEDTVEKEDIRKQGLLQWLGSLEKDDPTS-----PDLR-LTVGAVIVEEMRAAIE 204

Query:   113 SKTQFHCSAGIAHNKV 128
              KT F CSAGI+HNKV
Sbjct:   205 RKTGFQCSAGISHNKV 220

GO:0000731 "DNA synthesis involved in DNA repair" evidence=IEA;ISO

GO:0003674 "molecular_function" evidence=ND

GO:0003684 "damaged DNA binding" evidence=IEA

GO:0003887 "DNA-directed DNA polymerase activity" evidence=IEA;ISO

GO:0005575 "cellular_component" evidence=ND

GO:0005634 "nucleus" evidence=IEA;ISO

GO:0005737 "cytoplasm" evidence=IEA;ISO

GO:0006290 "pyrimidine dimer repair" evidence=IEA;ISO

GO:0006301 "postreplication repair" evidence=IEA;ISO

GO:0008150 "biological_process" evidence=ND

GO:0010225 "response to UV-C" evidence=IEA;ISO

GO:0005730 "nucleolus" evidence=ISO

ZFIN|ZDB-GENE-060421-4949 polh "polymerase (DNA directed), eta" [Danio rerio (taxid:7955)]

 Score = 265 (98.3 bits), Expect = 7.1e-22, P = 7.1e-22
 Identities = 67/135 (49%), Positives = 87/135 (64%)

Query:     1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMK--SIGHIAASQLSNTFVVGF 58
             YR A  EVI V+S F+ ++ERASIDEAY+DLT  V ER+K  S+  I A QL NT + GF
Sbjct:    92 YREASVEVIEVMSRFA-VIERASIDEAYMDLTASVQERLKNTSVQDITAQQLKNTHIQGF 150

Query:    59 GP--DNN--DEDA-RKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLS 113
                 +N   D DA R AG+ +WL  + S T++S      D + LA+  +IVE++RAAV  
Sbjct:   151 PTQQENTHLDRDAQRAAGLQQWLDLLSSSTESS----PADLR-LAVGALIVEQMRAAVEE 205

Query:   114 KTQFHCSAGIAHNKV 128
              T F CSAGI+HNKV
Sbjct:   206 HTGFRCSAGISHNKV 220

GO:0003684 "damaged DNA binding" evidence=IEA

GO:0003887 "DNA-directed DNA polymerase activity" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

UNIPROTKB|E2RC81 POLH "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 260 (96.6 bits), Expect = 2.2e-21, P = 2.2e-21
 Identities = 64/137 (46%), Positives = 87/137 (63%)

Query:     1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSI-GH-IAASQLSNTFVVGF 58
             YR A  EV+ +LS F+ ++ERASIDEAYIDLT  V ER++++ G  I+A  L  T++ G 
Sbjct:    92 YREASVEVMGILSRFA-VIERASIDEAYIDLTSAVQERLQNLQGQPISADLLPTTYIEGL 150

Query:    59 --GP---DNND--EDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAV 111
               GP   +  D  E+ RK G+ +WL  +  D +TS      D Q L +  VIVEE+RAA+
Sbjct:   151 PQGPTTAEGTDQKEETRKQGLFQWLDSLQIDNNTS-----PDLQ-LTVGAVIVEEMRAAI 204

Query:   112 LSKTQFHCSAGIAHNKV 128
               +T F CSAGI+HNKV
Sbjct:   205 ERETGFQCSAGISHNKV 221

GO:0010225 "response to UV-C" evidence=IEA

GO:0006301 "postreplication repair" evidence=IEA

GO:0006290 "pyrimidine dimer repair" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003887 "DNA-directed DNA polymerase activity" evidence=IEA

GO:0000731 "DNA synthesis involved in DNA repair" evidence=IEA

GO:0003684 "damaged DNA binding" evidence=IEA

MGI|MGI:1891457 Polh "polymerase (DNA directed), eta (RAD 30 related)" [Mus musculus (taxid:10090)]

 Score = 256 (95.2 bits), Expect = 5.7e-21, P = 5.7e-21
 Identities = 63/136 (46%), Positives = 87/136 (63%)

Query:     1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSI-GH-IAASQLSNTFVVGF 58
             YR A  EV+ ++S F+ ++ERASIDEAYIDLT  V ER++ + G  I+A  L +T++ G 
Sbjct:    92 YREASVEVMEIMSYFA-VIERASIDEAYIDLTSAVQERLQKLQGQPISADLLPSTYIEGL 150

Query:    59 --GPDNND----EDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVL 112
               GP   +    E  RK G+++WL  + SD  TS      D + L +  +IVEE+RAA+ 
Sbjct:   151 PRGPTVEETVQKEAIRKQGLLQWLDSLQSDDPTS-----PDLR-LTVGAMIVEEMRAAIE 204

Query:   113 SKTQFHCSAGIAHNKV 128
             SKT F CSAGI+HNKV
Sbjct:   205 SKTGFQCSAGISHNKV 220

GO:0000731 "DNA synthesis involved in DNA repair" evidence=ISO

GO:0003677 "DNA binding" evidence=IEA

GO:0003684 "damaged DNA binding" evidence=IEA

GO:0003887 "DNA-directed DNA polymerase activity" evidence=IDA

GO:0005634 "nucleus" evidence=IEA

GO:0006260 "DNA replication" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0006290 "pyrimidine dimer repair" evidence=IDA

GO:0006301 "postreplication repair" evidence=IDA

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

GO:0010225 "response to UV-C" evidence=ISO

GO:0016740 "transferase activity" evidence=IEA

GO:0016779 "nucleotidyltransferase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|B4DG64 POLH "DNA polymerase eta" [Homo sapiens (taxid:9606)]

 Score = 246 (91.7 bits), Expect = 6.0e-20, P = 6.0e-20
 Identities = 61/137 (44%), Positives = 84/137 (61%)

Query:     1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSI-GH-IAASQLSNTFVVGF 58
             YR A  EV+ ++S F+ ++ERASIDEAY+DLT  V ER++ + G  I+A  L +T++ G 
Sbjct:    30 YREASVEVMEIMSRFA-VIERASIDEAYVDLTSAVQERLQKLQGQPISADLLPSTYIEGL 88

Query:    59 --GPDNNDEDA-----RKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAV 111
               GP   +E       RK G+ +WL  +  D  TS      D Q L +  VIVEE+RAA+
Sbjct:    89 PQGPTTAEETVQKEGMRKQGLFQWLDSLQIDNLTS-----PDLQ-LTVGAVIVEEMRAAI 142

Query:   112 LSKTQFHCSAGIAHNKV 128
               +T F CSAGI+HNKV
Sbjct:   143 ERETGFQCSAGISHNKV 159

GO:0003684 "damaged DNA binding" evidence=IEA

GO:0003887 "DNA-directed DNA polymerase activity" evidence=IEA

GO:0006290 "pyrimidine dimer repair" evidence=IEA

GO:0006301 "postreplication repair" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|F1MZ79 POLH "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 246 (91.7 bits), Expect = 7.1e-20, P = 7.1e-20
 Identities = 59/137 (43%), Positives = 87/137 (63%)

Query:     1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGH--IAASQLSNTFVVGF 58
             YR+A  EV+ V+S F+ ++ER SIDEAY+DLT  V ER++ + +  I+A  L  T + GF
Sbjct:    91 YRDASMEVMEVMSRFA-VMERGSIDEAYLDLTSAVQERLQKLQNQPISADLLPTTCIEGF 149

Query:    59 --GPDNND-----EDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAV 111
               GP   +     E+ RK G+++WL  + +++ +S      D Q L +  VIVEE+RAA+
Sbjct:   150 PQGPTTTEGTVEKEERRKQGLLQWLDSLQTESTSS-----PDLQ-LTMGAVIVEEMRAAI 203

Query:   112 LSKTQFHCSAGIAHNKV 128
               +T F CSAGI+HNKV
Sbjct:   204 ERQTGFQCSAGISHNKV 220

GO:0010225 "response to UV-C" evidence=IEA

GO:0006301 "postreplication repair" evidence=IEA

GO:0006290 "pyrimidine dimer repair" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003887 "DNA-directed DNA polymerase activity" evidence=IEA

GO:0000731 "DNA synthesis involved in DNA repair" evidence=IEA

GO:0003684 "damaged DNA binding" evidence=IEA

UNIPROTKB|Q9Y253 POLH "DNA polymerase eta" [Homo sapiens (taxid:9606)]

 Score = 246 (91.7 bits), Expect = 7.2e-20, P = 7.2e-20
 Identities = 61/137 (44%), Positives = 84/137 (61%)

Query:     1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSI-GH-IAASQLSNTFVVGF 58
             YR A  EV+ ++S F+ ++ERASIDEAY+DLT  V ER++ + G  I+A  L +T++ G 
Sbjct:    92 YREASVEVMEIMSRFA-VIERASIDEAYVDLTSAVQERLQKLQGQPISADLLPSTYIEGL 150

Query:    59 --GPDNNDEDA-----RKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAV 111
               GP   +E       RK G+ +WL  +  D  TS      D Q L +  VIVEE+RAA+
Sbjct:   151 PQGPTTAEETVQKEGMRKQGLFQWLDSLQIDNLTS-----PDLQ-LTVGAVIVEEMRAAI 204

Query:   112 LSKTQFHCSAGIAHNKV 128
               +T F CSAGI+HNKV
Sbjct:   205 ERETGFQCSAGISHNKV 221

GO:0003684 "damaged DNA binding" evidence=IEA

GO:0006260 "DNA replication" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0006290 "pyrimidine dimer repair" evidence=IEA

GO:0006301 "postreplication repair" evidence=IEA

GO:0000731 "DNA synthesis involved in DNA repair" evidence=IDA

GO:0010225 "response to UV-C" evidence=IDA

GO:0006282 "regulation of DNA repair" evidence=TAS

GO:0003887 "DNA-directed DNA polymerase activity" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006281 "DNA repair" evidence=TAS

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|F1RRJ6 POLH "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 237 (88.5 bits), Expect = 6.4e-19, P = 6.4e-19
 Identities = 59/138 (42%), Positives = 85/138 (61%)

Query:     1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSI-GH-IAASQLSNTFVVGF 58
             YR A  EV+ V+S F+ ++ERASIDEA++DLT  V ER++ + G  ++A  L  T++ GF
Sbjct:    92 YREASAEVMEVMSRFA-MIERASIDEAFVDLTSAVRERLQKLQGQPVSADLLPTTYIEGF 150

Query:    59 GPDN--------NDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAA 110
              P            E+ RK G+++WL  + SD +TS  E      +L +  VIVEE+RAA
Sbjct:   151 -PQGLTTAEGTVEKEEMRKQGLLQWLDSLQSD-NTSSPE-----LQLTVGAVIVEEMRAA 203

Query:   111 VLSKTQFHCSAGIAHNKV 128
             +  +T   CSAGI+HNKV
Sbjct:   204 IERQTGLQCSAGISHNKV 221

GO:0010225 "response to UV-C" evidence=IEA

GO:0006301 "postreplication repair" evidence=IEA

GO:0006290 "pyrimidine dimer repair" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003887 "DNA-directed DNA polymerase activity" evidence=IEA

GO:0000731 "DNA synthesis involved in DNA repair" evidence=IEA

GO:0003684 "damaged DNA binding" evidence=IEA

FB|FBgn0037141 DNApol-eta "DNApol-eta" [Drosophila melanogaster (taxid:7227)]

 Score = 207 (77.9 bits), Expect = 1.6e-15, P = 1.6e-15
 Identities = 55/138 (39%), Positives = 77/138 (55%)

Query:     1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSI--GHIAAS--QLSNTFVV 56
             YR+AG+EV  VL  F+ ++ERAS+DEAY+D+T+ V+ RM+ +  G  A    +L NTF V
Sbjct:   101 YRDAGKEVANVLQRFTQLLERASVDEAYLDITETVNHRMQQMQSGAFALQPQELVNTFAV 160

Query:    57 GF---GPDNNDEDARKAGVM---EWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAA 110
             G+   G   N    R A      E     Y   D   +  + D + L I   +  E+RAA
Sbjct:   161 GYPSIGDYVNKITNRFANPYMDDERYQMSYDQNDLPAVRQS-DIR-LLIGASVAGEVRAA 218

Query:   111 VLSKTQFHCSAGIAHNKV 128
             V  +T + CSAGIAHNK+
Sbjct:   219 VKKETGYECSAGIAHNKI 236

GO:0003887 "DNA-directed DNA polymerase activity" evidence=IMP;IDA;NAS

GO:0019985 "translesion synthesis" evidence=ISS;NAS;IDA

GO:0003684 "damaged DNA binding" evidence=IEA

GO:0000724 "double-strand break repair via homologous recombination" evidence=IMP

UNIPROTKB|F1NCM3 POLH "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 203 (76.5 bits), Expect = 2.6e-15, P = 2.6e-15
 Identities = 60/133 (45%), Positives = 71/133 (53%)

Query:     1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGF-- 58
             YR A  EV+ VLS F+ I ERASI + Y+DLT    ER        A  L  TFV G   
Sbjct:    92 YREASAEVMEVLSRFAAI-ERASIFKGYLDLTGSARERXXX-----AELLPTTFVQGLPA 145

Query:    59 --GPDNND-EDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKT 115
               G    D E+ R+ G+ EWL  +  D       N  D Q LA+  VIVEEIR AV   T
Sbjct:   146 EPGLQPADKEELRRRGLQEWLASLSFDN-----VNCPDLQ-LAMGAVIVEEIRVAVEKAT 199

Query:   116 QFHCSAGIAHNKV 128
              F CSAGI+HNK+
Sbjct:   200 GFRCSAGISHNKM 212

GO:0003684 "damaged DNA binding" evidence=IEA

GO:0000731 "DNA synthesis involved in DNA repair" evidence=IEA

GO:0003887 "DNA-directed DNA polymerase activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006290 "pyrimidine dimer repair" evidence=IEA

GO:0006301 "postreplication repair" evidence=IEA

GO:0010225 "response to UV-C" evidence=IEA

---

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 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	129
cd01702	359	cd01702, PolY_Pol_eta, DNA Polymerase eta	3e-11
cd03586	334	cd03586, PolY_Pol_IV_kappa, DNA Polymerase IV/Kapp	3e-09
PRK01810	407	PRK01810, PRK01810, DNA polymerase IV; Validated	1e-08
pfam00817	148	pfam00817, IMS, impB/mucB/samB family	4e-07
COG0389	354	COG0389, DinP, Nucleotidyltransferase/DNA polymera	5e-07
cd00424	343	cd00424, PolY, Y-family of DNA polymerases	1e-06
cd01702	359	cd01702, PolY_Pol_eta, DNA Polymerase eta	1e-05
cd03586	334	cd03586, PolY_Pol_IV_kappa, DNA Polymerase IV/Kapp	2e-05
PRK02406	343	PRK02406, PRK02406, DNA polymerase IV; Validated	4e-05
PRK14133	347	PRK14133, PRK14133, DNA polymerase IV; Provisional	7e-05
PRK01216	351	PRK01216, PRK01216, DNA polymerase IV; Validated	2e-04
PRK03352	346	PRK03352, PRK03352, DNA polymerase IV; Validated	3e-04
PRK02794	419	PRK02794, PRK02794, DNA polymerase IV; Provisional	7e-04
PRK02406	343	PRK02406, PRK02406, DNA polymerase IV; Validated	0.001
PRK03609	422	PRK03609, umuC, DNA polymerase V subunit UmuC; Rev	0.001
PRK03858	396	PRK03858, PRK03858, DNA polymerase IV; Validated	0.002
cd01700	344	cd01700, PolY_Pol_V_umuC, umuC subunit of DNA Poly	0.003
cd01701	404	cd01701, PolY_Rev1, DNA polymerase Rev1	0.003
PRK03348	454	PRK03348, PRK03348, DNA polymerase IV; Provisional	0.004

>gnl|CDD|176456 cd01702, PolY_Pol_eta, DNA Polymerase eta

 Score = 58.9 bits (143), Expect = 3e-11
 Identities = 18/40 (45%), Positives = 29/40 (72%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMK 40
           YR A R+++ +L  F ++VE+ASIDEAY+DL   + E ++
Sbjct: 94  YRRASRKILNILKRFGDVVEKASIDEAYLDLGSRIVEEIR 133

Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Unlike other Y-family members, Pol eta can efficiently and accurately replicate DNA past UV-induced lesions. Its activity is initiated by two simultaneous interactions: the PIP box in pol eta interacting with PCNA, and the UBZ (ubiquitin-binding zinc finger) in pol eta interacting with monoubiquitin attached to PCNA. Pol eta is more efficient in copying damaged DNA than undamaged DNA and seems to recognize when a lesion has been passed, facilitating a lesion-dependent dissociation from the DNA. Length = 359

>gnl|CDD|176459 cd03586, PolY_Pol_IV_kappa, DNA Polymerase IV/Kappa

 Score = 53.3 bits (129), Expect = 3e-09
 Identities = 20/47 (42%), Positives = 29/47 (61%), Gaps = 1/47 (2%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAA 47
           YR   R+++ +L E++ +VE  SIDEAY+D+TD V     S   IA 
Sbjct: 74  YREVSRQIMEILREYTPLVEPLSIDEAYLDVTDYVRLF-GSATEIAK 119

Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Known primarily as Pol IV in prokaryotes and Pol kappa in eukaryotes, this polymerase has a propensity for generating frameshift mutations. The eukaryotic Pol kappa differs from Pol IV and Dpo4 by an N-terminal extension of ~75 residues known as the "N-clasp" region. The structure of Pol kappa shows DNA that is almost totally encircled by Pol kappa, with the N-clasp region augmenting the interactions between DNA and the polymerase. Pol kappa is more resistant than Pol eta and Pol iota to bulky guanine adducts and is efficient at catalyzing the incorporation of dCTP. Bacterial pol IV has a higher error rate than other Y-family polymerases. Length = 334

>gnl|CDD|179337 PRK01810, PRK01810, DNA polymerase IV; Validated

 Score = 51.2 bits (123), Expect = 1e-08
 Identities = 17/36 (47%), Positives = 25/36 (69%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVH 36
           YR A R++  +LSEF+ +V+  SIDE Y+D+TD   
Sbjct: 83  YREASRQMFQILSEFTPLVQPVSIDEGYLDITDCYA 118

Length = 407

>gnl|CDD|216135 pfam00817, IMS, impB/mucB/samB family

 Score = 45.7 bits (109), Expect = 4e-07
 Identities = 29/129 (22%), Positives = 39/129 (30%), Gaps = 60/129 (46%)

Query: 1   YRNAGREVIAVLSEF-SNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFG 59
           YR A R +  +L  F    VE  SIDEA++DL                            
Sbjct: 72  YRRASRRIAEILRRFSPPKVEVYSIDEAFLDL---------------------------- 103

Query: 60  PDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHC 119
                                    T L       + LA      + +R A+  +T   C
Sbjct: 104 -------------------------TGLERLFGGEEALA------KRLRRAIAEETGLTC 132

Query: 120 SAGIAHNKV 128
           S GIA NK+
Sbjct: 133 SIGIAPNKL 141

These proteins are involved in UV protection. Length = 148

>gnl|CDD|223466 COG0389, DinP, Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 46.5 bits (111), Expect = 5e-07
 Identities = 17/36 (47%), Positives = 25/36 (69%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVH 36
           YR A  E+ A+L  ++ +VE  SIDEA++DLTD + 
Sbjct: 77  YRLASAEIRAILERYTPLVEPLSIDEAFLDLTDALR 112

Length = 354

>gnl|CDD|176453 cd00424, PolY, Y-family of DNA polymerases

 Score = 45.4 bits (108), Expect = 1e-06
 Identities = 20/62 (32%), Positives = 29/62 (46%), Gaps = 14/62 (22%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVH---------ERMKS-----IGHIA 46
           YR     +++ L E + +VE ASIDE ++DLT              R+K      +G I 
Sbjct: 75  YRRLSERLLSELEEVAPLVEVASIDELFLDLTGSARLLGLGSEVALRIKRHIAEQLGGIT 134

Query: 47  AS 48
           AS
Sbjct: 135 AS 136

Y-family DNA polymerases are a specialized subset of polymerases that facilitate translesion synthesis (TLS), a process that allows the bypass of a variety of DNA lesions. Unlike replicative polymerases, TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. The active sites of TLS polymerases are large and flexible to allow the accomodation of distorted bases. Most TLS polymerases are members of the Y-family, including Pol eta, Pol kappa/IV, Pol iota, Rev1, and Pol V, which is found exclusively in bacteria. In eukaryotes, the B-family polymerase Pol zeta also functions as a TLS polymerase. Expression of Y-family polymerases is often induced by DNA damage and is believed to be highly regulated. TLS is likely induced by the monoubiquitination of the replication clamp PCNA, which provides a scaffold for TLS polymerases to bind in order to access the lesion. Because of their high error rates, TLS polymerases are potential targets for cancer treatment and prevention. Length = 343

>gnl|CDD|176456 cd01702, PolY_Pol_eta, DNA Polymerase eta

 Score = 42.7 bits (101), Expect = 1e-05
 Identities = 17/32 (53%), Positives = 21/32 (65%)

Query: 97  LAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV 128
           L +   IVEEIR  V  +  + CSAGIAHNK+
Sbjct: 122 LDLGSRIVEEIRQQVYDELGYTCSAGIAHNKM 153

Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Unlike other Y-family members, Pol eta can efficiently and accurately replicate DNA past UV-induced lesions. Its activity is initiated by two simultaneous interactions: the PIP box in pol eta interacting with PCNA, and the UBZ (ubiquitin-binding zinc finger) in pol eta interacting with monoubiquitin attached to PCNA. Pol eta is more efficient in copying damaged DNA than undamaged DNA and seems to recognize when a lesion has been passed, facilitating a lesion-dependent dissociation from the DNA. Length = 359

>gnl|CDD|176459 cd03586, PolY_Pol_IV_kappa, DNA Polymerase IV/Kappa

 Score = 42.1 bits (100), Expect = 2e-05
 Identities = 15/38 (39%), Positives = 20/38 (52%)

Query: 91  TEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV 128
           T+  +    A  I +EIRA +  +T    SAGIA NK 
Sbjct: 105 TDYVRLFGSATEIAKEIRARIREETGLTASAGIAPNKF 142

Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Known primarily as Pol IV in prokaryotes and Pol kappa in eukaryotes, this polymerase has a propensity for generating frameshift mutations. The eukaryotic Pol kappa differs from Pol IV and Dpo4 by an N-terminal extension of ~75 residues known as the "N-clasp" region. The structure of Pol kappa shows DNA that is almost totally encircled by Pol kappa, with the N-clasp region augmenting the interactions between DNA and the polymerase. Pol kappa is more resistant than Pol eta and Pol iota to bulky guanine adducts and is efficient at catalyzing the incorporation of dCTP. Bacterial pol IV has a higher error rate than other Y-family polymerases. Length = 334

>gnl|CDD|235035 PRK02406, PRK02406, DNA polymerase IV; Validated

 Score = 41.3 bits (98), Expect = 4e-05
 Identities = 11/36 (30%), Positives = 23/36 (63%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVH 36
           Y+   R++  +   +++++E  S+DEAY+D+TD   
Sbjct: 71  YKEVSRQIREIFRRYTDLIEPLSLDEAYLDVTDNKL 106

Length = 343

>gnl|CDD|184529 PRK14133, PRK14133, DNA polymerase IV; Provisional

 Score = 40.5 bits (95), Expect = 7e-05
 Identities = 14/34 (41%), Positives = 23/34 (67%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 34
           Y+   + +  +L E + IVE  SIDEAY+D+T++
Sbjct: 79  YKEVSKNIFKILYEVTPIVEPVSIDEAYLDITNI 112

Length = 347

>gnl|CDD|179251 PRK01216, PRK01216, DNA polymerase IV; Validated

 Score = 39.0 bits (91), Expect = 2e-04
 Identities = 15/35 (42%), Positives = 24/35 (68%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVV 35
           Y+     ++ +L E+S  +E ASIDEAY+D++D V
Sbjct: 81  YQQVSNRIMKLLREYSEKIEIASIDEAYLDISDKV 115

Length = 351

>gnl|CDD|179564 PRK03352, PRK03352, DNA polymerase IV; Validated

 Score = 38.5 bits (90), Expect = 3e-04
 Identities = 19/39 (48%), Positives = 24/39 (61%), Gaps = 6/39 (15%)

Query: 91  TEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVK 129
           T+D + LA      EEIRAAVL +T   CS GI  NK++
Sbjct: 117 TDDPEALA------EEIRAAVLERTGLSCSVGIGDNKLR 149

Length = 346

>gnl|CDD|179473 PRK02794, PRK02794, DNA polymerase IV; Provisional

 Score = 37.6 bits (88), Expect = 7e-04
 Identities = 15/32 (46%), Positives = 22/32 (68%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLT 32
           Y   GREV A++   + +VE  SIDEA++DL+
Sbjct: 111 YVRVGREVRAMMQALTPLVEPLSIDEAFLDLS 142

Length = 419

>gnl|CDD|235035 PRK02406, PRK02406, DNA polymerase IV; Validated

 Score = 36.6 bits (86), Expect = 0.001
 Identities = 12/37 (32%), Positives = 20/37 (54%)

Query: 91  TEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNK 127
           T++   +  A +I +EIR  +  +     SAG+A NK
Sbjct: 102 TDNKLCIGSATLIAQEIRQDIFEELGLTASAGVAPNK 138

Length = 343

>gnl|CDD|179607 PRK03609, umuC, DNA polymerase V subunit UmuC; Reviewed

 Score = 36.7 bits (85), Expect = 0.001
 Identities = 24/65 (36%), Positives = 32/65 (49%), Gaps = 5/65 (7%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHER-MKSIGH-IAASQLSNTFV--- 55
           Y +    V++ L E S  VE  SIDEA+ DLT V + R +   G  I A+ L  T +   
Sbjct: 77  YADMSNRVMSTLEELSPRVEIYSIDEAFCDLTGVRNCRDLTDFGREIRATVLQRTHLTVG 136

Query: 56  VGFGP 60
           VG   
Sbjct: 137 VGIAQ 141

Length = 422

>gnl|CDD|179663 PRK03858, PRK03858, DNA polymerase IV; Validated

 Score = 36.5 bits (85), Expect = 0.002
 Identities = 12/32 (37%), Positives = 19/32 (59%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLT 32
           Y  A + V  V  + + +VE  SIDEA++D+ 
Sbjct: 76  YSRASKAVFEVFRDTTPLVEGLSIDEAFLDVG 107

Length = 396

>gnl|CDD|176454 cd01700, PolY_Pol_V_umuC, umuC subunit of DNA Polymerase V

 Score = 35.6 bits (83), Expect = 0.003
 Identities = 13/28 (46%), Positives = 20/28 (71%)

Query: 6   REVIAVLSEFSNIVERASIDEAYIDLTD 33
           R ++++L  FS  VE  SIDE+++DLT 
Sbjct: 80  RRIMSILERFSPDVEVYSIDESFLDLTG 107

umuC subunit of Pol V. Pol V is a bacterial translesion synthesis (TLS) polymerase that consists of the heterotrimer of one umuC and two umuD subunits. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Pol V, RecA, single stranded DNA-binding protein, beta sliding clamp, and gamma clamp loading complex are responsible for inducing the SOS response in bacteria to repair UV-induced DNA damage. Length = 344

>gnl|CDD|176455 cd01701, PolY_Rev1, DNA polymerase Rev1

 Score = 35.8 bits (83), Expect = 0.003
 Identities = 15/50 (30%), Positives = 19/50 (38%), Gaps = 6/50 (12%)

Query: 79  VYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV 128
              D  + L E  E  +ELA      E IR  +   T    S GI  N +
Sbjct: 150 ALIDITSLLEETYELPEELA------EAIRNEIRETTGCSASVGIGPNIL 193

Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Rev1 has both structural and enzymatic roles. Structurally, it is believed to interact with other nonclassical polymerases and replication machinery to act as a scaffold. Enzymatically, it catalyzes the specific insertion of dCMP opposite abasic sites. Rev1 interacts with the Rev7 subunit of the B-family TLS polymerase Pol zeta (Rev3/Rev7). Rev1 is known to actively promote the introduction of mutations, potentially making it a significant target for cancer treatment. Length = 404

>gnl|CDD|235118 PRK03348, PRK03348, DNA polymerase IV; Provisional

 Score = 35.3 bits (82), Expect = 0.004
 Identities = 14/30 (46%), Positives = 19/30 (63%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYID 30
           YR A R V   L E S +VE+ S DEA+++
Sbjct: 82  YRAASRRVFDTLRELSPVVEQLSFDEAFVE 111

Length = 454

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	129
KOG2095|consensus	656		99.88
PTZ00205	571	DNA polymerase kappa; Provisional	99.74
KOG2094|consensus	490		99.69
cd01703	379	PolY_Pol_iota DNA Polymerase iota. Pol iota, also	99.67
PRK01216	351	DNA polymerase IV; Validated	99.66
cd00424	343	PolY Y-family of DNA polymerases. Y-family DNA pol	99.66
cd01702	359	PolY_Pol_eta DNA Polymerase eta. Pol eta, also cal	99.65
cd01701	404	PolY_Rev1 DNA polymerase Rev1. Rev1 is a translesi	99.63
PRK03609	422	umuC DNA polymerase V subunit UmuC; Reviewed	99.61
PRK03858	396	DNA polymerase IV; Validated	99.6
COG0389	354	DinP Nucleotidyltransferase/DNA polymerase involve	99.6
cd01700	344	PolY_Pol_V_umuC umuC subunit of DNA Polymerase V.	99.6
PRK03103	409	DNA polymerase IV; Reviewed	99.59
PRK02406	343	DNA polymerase IV; Validated	99.59
cd03586	334	PolY_Pol_IV_kappa DNA Polymerase IV/Kappa. Pol IV,	99.57
PRK03348	454	DNA polymerase IV; Provisional	99.56
PRK01810	407	DNA polymerase IV; Validated	99.55
PF00817	149	IMS: impB/mucB/samB family; InterPro: IPR001126 In	99.55
PRK02794	419	DNA polymerase IV; Provisional	99.54
PRK03352	346	DNA polymerase IV; Validated	99.54
PRK14133	347	DNA polymerase IV; Provisional	99.54
cd03468	335	PolY_like DNA Polymerase Y-family. Y-family DNA po	99.42
KOG2093|consensus	1016		99.27

>KOG2095|consensus

Probab=99.88  E-value=6.8e-23  Score=174.62  Aligned_cols=119  Identities=34%  Similarity=0.523  Sum_probs=94.2

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCc----cccccCCCcceeccCCC---------CCchHH
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGH----IAASQLSNTFVVGFGPD---------NNDEDA   67 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~----~~~~~l~~~~~~g~~~~---------~~~~~~   67 (129)
                      ||++|.+|+.+|..|.|+||++|+||+|+|+|+++.+++.++.-    ..+...+..+..+.|..         ...+..
T Consensus        96 YR~as~ev~~~L~~y~~viek~~~dea~ld~tasvder~q~L~s~~~~~~~~~~p~~~~~~~~s~~~~~~~~~~~e~~~~  175 (656)
T KOG2095|consen   96 YREASEEVKESLEPYRPVIEKASKDEAFLDLTASVDERLQDLQSDEFNMLLEEPPYGLIYGLPSALPNTREATNSENPLM  175 (656)
T ss_pred             hhhhHHHHHHHHhhhHHHHHHHhhhhhhhhHHHHHHHHHHHHhhhhhhhhhhccchhcccCCccccchhhhhhhhccccc
Confidence            89999999999999999999999999999999999999988542    22455556666666541         022333


Q ss_pred             hhhchhhhhccccCCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         68 RKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        68 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                      +.+....|+..        +-.+|+|+ +|.+|+.||.+||++|+.+||||||||||+|||
T Consensus       176 ~ee~~~~~~~~--------~d~~~~d~-~L~iGa~Iv~EiR~~i~~elg~tCSAGIa~NKm  227 (656)
T KOG2095|consen  176 REEIVSLWIEN--------DDFDWDDV-RLLIGAQIVKEIRDAIKLELGYTCSAGIAHNKM  227 (656)
T ss_pred             hhhHhhhhhhc--------cccCchhh-hhHHHHHHHHHHHHHHHHHhCceeeccccccHH
Confidence            44455555532        11248998 899999999999999999999999999999997

>PTZ00205 DNA polymerase kappa; Provisional

Probab=99.74  E-value=7e-19  Score=149.88  Aligned_cols=72  Identities=19%  Similarity=0.318  Sum_probs=62.6

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|+++|.+|+|.+|.+||||+|||||++.....                                         
T Consensus       206 Y~~~S~~I~~il~~ysp~ve~~SIDEafLDlT~~~~~~~-----------------------------------------  244 (571)
T PTZ00205        206 YNEESNTVRRIVAEYDPNYISFGLDELTLEVSAYIERFE-----------------------------------------  244 (571)
T ss_pred             HHHHHHHHHHHHHhcCCcEEEeechhceeccCCchhhcc-----------------------------------------
Confidence            899999999999999999999999999999999764200                                         


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                        +.             ..+.++|++||++|+++||||||||||+||+
T Consensus       245 --~~-------------~~~~~iA~~IR~~I~~~tgLt~SiGIA~Nkl  277 (571)
T PTZ00205        245 --GT-------------KTAEDVASELRVRVFGETKLTASAGIGPTAA  277 (571)
T ss_pred             --CC-------------CCHHHHHHHHHHHHHHHHCCcEEEEEcCCHH
Confidence              00             0146899999999999999999999999996

>KOG2094|consensus

Probab=99.69  E-value=2e-17  Score=134.21  Aligned_cols=75  Identities=37%  Similarity=0.492  Sum_probs=64.1

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+.+|++|.+||.+|+|.+-..|+||||||+|..++.+-                                         
T Consensus       176 Yt~~Ske~~~v~~~YDsn~~~~SlDEaylnlT~~l~~~~-----------------------------------------  214 (490)
T KOG2094|consen  176 YTIVSKEIQNVLAQYDSNFCAMSLDEAYLNLTSHLRERE-----------------------------------------  214 (490)
T ss_pred             HHHHHHHHHHHHHHcCCccccchHHHHHHhHHHHHHHhh-----------------------------------------
Confidence            899999999999999999999999999999999987541                                         


Q ss_pred             CCCCccccCChHHHHHHHH-HHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAI-AGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~-aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                       +|..           ... +.+++++||.+|+++||+|||||||+|+|
T Consensus       215 -~g~l-----------~~nG~~evveeiR~rV~qeTglT~SaGIAaN~l  251 (490)
T KOG2094|consen  215 -LGFL-----------VENGITEVVEEIRFRVEQETGLTCSAGIAANKL  251 (490)
T ss_pred             -cchh-----------hhccHHHHHHHHHHHHHHhcCceeeccccHhHH
Confidence             0100           000 46899999999999999999999999987

>cd01703 PolY_Pol_iota DNA Polymerase iota

Probab=99.67  E-value=1.8e-17  Score=136.04  Aligned_cols=67  Identities=33%  Similarity=0.565  Sum_probs=61.0

Q ss_pred             ChHHHHHHHHHHHhcch--hhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcc
Q psy16216          1 YRNAGREVIAVLSEFSN--IVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQ   78 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p--~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~   78 (129)
                      |+++|++|++++++|+|  .||.+||||+|||+|+...                                          
T Consensus        72 Y~~~S~~i~~~l~~~sp~~~ve~~SiDE~~lDvt~~~~------------------------------------------  109 (379)
T cd01703          72 FRDMSKKVYRLLRSYSWNDRVERLGFDENFMDVTEMRL------------------------------------------  109 (379)
T ss_pred             HHHHHHHHHHHHHHcCCHhhEEecCCCcEEEEccCccc------------------------------------------
Confidence            89999999999999999  9999999999999997631                                          


Q ss_pred             ccCCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         79 VYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                                         ..+.++|++||++|+++||||||||||+||+
T Consensus       110 -------------------~~g~~la~~ir~~I~~~~Glt~siGIa~nk~  140 (379)
T cd01703         110 -------------------LVASHIAYEMRERIENELGLTCCAGIASNKL  140 (379)
T ss_pred             -------------------hhHHHHHHHHHHHHHHHhCCeEEEEEcCCHH
Confidence                               1247899999999999999999999999995

Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Pol iota is thought to be one of the least efficient polymerases, particularly when opposite pyrimidines; it can incorporate the correct nucleotide opposite a purine much more efficiently than opposite a pyrimidine, and prefers to insert guanosine instead of adenosine opposite thymidine. Pol iota is believed to use Hoogsteen rather than Watson-Crick base pairing, which may explain the varying efficiency for different template nucleotides.

>PRK01216 DNA polymerase IV; Validated

Probab=99.66  E-value=2.2e-17  Score=134.24  Aligned_cols=69  Identities=38%  Similarity=0.600  Sum_probs=62.2

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|++++.+|+|.||.+|+||+|||||+..+.                                           
T Consensus        81 y~~~s~~i~~~l~~~tp~ve~~siDE~~LDvt~~~~l-------------------------------------------  117 (351)
T PRK01216         81 YQQVSNRIMKLLREYSEKIEIASIDEAYLDISDKVKN-------------------------------------------  117 (351)
T ss_pred             HHHHHHHHHHHHHHhCCceEEccCCeEEEEcccchhc-------------------------------------------
Confidence            8999999999999999999999999999999998651                                           


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                       ++.               +..++++||++|++++|||||+|||+||+
T Consensus       118 -~g~---------------~~~la~~ir~~I~~~~glt~siGia~nk~  149 (351)
T PRK01216        118 -YQD---------------AYNLGLEIKNKILEKEKITVTVGISKNKV  149 (351)
T ss_pred             -cCC---------------HHHHHHHHHHHHHHHHCCcEEEEecCCHH
Confidence             111               46899999999999999999999999986

>cd00424 PolY Y-family of DNA polymerases

Probab=99.66  E-value=2.5e-17  Score=132.78  Aligned_cols=69  Identities=30%  Similarity=0.448  Sum_probs=61.8

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|++++.+|+|.||.+||||+|||||+..+.                                           
T Consensus        75 y~~~s~~i~~~l~~~sp~ve~~siDE~~ldvt~~~~~-------------------------------------------  111 (343)
T cd00424          75 YRRLSERLLSELEEVAPLVEVASIDELFLDLTGSARL-------------------------------------------  111 (343)
T ss_pred             HHHHHHHHHHHHHHhCCcEEEccCCEEEEECCCchhc-------------------------------------------
Confidence            8899999999999999999999999999999997641                                           


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhC-ceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQ-FHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lg-ltcSaGIa~NKl  128 (129)
                       ++               .+.++|++||++|++++| ||||+|||+||+
T Consensus       112 -~~---------------~~~~la~~i~~~i~~~~ggl~~siGia~n~~  144 (343)
T cd00424         112 -LG---------------LGSEVALRIKRHIAEQLGGITASIGIASNKL  144 (343)
T ss_pred             -cC---------------CHHHHHHHHHHHHHHHhCCceEEEeecccHH
Confidence             01               146899999999999998 999999999986

Y-family DNA polymerases are a specialized subset of polymerases that facilitate translesion synthesis (TLS), a process that allows the bypass of a variety of DNA lesions. Unlike replicative polymerases, TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. The active sites of TLS polymerases are large and flexible to allow the accomodation of distorted bases. Most TLS polymerases are members of the Y-family, including Pol eta, Pol kappa/IV, Pol iota, Rev1, and Pol V, which is found exclusively in bacteria. In eukaryotes, the B-family polymerase Pol zeta also functions as a TLS polymerase. Expression of Y-family polymerases is often induced by DNA damage and is believed to be highly regulated. TLS is likely induced by the monoubiquitination of the replication clamp PCNA, which provides a scaffold for TLS polymerases to bind in ord

>cd01702 PolY_Pol_eta DNA Polymerase eta

Probab=99.65  E-value=9e-17  Score=131.01  Aligned_cols=60  Identities=55%  Similarity=0.928  Sum_probs=56.3

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|++++.+|+|.||.+||||+|||+.                                                
T Consensus        94 Y~~~S~~i~~~l~~~sp~vE~~SiDE~flDv~------------------------------------------------  125 (359)
T cd01702          94 YRRASRKILNILKRFGDVVEKASIDEAYLDLG------------------------------------------------  125 (359)
T ss_pred             HHHHHHHHHHHHHHcCCceEECcCCeeHHHHH------------------------------------------------
Confidence            89999999999999999999999999999981                                                


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                                          .++|.+||++|++++|||||||||+||+
T Consensus       126 --------------------~~la~~ir~~I~~~~glt~SiGIa~nk~  153 (359)
T cd01702         126 --------------------SRIVEEIRQQVYDELGYTCSAGIAHNKM  153 (359)
T ss_pred             --------------------HHHHHHHHHHHHHHhCccEEeeecCCHH
Confidence                                2588999999999999999999999996

Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Unlike other Y-family members, Pol eta can efficiently and accurately replicate DNA past UV-induced lesions. Its activity is initiated by two simultaneous interactions: the PIP box in pol eta interacting with PCNA, and the UBZ (ubiquitin-binding zinc finger) in pol eta interacting with monoubiquitin attached to PCNA. Pol eta is more efficient in copying damaged DNA than undamaged DNA and seems to recognize when a lesion has been passed, facilitating a lesion-dependent dissociation from the DNA.

>cd01701 PolY_Rev1 DNA polymerase Rev1

Probab=99.63  E-value=7.8e-17  Score=132.88  Aligned_cols=70  Identities=27%  Similarity=0.434  Sum_probs=61.9

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|++++.+|+|.||.+||||+|||||+..+. +                                         
T Consensus       124 Y~~~s~~i~~il~~~s~~ve~~SiDE~~lDvt~~~~~-~-----------------------------------------  161 (404)
T cd01701         124 YEEVSLTFYEILASYTDNIEAVSCDEALIDITSLLEE-T-----------------------------------------  161 (404)
T ss_pred             HHHHHHHHHHHHHHhCCceEEcccceEEEEccccccc-c-----------------------------------------
Confidence            7899999999999999999999999999999997531 0                                         


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                       ++               .+..++++||++|++++|||||+|||+||+
T Consensus       162 -~~---------------~~~~la~~ir~~I~~~~gl~~siGia~nk~  193 (404)
T cd01701         162 -YE---------------LPEELAEAIRNEIRETTGCSASVGIGPNIL  193 (404)
T ss_pred             -cC---------------CHHHHHHHHHHHHHHHHCCCEEEEEcCCHH
Confidence             01               146899999999999999999999999996

Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Rev1 has both structural and enzymatic roles. Structurally, it is believed to interact with other nonclassical polymerases and replication machinery to act as a scaffold. Enzymatically, it catalyzes the specific insertion of dCMP opposite abasic sites. Rev1 interacts with the Rev7 subunit of the B-family TLS polymerase Pol zeta (Rev3/Rev7). Rev1 is known to actively promote the introduction of mutations, potentially making it a significant target for cancer treatment.

>PRK03609 umuC DNA polymerase V subunit UmuC; Reviewed

Probab=99.61  E-value=1.6e-16  Score=131.43  Aligned_cols=68  Identities=40%  Similarity=0.492  Sum_probs=60.8

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|++++.+|+|.||.+||||+|||||+..+  +                                         
T Consensus        77 y~~~s~~i~~~l~~~tp~ve~~siDE~~lDvt~~~~--l-----------------------------------------  113 (422)
T PRK03609         77 YADMSNRVMSTLEELSPRVEIYSIDEAFCDLTGVRN--C-----------------------------------------  113 (422)
T ss_pred             HHHHHHHHHHHHHHhCCCceEeccccceecCCCCcC--C-----------------------------------------
Confidence            889999999999999999999999999999998743  1                                         


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                        +               -...++++||++|++++|||||||||+||+
T Consensus       114 --~---------------~~~~~a~~i~~~I~~~~gl~~siGia~n~~  144 (422)
T PRK03609        114 --R---------------DLTDFGREIRATVLQRTHLTVGVGIAQTKT  144 (422)
T ss_pred             --C---------------CHHHHHHHHHHHHHHHHCCceEEEecCCHH
Confidence              0               035789999999999999999999999986

>PRK03858 DNA polymerase IV; Validated

Probab=99.60  E-value=2.4e-16  Score=129.01  Aligned_cols=69  Identities=26%  Similarity=0.436  Sum_probs=61.7

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|++++.+|+|.||.+||||+|||||+..+  +                                         
T Consensus        76 y~~~s~~i~~~l~~~s~~ve~~siDe~~ldvt~~~~--~-----------------------------------------  112 (396)
T PRK03858         76 YSRASKAVFEVFRDTTPLVEGLSIDEAFLDVGGLRR--I-----------------------------------------  112 (396)
T ss_pred             HHHHHHHHHHHHHHhCCceEEecCCeEEEEcccccc--c-----------------------------------------
Confidence            789999999999999999999999999999999754  1                                         


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                       +++               +..++++||++|++++|||||+|||+||+
T Consensus       113 -~~~---------------~~~la~~ir~~i~~~~gl~~svGia~n~~  144 (396)
T PRK03858        113 -SGT---------------PVQIAARLRRRVREEVGLPITVGVARTKF  144 (396)
T ss_pred             -cCC---------------HHHHHHHHHHHHHHHHCCCeEEEEcCChH
Confidence             111               36799999999999999999999999986

>COG0389 DinP Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]

Probab=99.60  E-value=2.8e-16  Score=127.78  Aligned_cols=71  Identities=42%  Similarity=0.543  Sum_probs=62.3

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+.+|.+|++|+++|+|.||.+||||+|||+|+....                                           
T Consensus        77 y~~~s~~i~~i~~~~~~~ve~lSIDE~~ldvt~~~~~-------------------------------------------  113 (354)
T COG0389          77 YRLASAEIRAILERYTPLVEPLSIDEAFLDLTDALRL-------------------------------------------  113 (354)
T ss_pred             HHHHHHHHHHHHHhccccceeeeccceeeeccccccc-------------------------------------------
Confidence            8899999999999999999999999999999876531                                           


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                       .+             +..+.++|.+||+.|++++|||||+|||+||+
T Consensus       114 -~g-------------~~~~~~~a~~ir~~i~~~~~l~~s~Gi~~nk~  147 (354)
T COG0389         114 -LG-------------LADAPRIALEIRFGILLELGLTASVGISDNKF  147 (354)
T ss_pred             -CC-------------cccHHHHHHHHHHHHHHhhCCEEEEEecCcHH
Confidence             01             11368999999999999999999999999996

>cd01700 PolY_Pol_V_umuC umuC subunit of DNA Polymerase V

Probab=99.60  E-value=4.2e-16  Score=125.58  Aligned_cols=68  Identities=32%  Similarity=0.541  Sum_probs=61.2

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|++++.+|+|.||.+|+||+|||+|+..+  +                                         
T Consensus        75 y~~~s~~i~~~l~~~~~~ve~~s~De~~ldvt~~~~--~-----------------------------------------  111 (344)
T cd01700          75 YGDMSRRIMSILERFSPDVEVYSIDESFLDLTGSLR--F-----------------------------------------  111 (344)
T ss_pred             HHHHHHHHHHHHHhcCCcceEeecchhhccCcCCCC--C-----------------------------------------
Confidence            789999999999999999999999999999998653  1                                         


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                        ++               +..+|++||++|++++|||||+|||+||+
T Consensus       112 --~~---------------~~~la~~i~~~i~~~~gl~~s~Gia~~~~  142 (344)
T cd01700         112 --GD---------------LEELARKIRRRILQETGIPVTVGIGPTKT  142 (344)
T ss_pred             --CC---------------HHHHHHHHHHHHHHHhCCceEEEecCCHH
Confidence              11               36899999999999999999999999986

umuC subunit of Pol V. Pol V is a bacterial translesion synthesis (TLS) polymerase that consists of the heterotrimer of one umuC and two umuD subunits. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Pol V, RecA, single stranded DNA-binding protein, beta sliding clamp, and gamma clamp loading complex are responsible for inducing the SOS response in bacteria to repair UV-induced DNA damage.

>PRK03103 DNA polymerase IV; Reviewed

Probab=99.59  E-value=4.1e-16  Score=128.32  Aligned_cols=69  Identities=26%  Similarity=0.433  Sum_probs=61.8

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|++++.+|+|.||.+|+||+|||||+..+.                                           
T Consensus        81 y~~~s~~i~~~l~~~sp~ve~~siDe~~lDvt~~~~~-------------------------------------------  117 (409)
T PRK03103         81 YIDVSLQITRILEDFTDLVEPFSIDEQFLDVTGSQKL-------------------------------------------  117 (409)
T ss_pred             HHHHHHHHHHHHHHhCccceecCCCeeEeeccchhhc-------------------------------------------
Confidence            7899999999999999999999999999999998641                                           


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                       +++               ...++++||++|++++|||||+|||+||+
T Consensus       118 -~~~---------------~~~la~~ir~~i~~~~gl~~svGia~n~~  149 (409)
T PRK03103        118 -FGS---------------PLEIAQKIQQRIMRETGVYARVGIGPNKL  149 (409)
T ss_pred             -CCC---------------HHHHHHHHHHHHHHHHCceEEEeecCCHH
Confidence             111               35799999999999999999999999985

>PRK02406 DNA polymerase IV; Validated

Probab=99.59  E-value=3.2e-16  Score=126.21  Aligned_cols=69  Identities=32%  Similarity=0.566  Sum_probs=61.8

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|+.++.+|+|.||.+|+||+|||+|+..+.                                           
T Consensus        71 y~~~s~~i~~~l~~~sp~ve~~siDe~~ldvt~~~~~-------------------------------------------  107 (343)
T PRK02406         71 YKEVSRQIREIFRRYTDLIEPLSLDEAYLDVTDNKLC-------------------------------------------  107 (343)
T ss_pred             HHHHHHHHHHHHHHhCCceEEccCCeEEEeccCcccc-------------------------------------------
Confidence            7899999999999999999999999999999997641                                           


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                       ++.               +..+++.||++|++++|||||+|||+||+
T Consensus       108 -~~~---------------~~~la~~i~~~i~~~~gl~~siGia~n~~  139 (343)
T PRK02406        108 -IGS---------------ATLIAQEIRQDIFEELGLTASAGVAPNKF  139 (343)
T ss_pred             -CCC---------------HHHHHHHHHHHHHHHHCCCeEEEeccCHH
Confidence             111               36899999999999999999999999986

>cd03586 PolY_Pol_IV_kappa DNA Polymerase IV/Kappa

Probab=99.57  E-value=7e-16  Score=123.16  Aligned_cols=69  Identities=45%  Similarity=0.639  Sum_probs=61.8

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|++++.+|+|.||.+|+||+|+|+|++...                                           
T Consensus        74 y~~~s~~i~~~l~~~~~~ve~~s~De~~ldv~~~~~~-------------------------------------------  110 (334)
T cd03586          74 YREVSRQIMEILREYTPLVEPLSIDEAYLDVTDYVRL-------------------------------------------  110 (334)
T ss_pred             HHHHHHHHHHHHHHcCCceEEecccceeEcccccccc-------------------------------------------
Confidence            7899999999999999999999999999999987541                                           


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                       ++               .+..++.+||++|++++|||||+|||+||+
T Consensus       111 -~~---------------~~~~la~~ir~~i~~~~g~~~siGia~n~~  142 (334)
T cd03586         111 -FG---------------SATEIAKEIRARIREETGLTASAGIAPNKF  142 (334)
T ss_pred             -CC---------------CHHHHHHHHHHHHHHHHCCceEEEEhhcHH
Confidence             11               146899999999999999999999999985

Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Known primarily as Pol IV in prokaryotes and Pol kappa in eukaryotes, this polymerase has a propensity for generating frameshift mutations. The eukaryotic Pol kappa differs from Pol IV and Dpo4 by an N-terminal extension of ~75 residues known as the "N-clasp" region. The structure of Pol kappa shows DNA that is almost totally encircled by Pol kappa, with the N-clasp region augmenting the interactions between DNA and the polymerase. Pol kappa is more resistant than Pol eta and Pol iota to bulky guanine adducts and is efficient at catalyzing the incorporation of dCTP. Bacterial pol IV has a

>PRK03348 DNA polymerase IV; Provisional

Probab=99.56  E-value=7.3e-16  Score=128.99  Aligned_cols=70  Identities=31%  Similarity=0.477  Sum_probs=60.4

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|++++.+|+|.||.+||||+|||++.....                                           
T Consensus        82 Y~~~s~~i~~~l~~~sp~VE~~SiDE~flD~~~l~~~-------------------------------------------  118 (454)
T PRK03348         82 YRAASRRVFDTLRELSPVVEQLSFDEAFVEPAELAGA-------------------------------------------  118 (454)
T ss_pred             HHHHHHHHHHHHHHhCCceEEecCCeEEEEccccccc-------------------------------------------
Confidence            8999999999999999999999999999997765421                                           


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                         ...            .+..++++||++|++++|||||+|||+||+
T Consensus       119 ---~~~------------~~~~~a~~lr~~I~~~~Gl~~SvGIa~nk~  151 (454)
T PRK03348        119 ---SAE------------EVEAFAERLRARVREETGLPASVGAGSGKQ  151 (454)
T ss_pred             ---cCC------------CHHHHHHHHHHHHHHHHCCCeEEEEcCCHH
Confidence               000            146799999999999999999999999986

>PRK01810 DNA polymerase IV; Validated

Probab=99.55  E-value=1.1e-15  Score=125.78  Aligned_cols=68  Identities=41%  Similarity=0.671  Sum_probs=60.9

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|++++.+|+|.||.+|+||+|||||++..  +                                         
T Consensus        83 y~~~s~~i~~~l~~~sp~ve~~siDe~~ldvt~~~~--~-----------------------------------------  119 (407)
T PRK01810         83 YREASRQMFQILSEFTPLVQPVSIDEGYLDITDCYA--L-----------------------------------------  119 (407)
T ss_pred             HHHHHHHHHHHHHHhCCceEEecCCeEEEeccCccc--c-----------------------------------------
Confidence            889999999999999999999999999999998653  1                                         


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                       +                -+.++++.||++|++++|+|||+|||+||+
T Consensus       120 -~----------------~~~~~a~~i~~~i~~~~gl~~svGia~n~~  150 (407)
T PRK01810        120 -G----------------SPLEIAKMIQQRLLTELQLPCSIGIAPNKF  150 (407)
T ss_pred             -C----------------CHHHHHHHHHHHHHHHHCCceEEEEcCCHH
Confidence             0                035789999999999999999999999986

>PF00817 IMS: impB/mucB/samB family; InterPro: IPR001126 In Escherichia coli, UV and many chemicals appear to cause mutagenesis by a process of translesion synthesis that requires DNA polymerase III and the SOS-regulated proteins UmuD, UmuC and RecA

Probab=99.55  E-value=3.2e-15  Score=107.65  Aligned_cols=69  Identities=30%  Similarity=0.439  Sum_probs=59.2

Q ss_pred             ChHHHHHHHHHHHhc-chhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhccc
Q psy16216          1 YRNAGREVIAVLSEF-SNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQV   79 (129)
Q Consensus         1 Yr~~S~~I~~il~~~-~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~   79 (129)
                      |+++|++|+.++.+| .|.||.+|+||+|+|+|+..+.                                          
T Consensus        73 ~~~~~~~l~~~l~~~~sp~ve~~s~de~~ldv~~~~~l------------------------------------------  110 (149)
T PF00817_consen   73 YREASERLAEILYRFSSPRVEVYSPDELFLDVTGSLRL------------------------------------------  110 (149)
T ss_dssp             HHHHHHHHHHHHHTTTCSEEEEEETTEEEEEEHHHHHH------------------------------------------
T ss_pred             HHHHHHHHHHHHHhcccccceecccccccccCCcchhh------------------------------------------
Confidence            789999999999999 7799999999999999997652                                          


Q ss_pred             cCCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         80 YSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        80 ~~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                                       +.....++++||++|++++||+||+|||+||+
T Consensus       111 -----------------~~~~~~~~~~l~~~i~~~~gl~~s~Gia~~~~  142 (149)
T PF00817_consen  111 -----------------FGGEEALARRLRQAIAEETGLTASIGIAPNPL  142 (149)
T ss_dssp             -----------------HHHHHHHHHHHHHHHHHHHS--EEEEEESSHH
T ss_pred             -----------------cchHHHHHHHHHHHHHHHhCCEEEEEEeCCHH
Confidence                             11236899999999999999999999999985

This machinery allows the replication to continue through DNA lesion, and therefore avoid lethal interruption of DNA replication after DNA damage []. UmuC is a well conserved protein in prokaryotes, with a homologue in yeast species. Proteins currently known to belong to this family are listed below: E. coli MucB protein. Plasmid-born analogue of the UmuC protein. Saccharomyces cerevisiae (Baker's yeast) Rev1 protein. Homologue of UmuC also required for normal induction of mutations by physical and chemical agents. Salmonella typhimurium ImpB protein. Plasmid-born analogue of the UmuC protein. Bacterial UmuC protein. E. coli DNA-damage-inducible protein P (DinP). S. typhimurium SamB homologue of UmuC plasmid associated. ; GO: 0003684 damaged DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006281 DNA repair; PDB: 3BJY_A 2AQ4_A 3OSP_A 4DL7_A 4DL6_A 3TQ1_A 3MR2_A 4EEY_A 3MR3_A 4DL4_A ....

>PRK02794 DNA polymerase IV; Provisional

Probab=99.54  E-value=3.1e-15  Score=123.68  Aligned_cols=70  Identities=30%  Similarity=0.488  Sum_probs=60.5

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|++++.+|+|.||.+|+||+|||+|+..+  +                                         
T Consensus       111 y~~~s~~i~~~l~~~sp~ve~~siDe~~ldvt~~~~--l-----------------------------------------  147 (419)
T PRK02794        111 YVRVGREVRAMMQALTPLVEPLSIDEAFLDLSGTER--L-----------------------------------------  147 (419)
T ss_pred             HHHHHHHHHHHHHHhCcceeeccCCeEEEeccchhh--h-----------------------------------------
Confidence            889999999999999999999999999999998764  1                                         


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                       ++..              .+.++.+||++|++++|||||+|||+||+
T Consensus       148 -~g~~--------------~~~~~~~i~~~i~~~~gl~~svGIa~n~~  180 (419)
T PRK02794        148 -HGAP--------------PAVVLARFARRVEREIGITVSVGLSYNKF  180 (419)
T ss_pred             -cCCC--------------HHHHHHHHHHHHHHHHCCceEEEEcCCHH
Confidence             1110              24567899999999999999999999985

>PRK03352 DNA polymerase IV; Validated

Probab=99.54  E-value=2e-15  Score=121.78  Aligned_cols=64  Identities=41%  Similarity=0.601  Sum_probs=59.0

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|+.++.+|+|.||.+|+||+|||+|+. .                                            
T Consensus        85 y~~~s~~i~~~l~~~s~~ve~~siDe~~ld~t~~-~--------------------------------------------  119 (346)
T PRK03352         85 YDAASEEVMATLRDLGVPVEVWGWDEAFLGVDTD-D--------------------------------------------  119 (346)
T ss_pred             HHHHHHHHHHHHHHhCCceEEecCccEEEeCCCC-C--------------------------------------------
Confidence            8899999999999999999999999999999863 0                                            


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                                         ...+++.||++|++++|||||+|||+||+
T Consensus       120 -------------------~~~la~~ir~~i~~~~gl~~siGia~nk~  148 (346)
T PRK03352        120 -------------------PEALAEEIRAAVLERTGLSCSVGIGDNKL  148 (346)
T ss_pred             -------------------HHHHHHHHHHHHHHHHCCCEEEeecCCHH
Confidence                               25799999999999999999999999985

>PRK14133 DNA polymerase IV; Provisional

Probab=99.54  E-value=1.7e-15  Score=122.23  Aligned_cols=66  Identities=35%  Similarity=0.551  Sum_probs=60.0

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|++++.+|+|.||.+||||+|||+|+...                                            
T Consensus        79 y~~~s~~i~~~l~~~s~~ve~~siDe~~ldv~~~~~--------------------------------------------  114 (347)
T PRK14133         79 YKEVSKNIFKILYEVTPIVEPVSIDEAYLDITNIKE--------------------------------------------  114 (347)
T ss_pred             HHHHHHHHHHHHHHhCCceEEccCCeEEEEccCCCC--------------------------------------------
Confidence            789999999999999999999999999999997421                                            


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                         +               ...++++||++|++++|||||+|||+||+
T Consensus       115 ---~---------------~~~la~~i~~~i~~~~gl~~siGia~n~~  144 (347)
T PRK14133        115 ---E---------------PIKIAKYIKKKVKKETGLTLSVGISYNKF  144 (347)
T ss_pred             ---C---------------HHHHHHHHHHHHHHHHCCcEEEEEcCcHH
Confidence               0               35799999999999999999999999986

>cd03468 PolY_like DNA Polymerase Y-family

Probab=99.42  E-value=6.5e-14  Score=111.75  Aligned_cols=68  Identities=24%  Similarity=0.253  Sum_probs=58.9

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |.++|++|++++.+|+|.||.+|+||+|||+|+..+.                                           
T Consensus        74 y~~~s~~i~~~l~~~s~~ve~~s~de~~ldvs~~~~~-------------------------------------------  110 (335)
T cd03468          74 DARALQELALWLLRFTPLVALDGPDGLLLDVTGCLHL-------------------------------------------  110 (335)
T ss_pred             HHHHHHHHHHHHHhcCCccccCCCCeEEEEcccchhh-------------------------------------------
Confidence            7899999999999999999999999999999997541                                           


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                       ++.               ...++..||+.+. ++|++||+|||+||+
T Consensus       111 -~~~---------------~~~~a~~i~~~~~-~~gl~~siGia~n~~  141 (335)
T cd03468         111 -FGG---------------EDALAASLRAALA-TLGLSARAGIADTPG  141 (335)
T ss_pred             -cCC---------------HHHHHHHHHHHHH-HcCCeEEEEecCCHH
Confidence             111               3568899999985 689999999999985

Y-family DNA polymerases are a specialized subset of polymerases that facilitate translesion synthesis (TLS), a process that allows the bypass of a variety of DNA lesions. Unlike replicative polymerases, TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. The active sites of TLS polymerases are large and flexible to allow the accomodation of distorted bases. Expression of Y-family polymerases is often induced by DNA damage and is believed to be highly regulated. TLS is likely induced by the monoubiquitination of the replication clamp PCNA, which provides a scaffold for TLS polymerases to bind in order to access the lesion. Because of their high error rates, TLS polymerases are potential targets for cancer treatment and prevention.

>KOG2093|consensus

Probab=99.27  E-value=2.1e-12  Score=113.57  Aligned_cols=70  Identities=30%  Similarity=0.514  Sum_probs=62.0

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |.++|+.++++|++|.-.||.+|+||+|+|+|......                                          
T Consensus       451 Ykevs~tlYetlasytl~I~aVSCDEa~vd~s~~~~~~------------------------------------------  488 (1016)
T KOG2093|consen  451 YKEVSETLYETLASYTLNIEAVSCDEAFVDVSDLSDEE------------------------------------------  488 (1016)
T ss_pred             HHHHHHHHHHHHHhhccceeeecchhhhhhhhhhhhhh------------------------------------------
Confidence            78999999999999999999999999999999987531                                          


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                         .            . ..+.+|..||+.|++.||++||||||.|+|
T Consensus       489 ---~------------~-tp~~la~~IRqEI~e~TgC~aS~Gig~t~L  520 (1016)
T KOG2093|consen  489 ---N------------E-TPAVLAEHIRQEILEKTGCPASAGIGGTML  520 (1016)
T ss_pred             ---c------------c-CHHHHHHHHHHHHHhccCCceeeccchHHH
Confidence               0            0 137899999999999999999999999875

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	129
3mr2_A	435	Human Dna Polymerase Eta In Complex With Normal Dna		2e-22
3mr6_A	435	Human Dna Polymerase Eta - Dna Ternary Complex With		2e-22
1t3n_A	388	Structure Of The Catalytic Core Of Dna Polymerase I		2e-06
3h40_A	389	Binary Complex Of Human Dna Polymerase Iota With Te		2e-06
2alz_A	390	Ternary Complex Of Hpoli With Dna And Dctp Length =		2e-06
2dpi_A	420	Ternary Complex Of Hpoli With Dna And Dctp Length =		3e-06
3gv5_B	420	Human Dna Polymerase Iota In Complex With T Templat		1e-05

>pdb|3MR2|A Chain A, Human Dna Polymerase Eta In Complex With Normal Dna And Incoming Nucleotide (Nrm) Length = 435

Iteration: 1
 Score =  100 bits (249), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 60/137 (43%), Positives = 83/137 (60%), Gaps = 16/137 (11%)
Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGH--IAASQLSNTFVVGF 58
           YR A  EV+ ++S F+ ++ERASIDEAY+DLT  V ER++ +    I+A  L +T++ G 
Sbjct: 95  YREASVEVMEIMSRFA-VIERASIDEAYVDLTSAVQERLQKLQGQPISADLLPSTYIEGL 153
Query: 59  --GPDNNDEDA-----RKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAV 111
             GP   +E       RK G+ +WL  +  D  TS      D Q L +  VIVEE+RAA+
Sbjct: 154 PQGPTTAEETVQKEGMRKQGLFQWLDSLQIDNLTS-----PDLQ-LTVGAVIVEEMRAAI 207
Query: 112 LSKTQFHCSAGIAHNKV 128
             +T F CSAGI+HNKV
Sbjct: 208 ERETGFQCSAGISHNKV 224

>pdb|3MR6|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex With A Cpd 2bp Upstream Of The Active Site (Tt4) Length = 435

Iteration: 1
 Score =  100 bits (249), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 60/137 (43%), Positives = 83/137 (60%), Gaps = 16/137 (11%)
Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGH--IAASQLSNTFVVGF 58
           YR A  EV+ ++S F+ ++ERASIDEAY+DLT  V ER++ +    I+A  L +T++ G 
Sbjct: 95  YREASVEVMEIMSRFA-VIERASIDEAYVDLTSAVQERLQKLQGQPISADLLPSTYIEGL 153
Query: 59  --GPDNNDEDA-----RKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAV 111
             GP   +E       RK G+ +WL  +  D  TS      D Q L +  VIVEE+RAA+
Sbjct: 154 PQGPTTAEETVQKEGMRKQGLFQWLDSLQIDNLTS-----PDLQ-LTVGAVIVEEMRAAI 207
Query: 112 LSKTQFHCSAGIAHNKV 128
             +T F CSAGI+HNKV
Sbjct: 208 ERETGFQCSAGISHNKV 224

>pdb|1T3N|A Chain A, Structure Of The Catalytic Core Of Dna Polymerase Iota In Complex With Dna And Dttp Length = 388

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 34/128 (26%), Positives = 59/128 (46%), Gaps = 25/128 (19%)
Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGP 60
           YR    +V  +L EFS +VER   DE ++DLT++V +R++    + + +LS   V     
Sbjct: 76  YREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVEKRLQ---QLQSDELSAVTVS---- 128
Query: 61  DNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCS 120
                           G VY++   +L++       L +   I  E+R A+ ++      
Sbjct: 129 ----------------GHVYNNQSINLLDVLH--IRLLVGSQIAAEMREAMYNQLGLTGC 170
Query: 121 AGIAHNKV 128
           AG+A NK+
Sbjct: 171 AGVASNKL 178

>pdb|3H40|A Chain A, Binary Complex Of Human Dna Polymerase Iota With Template UT Length = 389

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 34/128 (26%), Positives = 59/128 (46%), Gaps = 25/128 (19%)
Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGP 60
           YR    +V  +L EFS +VER   DE ++DLT++V +R++    + + +LS   V     
Sbjct: 77  YREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVEKRLQ---QLQSDELSAVTVS---- 129
Query: 61  DNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCS 120
                           G VY++   +L++       L +   I  E+R A+ ++      
Sbjct: 130 ----------------GHVYNNQSINLLDVLH--IRLLVGSQIAAEMREAMYNQLGLTGC 171
Query: 121 AGIAHNKV 128
           AG+A NK+
Sbjct: 172 AGVASNKL 179

>pdb|2ALZ|A Chain A, Ternary Complex Of Hpoli With Dna And Dctp Length = 390

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 34/128 (26%), Positives = 59/128 (46%), Gaps = 25/128 (19%)
Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGP 60
           YR    +V  +L EFS +VER   DE ++DLT++V +R++    + + +LS   V     
Sbjct: 78  YREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVEKRLQ---QLQSDELSAVTVS---- 130
Query: 61  DNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCS 120
                           G VY++   +L++       L +   I  E+R A+ ++      
Sbjct: 131 ----------------GHVYNNQSINLLDVLH--IRLLVGSQIAAEMREAMYNQLGLTGC 172
Query: 121 AGIAHNKV 128
           AG+A NK+
Sbjct: 173 AGVASNKL 180

>pdb|2DPI|A Chain A, Ternary Complex Of Hpoli With Dna And Dctp Length = 420

Iteration: 1
 Score = 47.0 bits (110), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 34/128 (26%), Positives = 59/128 (46%), Gaps = 25/128 (19%)
Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGP 60
           YR    +V  +L EFS +VER   DE ++DLT++V +R++    + + +LS   V     
Sbjct: 102 YREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVEKRLQ---QLQSDELSAVTVS---- 154
Query: 61  DNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCS 120
                           G VY++   +L++       L +   I  E+R A+ ++      
Sbjct: 155 ----------------GHVYNNQSINLLDVLH--IRLLVGSQIAAEMREAMYNQLGLTGC 196
Query: 121 AGIAHNKV 128
           AG+A NK+
Sbjct: 197 AGVASNKL 204

>pdb|3GV5|B Chain B, Human Dna Polymerase Iota In Complex With T Template Dna And Incoming Ddadp Length = 420

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 34/128 (26%), Positives = 56/128 (43%), Gaps = 25/128 (19%)
Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGP 60
           YR    +V  +L EFS +VER   DE ++DLT+ V +R++    + + +LS   V     
Sbjct: 102 YREXSYKVTELLEEFSPVVERLGFDENFVDLTEXVEKRLQ---QLQSDELSAVTVS---- 154
Query: 61  DNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCS 120
                           G VY++   +L++       L +   I  E R A  ++      
Sbjct: 155 ----------------GHVYNNQSINLLDVLH--IRLLVGSQIAAEXREAXYNQLGLTGC 196
Query: 121 AGIAHNKV 128
           AG+A NK+
Sbjct: 197 AGVASNKL 204

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	129
3osn_A	420	DNA polymerase IOTA; hoogsteen base PAIR, protein-	4e-26
4ecq_A	435	DNA polymerase ETA; transferase-DNA complex; HET:	2e-22
3mfi_A	520	DNA polymerase ETA; DNA damage, DNA repair, DNA re	8e-17
1t94_A	459	Polymerase (DNA directed) kappa; replication, DNA	2e-12
3pzp_A	517	DNA polymerase kappa; DNA nucleotidyltransferase,	2e-12
3bq0_A	354	POL IV, DBH, DNA polymerase IV; Y-family, lesion b	4e-09
1im4_A	221	DBH; DNA polymerase PALM, thumb, fingers, helix-ha	5e-09
1im4_A	221	DBH; DNA polymerase PALM, thumb, fingers, helix-ha	4e-04
3gqc_A	504	DNA repair protein REV1; protein-DNA complex, DNA	4e-07
3gqc_A	504	DNA repair protein REV1; protein-DNA complex, DNA	1e-04
1jx4_A	352	DNA polymerase IV (family Y); protein-DNA complex,	4e-07
1jx4_A	352	DNA polymerase IV (family Y); protein-DNA complex,	5e-04
2aq4_A	434	DNA repair protein REV1; polymerase, PAD, N-digit,	2e-04

>3osn_A DNA polymerase IOTA; hoogsteen base PAIR, protein-DNA complex, Y-family DNA polym translesion synthesis, nucleoside triphosphate; HET: DNA DOC 6OG TTP; 1.90A {Homo sapiens} PDB: 2dpj_A* 2fll_A* 2fln_A* 2flp_A* 3epg_A* 3epi_A* 2dpi_A* 3g6v_A* 3g6y_A* 3g6x_A* 3gv7_B* 3gv8_B* 3ngd_A* 3gv5_B* 3q8p_B* 3q8q_B* 3q8r_B* 3q8s_B* 3h4d_A* 3h4b_A* ... Length = 420

 Score = 99.8 bits (249), Expect = 4e-26
 Identities = 31/127 (24%), Positives = 51/127 (40%), Gaps = 25/127 (19%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGP 60
           YR    +V  +L EFS +VER   DE ++DLT++V +R++ +     S ++ +  V    
Sbjct: 102 YREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVEKRLQQLQSDELSAVTVSGHVYNNQ 161

Query: 61  DNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCS 120
             N  D                              L +   I  E+R A+ ++      
Sbjct: 162 SINLLDVLH-------------------------IRLLVGSQIAAEMREAMYNQLGLTGC 196

Query: 121 AGIAHNK 127
           AG+A NK
Sbjct: 197 AGVASNK 203

>4ecq_A DNA polymerase ETA; transferase-DNA complex; HET: DNA DTP; 1.50A {Homo sapiens} PDB: 3mr2_A* 3mr4_A* 3mr5_A* 3si8_A* 4dl2_A* 4dl3_A* 4dl4_A* 4dl5_A* 4dl6_A* 4dl7_A* 3mr3_A* 4ecr_A* 4ecs_A* 4ect_A* 4ecu_A* 4ecv_A* 4ecw_A* 4ecx_A* 4ecy_A* 4ecz_A* ... Length = 435

 Score = 90.1 bits (223), Expect = 2e-22
 Identities = 55/137 (40%), Positives = 78/137 (56%), Gaps = 16/137 (11%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSI--GHIAASQLSNTFVVGF 58
           YR A  EV+ ++S F+ ++ERASIDEAY+DLT  V ER++ +    I+A  L +T++ G 
Sbjct: 95  YREASVEVMEIMSRFA-VIERASIDEAYVDLTSAVQERLQKLQGQPISADLLPSTYIEGL 153

Query: 59  GPD-------NNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAV 111
                        E  RK G+ +WL  +  D        T    +L +  VIVEE+RAA+
Sbjct: 154 PQGPTTAEETVQKEGMRKQGLFQWLDSLQID------NLTSPDLQLTVGAVIVEEMRAAI 207

Query: 112 LSKTQFHCSAGIAHNKV 128
             +T F CSAGI+HNKV
Sbjct: 208 ERETGFQCSAGISHNKV 224

>3mfi_A DNA polymerase ETA; DNA damage, DNA repair, DNA replication, DNA synthesis, NUCL binding, magnesium; HET: DNA DOC TTD DTP; 1.76A {Saccharomyces cerevisiae} PDB: 3mfh_A* 3oha_A* 3ohb_A* 2r8j_A* 2r8k_A* 2wtf_A* 2xgp_A* 2xgq_A* 1jih_A* Length = 520

 Score = 74.1 bits (181), Expect = 8e-17
 Identities = 30/140 (21%), Positives = 58/140 (41%), Gaps = 13/140 (9%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGH----------IAASQL 50
           YR   R+ +A+     ++VERASIDE ++DL  +    +                A S +
Sbjct: 138 YRRESRKALAIFKWACDLVERASIDEVFLDLGRICFNMLMFDNEYELTGDLKLKDALSNI 197

Query: 51  SNTFVVGFGP--DNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIR 108
              F+ G      +      K   +++ G V++     L+ + +D   LA+   + + IR
Sbjct: 198 REAFIGGNYDINSHLPLIPEKIKSLKFEGDVFNPEGRDLITDWDDVI-LALGSQVCKGIR 256

Query: 109 AAVLSKTQFHCSAGIAHNKV 128
            ++     +  S G++  K 
Sbjct: 257 DSIKDILGYTTSCGLSSTKN 276

>1t94_A Polymerase (DNA directed) kappa; replication, DNA repair, Y-family DNA polymerase, translesion DNA synthesis, lesion bypass; 2.40A {Homo sapiens} SCOP: d.240.1.1 e.8.1.7 PDB: 2oh2_A* 2w7o_A* 2w7p_A* 3hed_A* 3in5_A* Length = 459

 Score = 61.9 bits (150), Expect = 2e-12
 Identities = 31/145 (21%), Positives = 49/145 (33%), Gaps = 17/145 (11%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVG--- 57
           YR   +EV  +L+++       S+DEAY+++T  + ER           +     V    
Sbjct: 107 YRAVSKEVKEILADYDPNFMAMSLDEAYLNITKHLEERQNWPEDKRRYFIKMGSSVENDN 166

Query: 58  --------------FGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVI 103
                           P   +E            QV  +   +             A  +
Sbjct: 167 PGKEVNKLSEHERSISPLLFEESPSDVQPPGDPFQVNFEEQNNPQILQNSVVFGTSAQEV 226

Query: 104 VEEIRAAVLSKTQFHCSAGIAHNKV 128
           V+EIR  +  KT    SAGIA N +
Sbjct: 227 VKEIRFRIEQKTTLTASAGIAPNTM 251

>3pzp_A DNA polymerase kappa; DNA nucleotidyltransferase, DNA binding nucleotide binding M binding, nucleus; HET: DNA TTD DTP; 3.34A {Homo sapiens} Length = 517

 Score = 62.0 bits (150), Expect = 2e-12
 Identities = 31/145 (21%), Positives = 49/145 (33%), Gaps = 17/145 (11%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVG--- 57
           YR   +EV  +L+++       S+DEAY+++T  + ER           +     V    
Sbjct: 163 YRAVSKEVKEILADYDPNFMAMSLDEAYLNITKHLEERQNWPEDKRRYFIKMGSSVENDN 222

Query: 58  --------------FGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVI 103
                           P   +E            QV  +   +             A  +
Sbjct: 223 PGKEVNKLSEHERSISPLLFEESPSDVQPPGDPFQVNFEEQNNPQILQNSVVFGTSAQEV 282

Query: 104 VEEIRAAVLSKTQFHCSAGIAHNKV 128
           V+EIR  +  KT    SAGIA N +
Sbjct: 283 VKEIRFRIEQKTTLTASAGIAPNTM 307

>3bq0_A POL IV, DBH, DNA polymerase IV; Y-family, lesion bypass; HET: DNA; 2.60A {Sulfolobus acidocaldarius} SCOP: d.240.1.1 e.8.1.7 PDB: 3bq1_A* 3bq2_A* 1k1q_A 1k1s_A Length = 354

 Score = 52.2 bits (126), Expect = 4e-09
 Identities = 14/47 (29%), Positives = 28/47 (59%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAA 47
           Y      ++ +L++ ++ +E ASIDEAY+D+T+ V    ++   +A 
Sbjct: 81  YEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNKVEGNFENGIELAR 127

>1im4_A DBH; DNA polymerase PALM, thumb, fingers, helix-hairpin-helix, fidelity, processivity, transferase; 2.30A {Sulfolobus solfataricus} SCOP: e.8.1.7 Length = 221

 Score = 51.4 bits (124), Expect = 5e-09
 Identities = 14/47 (29%), Positives = 28/47 (59%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAA 47
           Y      ++ +L++ ++ +E ASIDEAY+D+T+ V    ++   +A 
Sbjct: 86  YEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNKVEGNFENGIELAR 132

>1im4_A DBH; DNA polymerase PALM, thumb, fingers, helix-hairpin-helix, fidelity, processivity, transferase; 2.30A {Sulfolobus solfataricus} SCOP: e.8.1.7 Length = 221

 Score = 37.5 bits (88), Expect = 4e-04
 Identities = 7/28 (25%), Positives = 14/28 (50%)

Query: 100 AGVIVEEIRAAVLSKTQFHCSAGIAHNK 127
              +  +I+  +L K +   + G+A NK
Sbjct: 127 GIELARKIKQEILEKEKITVTVGVAPNK 154

>3gqc_A DNA repair protein REV1; protein-DNA complex, DNA damage, DNA repair, DNA synthesis, binding, magnesium, metal-binding; HET: DNA DOC DCP; 2.50A {Homo sapiens} Length = 504

 Score = 46.4 bits (110), Expect = 4e-07
 Identities = 11/46 (23%), Positives = 25/46 (54%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIA 46
           Y+   + +   L+ +++ +E  S DEA +D+T+++ E   +    A
Sbjct: 217 YKEVAQTLYETLASYTHNIEAVSCDEALVDITEILAETKLTPDEFA 262

>3gqc_A DNA repair protein REV1; protein-DNA complex, DNA damage, DNA repair, DNA synthesis, binding, magnesium, metal-binding; HET: DNA DOC DCP; 2.50A {Homo sapiens} Length = 504

 Score = 39.4 bits (92), Expect = 1e-04
 Identities = 6/28 (21%), Positives = 10/28 (35%)

Query: 100 AGVIVEEIRAAVLSKTQFHCSAGIAHNK 127
                  +R  +  +T+   S GI  N 
Sbjct: 258 PDEFANAVRMEIKDQTKCAASVGIGSNI 285

>1jx4_A DNA polymerase IV (family Y); protein-DNA complex, Y-family, transferase-D complex; HET: DNA MSE ADI; 1.70A {Sulfolobus solfataricus} SCOP: d.240.1.1 e.8.1.7 PDB: 1jxl_A* 1n48_A* 1n56_A* 1ryr_A* 1rys_A* 1s0m_A* 1s0n_A* 1s0o_A* 1s10_A* 1s97_A* 1s9f_A* 2ia6_A* 2ibk_A* 2r8g_A* 2r8h_A* 2r8i_A* 2rdj_A* 3fds_A* 3m9m_B* 3m9n_B* ... Length = 352

 Score = 46.0 bits (110), Expect = 4e-07
 Identities = 14/33 (42%), Positives = 23/33 (69%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTD 33
           Y+     ++ +L E+S  +E ASIDEAY+D++D
Sbjct: 81  YQQVSSRIMNLLREYSEKIEIASIDEAYLDISD 113

>1jx4_A DNA polymerase IV (family Y); protein-DNA complex, Y-family, transferase-D complex; HET: DNA MSE ADI; 1.70A {Sulfolobus solfataricus} SCOP: d.240.1.1 e.8.1.7 PDB: 1jxl_A* 1n48_A* 1n56_A* 1ryr_A* 1rys_A* 1s0m_A* 1s0n_A* 1s0o_A* 1s10_A* 1s97_A* 1s9f_A* 2ia6_A* 2ibk_A* 2r8g_A* 2r8h_A* 2r8i_A* 2rdj_A* 3fds_A* 3m9m_B* 3m9n_B* ... Length = 352

 Score = 37.2 bits (87), Expect = 5e-04
 Identities = 9/37 (24%), Positives = 19/37 (51%)

Query: 91  TEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNK 127
           ++  ++   A  +  EI+  +L K +   + GI+ NK
Sbjct: 112 SDKVRDYREAYNLGLEIKNKILEKEKITVTVGISKNK 148

>2aq4_A DNA repair protein REV1; polymerase, PAD, N-digit, G-loop, transferase; HET: DNA DOC DCP; 2.32A {Saccharomyces cerevisiae} PDB: 3bjy_A* 3osp_A* Length = 434

 Score = 38.9 bits (91), Expect = 2e-04
 Identities = 7/35 (20%), Positives = 13/35 (37%), Gaps = 2/35 (5%)

Query: 1   YRNAGREVIAVLSEFS--NIVERASIDEAYIDLTD 33
           ++       + L   +  N++   SIDEA      
Sbjct: 137 FQLKSEAFYSTLKRLNIFNLILPISIDEAVCVRII 171

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	129
4ecq_A	435	DNA polymerase ETA; transferase-DNA complex; HET:	99.87
3mfi_A	520	DNA polymerase ETA; DNA damage, DNA repair, DNA re	99.85
3osn_A	420	DNA polymerase IOTA; hoogsteen base PAIR, protein-	99.82
1t94_A	459	Polymerase (DNA directed) kappa; replication, DNA	99.76
3pzp_A	517	DNA polymerase kappa; DNA nucleotidyltransferase,	99.74
1jx4_A	352	DNA polymerase IV (family Y); protein-DNA complex,	99.74
1im4_A	221	DBH; DNA polymerase PALM, thumb, fingers, helix-ha	99.73
3bq0_A	354	POL IV, DBH, DNA polymerase IV; Y-family, lesion b	99.72
4f4y_A	362	POL IV, DNA polymerase IV; Y-family polymerase, tr	99.7
3gqc_A	504	DNA repair protein REV1; protein-DNA complex, DNA	99.68
4dez_A	356	POL IV 1, DNA polymerase IV 1; Y-family, transfera	99.65
2aq4_A	434	DNA repair protein REV1; polymerase, PAD, N-digit,	99.63

>4ecq_A DNA polymerase ETA; transferase-DNA complex; HET: DNA DTP; 1.50A {Homo sapiens} PDB: 3mr2_A* 3mr4_A* 3mr5_A* 3si8_A* 4dl2_A* 4dl3_A* 4dl4_A* 4dl5_A* 4dl6_A* 4dl7_A* 3mr3_A* 4ecr_A* 4ecs_A* 4ect_A* 4ecu_A* 4ecv_A* 4ecw_A* 4ecx_A* 4ecy_A* 4ecz_A* ...

Probab=99.87  E-value=1.1e-22  Score=167.72  Aligned_cols=121  Identities=45%  Similarity=0.761  Sum_probs=94.5

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcC--ccccccCCCcceeccCCCCC-------chHHhhhc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIG--HIAASQLSNTFVVGFGPDNN-------DEDARKAG   71 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~--~~~~~~l~~~~~~g~~~~~~-------~~~~~~~~   71 (129)
                      |+++|++|+++|++|+ .||++||||+|||||+.++.++...+  +.+.+.++++++.|+|....       .++.+..+
T Consensus        95 Y~~~S~~i~~il~~~~-~vE~~SiDEafLDlT~~~~~~l~~l~g~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~  173 (435)
T 4ecq_A           95 YREASVEVMEIMSRFA-VIERASIDEAYVDLTSAVQERLQKLQGQPISADLLPSTYIEGLPQGPTTAEETVQKEGMRKQG  173 (435)
T ss_dssp             HHHHHHHHHHHHHHHS-CEEEEETTEEEEECHHHHHHHHHHHTTCCCCGGGCTTEEETTCSCCCC-----CSHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcC-ceeecccceEEEECccchhhcchhccccccccccccccccccCCCcccccccccchhhhhccc
Confidence            8999999999999999 99999999999999999987775533  33345566677777765321       23445556


Q ss_pred             hhhhhccccCCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         72 VMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                      ...|.....     .+..+|.++ +|.+|+.+|++||++|+++||||||||||+||+
T Consensus       174 ~~~~~~~~~-----~~~~~~~~~-~l~~~~~ia~~Ir~~I~~~~Gl~~svGIa~nk~  224 (435)
T 4ecq_A          174 LFQWLDSLQ-----IDNLTSPDL-QLTVGAVIVEEMRAAIERETGFQCSAGISHNKV  224 (435)
T ss_dssp             HHHHHHHCC-----TTCTTCHHH-HHHHHHHHHHHHHHHHHHHHSCCEEEEEESSHH
T ss_pred             ccccccccc-----cccccchhh-hhhHHHHHHHHHHHHHHHHhCCcEEEEecCCHH
Confidence            666754321     123467887 888999999999999999999999999999986

>3mfi_A DNA polymerase ETA; DNA damage, DNA repair, DNA replication, DNA synthesis, NUCL binding, magnesium; HET: DNA DOC TTD DTP; 1.76A {Saccharomyces cerevisiae} PDB: 3mfh_A* 3oha_A* 3ohb_A* 2r8j_A* 2r8k_A* 2wtf_A* 2xgp_A* 2xgq_A* 1jih_A*

Probab=99.85  E-value=5.2e-22  Score=167.11  Aligned_cols=122  Identities=23%  Similarity=0.415  Sum_probs=78.1

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCcc-cc---------ccCCCcceec-------cCCCCC
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHI-AA---------SQLSNTFVVG-------FGPDNN   63 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~-~~---------~~l~~~~~~g-------~~~~~~   63 (129)
                      ||++|++|++||++|+|.||++||||+|||||+.+.++|...... .+         ..+...+..|       .|..+.
T Consensus       138 Yr~~S~~i~~il~~~~~~vE~~SIDEaflDlt~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~~p~~~~  217 (520)
T 3mfi_A          138 YRRESRKALAIFKWACDLVERASIDEVFLDLGRICFNMLMFDNEYELTGDLKLKDALSNIREAFIGGNYDINSHLPLIPE  217 (520)
T ss_dssp             HHHHHHHHHHHHHHHCSCEEEEETTEEEEECHHHHHHHHHHCSSCEEETTEEHHHHTHHHHHHHHHTCCCTTSEEECCCG
T ss_pred             HHHHHHHHHHHHHHhCCCeEEeccceEEEEcCcchhhccccccccccccccccccchhhhhhcccccccccccccccccc
Confidence            899999999999999999999999999999999987665421100 00         0000000000       000000


Q ss_pred             chHHhhhchhhhhccccCCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         64 DEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        64 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                      +-  .   ...|.+...-..+.....+|+++ ++..+.++|++||++|+++||||||||||+||+
T Consensus       218 ~~--~---~~~~~g~~~~~~~~~~~~~~~~~-~~~~~~~ia~~IR~~I~~~tGlt~SvGIa~nK~  276 (520)
T 3mfi_A          218 KI--K---SLKFEGDVFNPEGRDLITDWDDV-ILALGSQVCKGIRDSIKDILGYTTSCGLSSTKN  276 (520)
T ss_dssp             GG--G---GCCCCSEECCTTCCCSCCSHHHH-HHHHHHHHHHHHHHHHHHHHCCCEEEEEESSHH
T ss_pred             ch--h---ccccccccccccccccccccccc-ccchHHHHHHHHHHHHHHHhCCcEEEEEeCCHH
Confidence            00  0   00000000000011234689998 788999999999999999999999999999996

>3osn_A DNA polymerase IOTA; hoogsteen base PAIR, protein-DNA complex, Y-family DNA polym translesion synthesis, nucleoside triphosphate; HET: DNA DOC 6OG TTP; 1.90A {Homo sapiens} PDB: 2dpj_A* 2fll_A* 2fln_A* 2flp_A* 3epg_A* 3epi_A* 2dpi_A* 3g6v_A* 3g6y_A* 3g6x_A* 3gv7_B* 3gv8_B* 3ngd_A* 3gv5_B* 3q8p_B* 3q8q_B* 3q8r_B* 3q8s_B* 4ebc_A* 4ebd_A* ...

Probab=99.82  E-value=7.7e-21  Score=156.24  Aligned_cols=102  Identities=29%  Similarity=0.458  Sum_probs=77.8

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|++++++|+|.||.+||||+|||||+++..++.+..+.+.+   .....|+-                     
T Consensus       102 Y~~~S~~i~~il~~~tp~ve~~SiDE~fLDvt~~~~~~l~~~~~~~~~---~~~~~g~l---------------------  157 (420)
T 3osn_A          102 YREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVEKRLQQLQSDELS---AVTVSGHV---------------------  157 (420)
T ss_dssp             HHHHHHHHHHHHHHHCSCEEEETTTEEEEECHHHHHHHHHHSCSSSGG---GCCCCSEE---------------------
T ss_pred             HHHHHHHHHHHHHHhCCCeEEecCCEEEEECcccchhhcccccccccc---cccccccc---------------------
Confidence            899999999999999999999999999999999987766443221110   00111110                     


Q ss_pred             CCC-CccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDT-DTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~-~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                       ++ +..+..+|++. ++..+.++|++||++|+++||||||+|||+||+
T Consensus       158 -~g~~~~~~~~~~~~-~l~~~~~la~~Ir~~I~~~~Glt~svGIa~nk~  204 (420)
T 3osn_A          158 -YNNQSINLLDVLHI-RLLVGSQIAAEMREAMYNQLGLTGCAGVASNKL  204 (420)
T ss_dssp             -GGGCCCCTTCHHHH-HHHHHHHHHHHHHHHHHHHHCCCEEEEEESSHH
T ss_pred             -ccccccccccchhh-cchHHHHHHHHHHHHHHHHHCCcEEEEEeCCHH
Confidence             11 11123568877 788899999999999999999999999999986

>1t94_A Polymerase (DNA directed) kappa; replication, DNA repair, Y-family DNA polymerase, translesion DNA synthesis, lesion bypass; 2.40A {Homo sapiens} SCOP: d.240.1.1 e.8.1.7 PDB: 2oh2_A* 2w7o_A* 2w7p_A* 3hed_A* 3in5_A*

Probab=99.76  E-value=1.4e-19  Score=149.89  Aligned_cols=38  Identities=34%  Similarity=0.638  Sum_probs=36.2

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHH
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHER   38 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~   38 (129)
                      |+++|++|+++|++|+|.||++||||+|||||+++..+
T Consensus       107 Y~~~S~~i~~il~~~~p~ve~~SiDEafLDvT~~~~~~  144 (459)
T 1t94_A          107 YRAVSKEVKEILADYDPNFMAMSLDEAYLNITKHLEER  144 (459)
T ss_dssp             HHHHHHHHHHHHHHHCTTCEECSSSEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCceEEeecceEEEECchhHHHh
Confidence            89999999999999999999999999999999998754

>3pzp_A DNA polymerase kappa; DNA nucleotidyltransferase, DNA binding nucleotide binding M binding, nucleus; HET: DNA TTD DTP; 3.34A {Homo sapiens}

Probab=99.74  E-value=4.7e-19  Score=148.99  Aligned_cols=39  Identities=33%  Similarity=0.613  Sum_probs=36.7

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHH
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERM   39 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l   39 (129)
                      |+++|++|+++|.+|+|.||.+||||+|||||+++..++
T Consensus       163 Y~~~S~~v~~il~~ytp~ve~~SiDEafLDvT~~~~~~~  201 (517)
T 3pzp_A          163 YRAVSKEVKEILADYDPNFMAMSLDEAYLNITKHLEERQ  201 (517)
T ss_dssp             HHHHHHHHHHHHHTTCTTCBCCSSSEEEEETHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHcCCcEEEECCceEEEEccccccccc
Confidence            899999999999999999999999999999999986554

>1jx4_A DNA polymerase IV (family Y); protein-DNA complex, Y-family, transferase-D complex; HET: DNA MSE ADI; 1.70A {Sulfolobus solfataricus} SCOP: d.240.1.1 e.8.1.7 PDB: 1jxl_A* 1n48_A* 1n56_A* 1ryr_A* 1rys_A* 1s0m_A* 1s0n_A* 1s0o_A* 1s10_A* 1s97_A* 1s9f_A* 2ia6_A* 2ibk_A* 2r8g_A* 2r8h_A* 2r8i_A* 2rdj_A* 3fds_A* 3m9m_B* 3m9n_B* ...

Probab=99.74  E-value=2.3e-19  Score=143.75  Aligned_cols=69  Identities=36%  Similarity=0.582  Sum_probs=62.4

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|++++.+|+|.||.+||||+|||||+..+                                            
T Consensus        81 Y~~~s~~i~~il~~~tp~ve~~SiDE~~lDvt~~~~--------------------------------------------  116 (352)
T 1jx4_A           81 YQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKVR--------------------------------------------  116 (352)
T ss_dssp             HHHHHHHHHHHHTTTCSCEEEEETTEEEEECTTTCS--------------------------------------------
T ss_pred             HHHHHHHHHHHHHHhCCCeEEecCceEEEeccCccc--------------------------------------------
Confidence            899999999999999999999999999999998642                                            


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                                     .+..+.++|++||++|++++|||||+|||+||+
T Consensus       117 ---------------~~~~~~~~a~~ir~~i~~~~Gl~~svGia~nk~  149 (352)
T 1jx4_A          117 ---------------DYREAYNLGLEIKNKILEKEKITVTVGISKNKV  149 (352)
T ss_dssp             ---------------SHHHHHHHHHHHHHHHHHHHCCCEEEEEESSHH
T ss_pred             ---------------ccccHHHHHHHHHHHHHHHHCCcEEEEEcCCHH
Confidence                           122367899999999999999999999999985

>1im4_A DBH; DNA polymerase PALM, thumb, fingers, helix-hairpin-helix, fidelity, processivity, transferase; 2.30A {Sulfolobus solfataricus} SCOP: e.8.1.7

Probab=99.73  E-value=3.5e-19  Score=135.39  Aligned_cols=70  Identities=29%  Similarity=0.518  Sum_probs=62.0

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|++++.+|+|.||.+||||+|||+|+..+.                                           
T Consensus        86 Y~~~s~~i~~~l~~~tp~ve~~siDE~~lDvt~~~~~-------------------------------------------  122 (221)
T 1im4_A           86 YEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNKVEG-------------------------------------------  122 (221)
T ss_dssp             HHHHHHHHHHHHHTTCSEEEEEETTEEEEECTTTTTT-------------------------------------------
T ss_pred             HHHHHHHHHHHHHHhCCceEEecCCeEEEEecchhhh-------------------------------------------
Confidence            8899999999999999999999999999999986420                                           


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                                     .+..+.+++++||++|++++|+|||+|||+||+
T Consensus       123 ---------------l~~~~~~la~~ir~~i~~~~Gl~~svGia~nk~  155 (221)
T 1im4_A          123 ---------------NFENGIELARKIKQEILEKEKITVTVGVAPNKI  155 (221)
T ss_dssp             ---------------CHHHHHHHHHHHHHHHHHHHCCCEEEEEESSHH
T ss_pred             ---------------ccCCHHHHHHHHHHHHHHHhCCeEEEEeCCCHH
Confidence                           012357899999999999999999999999986

>3bq0_A POL IV, DBH, DNA polymerase IV; Y-family, lesion bypass; HET: DNA; 2.60A {Sulfolobus acidocaldarius} SCOP: d.240.1.1 e.8.1.7 PDB: 3bq1_A* 3bq2_A* 1k1q_A 1k1s_A

Probab=99.72  E-value=5.5e-19  Score=141.62  Aligned_cols=70  Identities=29%  Similarity=0.518  Sum_probs=62.2

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|++++.+|+|.||.+||||+|||||+..+.                                           
T Consensus        81 Y~~~s~~i~~il~~~tp~ve~~SiDE~~lDvt~~~~~-------------------------------------------  117 (354)
T 3bq0_A           81 YEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNKVEG-------------------------------------------  117 (354)
T ss_dssp             HHHHHHHHHHHHHTTCSEEEEEETTEEEEECTTTTTT-------------------------------------------
T ss_pred             HHHHHHHHHHHHHHhCCCEEEecCCeeEEecCcchhh-------------------------------------------
Confidence            8999999999999999999999999999999986420                                           


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                                     .+..+.+++++||++|++++|||||+|||+||+
T Consensus       118 ---------------~~~~~~~la~~ir~~i~~~~Gl~~svGia~nk~  150 (354)
T 3bq0_A          118 ---------------NFENGIELARKIKQEILEKEKITVTVGVAPNKI  150 (354)
T ss_dssp             ---------------CHHHHHHHHHHHHHHHHHHHCCCEEEEEESSHH
T ss_pred             ---------------ccCCHHHHHHHHHHHHHHHHCCcEEeeeccCHH
Confidence                           012357899999999999999999999999985

>4f4y_A POL IV, DNA polymerase IV; Y-family polymerase, transferase-DNA complex; HET: DNA DCP; 2.34A {Sulfolobus acidocaldarius} PDB: 3bq0_A* 3bq1_A* 3bq2_A* 4hyk_A* 1k1q_A 1k1s_A

Probab=99.70  E-value=1.3e-18  Score=140.44  Aligned_cols=70  Identities=29%  Similarity=0.518  Sum_probs=62.1

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|++++.+|+|.||.+||||+|||+|+..+.                                           
T Consensus        81 Y~~~s~~i~~il~~~tp~ve~~SiDEa~LDvt~~~~~-------------------------------------------  117 (362)
T 4f4y_A           81 YEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNKVEG-------------------------------------------  117 (362)
T ss_dssp             HHHHHHHHHHHHHTTCSEEEEEETTEEEEECTTTTTT-------------------------------------------
T ss_pred             HHHHHHHHHHHHHHhCCCEEEecCceEEEecCCcccc-------------------------------------------
Confidence            8999999999999999999999999999999986420                                           


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                                     .+..+.+++++||++|+++||||||+|||+||+
T Consensus       118 ---------------~~~~~~~~a~~ir~~I~~~~Gl~~svGIa~nk~  150 (362)
T 4f4y_A          118 ---------------NFENGIELARKIKQEILEKEKITVTVGVAPNKI  150 (362)
T ss_dssp             ---------------CHHHHHHHHHHHHHHHHHHHCCCCEEEEESSHH
T ss_pred             ---------------ccCCHHHHHHHHHHHHHHHHCCcEEEEEeCCHH
Confidence                           012357899999999999999999999999985

>3gqc_A DNA repair protein REV1; protein-DNA complex, DNA damage, DNA repair, DNA synthesis, binding, magnesium, metal-binding; HET: DNA DOC DCP; 2.50A {Homo sapiens}

Probab=99.68  E-value=6.1e-18  Score=141.96  Aligned_cols=70  Identities=23%  Similarity=0.438  Sum_probs=62.4

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|++++.+|+|.||.+||||+|||||+.....                                          
T Consensus       217 Y~~~S~~i~~il~~~tp~VE~~SiDEafLDvtg~~~l~------------------------------------------  254 (504)
T 3gqc_A          217 YKEVAQTLYETLASYTHNIEAVSCDEALVDITEILAET------------------------------------------  254 (504)
T ss_dssp             HHHHHHHHHHHHHTTCSCEEEEETTEEEEECHHHHHHH------------------------------------------
T ss_pred             HHHHHHHHHHHHHHhCCeEEEecCCeEEEeccchHhhc------------------------------------------
Confidence            89999999999999999999999999999999987520                                          


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                        +.              -+.++|++||++|+++||||||||||+||+
T Consensus       255 --g~--------------~~~~la~~Ir~~I~~~tGlt~SvGIa~nk~  286 (504)
T 3gqc_A          255 --KL--------------TPDEFANAVRMEIKDQTKCAASVGIGSNIL  286 (504)
T ss_dssp             --CC--------------CHHHHHHHHHHHHHHHHSCCEEEEEESSHH
T ss_pred             --CC--------------CHHHHHHHHHHHHHHHhCCcEEEEEeCCHH
Confidence              10              146899999999999999999999999986

>4dez_A POL IV 1, DNA polymerase IV 1; Y-family, transferase; HET: DNA; 2.60A {Mycobacterium smegmatis}

Probab=99.65  E-value=8.5e-18  Score=134.82  Aligned_cols=67  Identities=31%  Similarity=0.481  Sum_probs=59.6

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|++++++|+|.||.+||||+|||+|..-.                                            
T Consensus        83 Y~~~s~~v~~il~~~~p~ve~~SiDEafld~t~~~~--------------------------------------------  118 (356)
T 4dez_A           83 YDEASEQVMGLLRDLGHPLEVWGWDEAYLGADLPDE--------------------------------------------  118 (356)
T ss_dssp             HHHHHHHHHHHHHTTSSCEEEETTTEEEEEEECCTT--------------------------------------------
T ss_pred             HHHHHHHHHHHhhhcCCceeecCcchhheecccccC--------------------------------------------
Confidence            899999999999999999999999999999985310                                            


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                        ++               +.+++.+||++|+++||+|||+|||+||+
T Consensus       119 --~~---------------~~~~a~~ir~~i~~~~gl~~siGIa~nk~  149 (356)
T 4dez_A          119 --SD---------------PVEVAERIRTVVAAETGLSCSVGISDNKQ  149 (356)
T ss_dssp             --CC---------------HHHHHHHHHHHHHHHHSCCEEEEEESSHH
T ss_pred             --CC---------------HHHHHHHHHHHHHHHhCCccccchhccHH
Confidence              01               35799999999999999999999999985

>2aq4_A DNA repair protein REV1; polymerase, PAD, N-digit, G-loop, transferase; HET: DNA DOC DCP; 2.32A {Saccharomyces cerevisiae} PDB: 3bjy_A* 3osp_A*

Probab=99.63  E-value=4.8e-17  Score=133.85  Aligned_cols=70  Identities=24%  Similarity=0.348  Sum_probs=59.0

Q ss_pred             ChHHHHHHHHHHHhc--chhhhhcccchhhhh--ccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhh
Q psy16216          1 YRNAGREVIAVLSEF--SNIVERASIDEAYID--LTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWL   76 (129)
Q Consensus         1 Yr~~S~~I~~il~~~--~p~ve~~SiDEaylD--lT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~   76 (129)
                      |+++|++|++++.+|  +|.||.+||||+|||  +|+.....                                      
T Consensus       137 Y~~~S~~i~~il~~~~~t~~ve~~SiDEaflD~~vt~~~~~~--------------------------------------  178 (434)
T 2aq4_A          137 FQLKSEAFYSTLKRLNIFNLILPISIDEAVCVRIIPDNIHNT--------------------------------------  178 (434)
T ss_dssp             HHHHHHHHHHHHHHTTCCSEEEEEETTEEEEEEEECC-------------------------------------------
T ss_pred             HHHHHHHHHHHHHhcCCCCCEEEEcCceeEEcCcCccchhhc--------------------------------------
Confidence            899999999999997  589999999999999  88865310                                      


Q ss_pred             ccccCCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhh-CceeeecccCCCC
Q psy16216         77 GQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKT-QFHCSAGIAHNKV  128 (129)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~l-gltcSaGIa~NKl  128 (129)
                                          ...+.++|++||++|+++| |||||||||+||+
T Consensus       179 --------------------~~~~~~la~~Ir~~I~~~~gGlt~svGIa~nk~  211 (434)
T 2aq4_A          179 --------------------NTLNARLCEEIRQEIFQGTNGCTVSIGCSDSLV  211 (434)
T ss_dssp             ---------------------CHHHHHHHHHHHHHHHHHSSCCEEEEEESSHH
T ss_pred             --------------------CCCHHHHHHHHHHHHHHHcCCCcEEEEecCCHH
Confidence                                0125789999999999999 8999999999985

---

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	129
d1jiha2	389	e.8.1.7 (A:1-389) DNA polymerase eta {Baker's yeas	3e-16
d1t94a2	333	e.8.1.7 (A:75-407) DNA polymerase kappa {Human (Ho	8e-13
d1zeta2	273	e.8.1.7 (A:27-299) DNA polymerase iota {Human (Hom	6e-10

>d1jiha2 e.8.1.7 (A:1-389) DNA polymerase eta {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 389

class: Multi-domain proteins (alpha and beta)
fold: DNA/RNA polymerases
superfamily: DNA/RNA polymerases
family: Lesion bypass DNA polymerase (Y-family), catalytic domain
domain: DNA polymerase eta
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 71.1 bits (173), Expect = 3e-16
 Identities = 27/139 (19%), Positives = 54/139 (38%), Gaps = 11/139 (7%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKS------IGHIAASQLSNTF 54
           YR   R+ + +     ++VERASIDE ++DL  +    +         G +      +  
Sbjct: 131 YRRESRKALKIFKSACDLVERASIDEVFLDLGRICFNMLMFDNEYELTGDLKLKDALSNI 190

Query: 55  VVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQE-----LAIAGVIVEEIRA 109
              F   N D ++    + E +  +  + D    E  +   +     LA+   + + IR 
Sbjct: 191 REAFIGGNYDINSHLPLIPEKIKSLKFEGDVFNPEGRDLITDWDDVILALGSQVCKGIRD 250

Query: 110 AVLSKTQFHCSAGIAHNKV 128
           ++     +  S G++  K 
Sbjct: 251 SIKDILGYTTSCGLSSTKN 269

>d1t94a2 e.8.1.7 (A:75-407) DNA polymerase kappa {Human (Homo sapiens) [TaxId: 9606]} Length = 333

class: Multi-domain proteins (alpha and beta)
fold: DNA/RNA polymerases
superfamily: DNA/RNA polymerases
family: Lesion bypass DNA polymerase (Y-family), catalytic domain
domain: DNA polymerase kappa
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 61.4 bits (148), Expect = 8e-13
 Identities = 29/144 (20%), Positives = 52/144 (36%), Gaps = 17/144 (11%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGP 60
           YR   +EV  +L+++       S+DEAY+++T  + ER           +     V    
Sbjct: 100 YRAVSKEVKEILADYDPNFMAMSLDEAYLNITKHLEERQNWPEDKRRYFIKMGSSVENDN 159

Query: 61  DNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQE-----------------LAIAGVI 103
              + +            ++ ++ + +    + FQ                     A  +
Sbjct: 160 PGKEVNKLSEHERSISPLLFEESPSDVQPPGDPFQVNFEEQNNPQILQNSVVFGTSAQEV 219

Query: 104 VEEIRAAVLSKTQFHCSAGIAHNK 127
           V+EIR  +  KT    SAGIA N 
Sbjct: 220 VKEIRFRIEQKTTLTASAGIAPNT 243

>d1zeta2 e.8.1.7 (A:27-299) DNA polymerase iota {Human (Homo sapiens) [TaxId: 9606]} Length = 273

class: Multi-domain proteins (alpha and beta)
fold: DNA/RNA polymerases
superfamily: DNA/RNA polymerases
family: Lesion bypass DNA polymerase (Y-family), catalytic domain
domain: DNA polymerase iota
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.9 bits (126), Expect = 6e-10
 Identities = 31/127 (24%), Positives = 51/127 (40%), Gaps = 25/127 (19%)

Query: 1   YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGP 60
           YR    +V  +L EFS +VER   DE ++DLT++V +R++ +     S ++ +  V    
Sbjct: 76  YREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVEKRLQQLQSDELSAVTVSGHVYNNQ 135

Query: 61  DNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCS 120
             N  D                              L +   I  E+R A+ ++      
Sbjct: 136 SINLLDVLHI-------------------------RLLVGSQIAAEMREAMYNQLGLTGC 170

Query: 121 AGIAHNK 127
           AG+A NK
Sbjct: 171 AGVASNK 177

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	129
d1jiha2	389	DNA polymerase eta {Baker's yeast (Saccharomyces c	99.89
d1t94a2	333	DNA polymerase kappa {Human (Homo sapiens) [TaxId:	99.85
d1zeta2	273	DNA polymerase iota {Human (Homo sapiens) [TaxId:	99.85
d1im4a_	209	DinB homolog (DBH) {Archaeon Sulfolobus solfataric	99.79
d1jx4a2	240	DinB homolog (DBH) {Archaeon Sulfolobus solfataric	99.64

>d1jiha2 e.8.1.7 (A:1-389) DNA polymerase eta {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Multi-domain proteins (alpha and beta)
fold: DNA/RNA polymerases
superfamily: DNA/RNA polymerases
family: Lesion bypass DNA polymerase (Y-family), catalytic domain
domain: DNA polymerase eta
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.89  E-value=7.2e-25  Score=177.09  Aligned_cols=127  Identities=20%  Similarity=0.281  Sum_probs=81.2

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCcccc----------ccCCCcceeccCCCCCchHHhhh
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAA----------SQLSNTFVVGFGPDNNDEDARKA   70 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~----------~~l~~~~~~g~~~~~~~~~~~~~   70 (129)
                      ||++|++|+++|++|+|.||++||||+|||||+.+...+........          ..++..+..+.............
T Consensus       131 Yr~~S~~v~~il~~~~~~vE~~SIDEaflDlT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  210 (389)
T d1jiha2         131 YRRESRKALKIFKSACDLVERASIDEVFLDLGRICFNMLMFDNEYELTGDLKLKDALSNIREAFIGGNYDINSHLPLIPE  210 (389)
T ss_dssp             HHHHHHHHHHHHHHHCSCEEEEETTEEEEECHHHHHHHHHHCCSCBSSSSCBHHHHTHHHHHHHHHCCSCTTSBCCCCCG
T ss_pred             HHHHHHHHHHHHHHhCCCeeEeecceEEEEcchhhhhccccccchhcccccccccccccccccccccccccccccccccc
Confidence            89999999999999999999999999999999999877654221100          00000000000000000000000


Q ss_pred             chhhhhccccCC--CCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         71 GVMEWLGQVYSD--TDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        71 ~~~~~~~~~~~~--~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                      ....|...-..+  ......++|+++ +|.+|+++|.+||++|+++||||||||||+|||
T Consensus       211 ~~~~~~~~~~~~~~~~~~~~~~~~d~-~l~~g~~ia~~IR~~I~~etGlt~S~GIa~NK~  269 (389)
T d1jiha2         211 KIKSLKFEGDVFNPEGRDLITDWDDV-ILALGSQVCKGIRDSIKDILGYTTSCGLSSTKN  269 (389)
T ss_dssp             GGGGCCCCSEECCTTCCCSCCSHHHH-HHHHHHHHHHHHHHHHHHHHCCCCEEEEESSHH
T ss_pred             cccccccccccccccccccccchhhh-hhhHHHHHHHHHHHHHHHHhCCCceecccccHH
Confidence            001111000001  111234689998 899999999999999999999999999999996

>d1t94a2 e.8.1.7 (A:75-407) DNA polymerase kappa {Human (Homo sapiens) [TaxId: 9606]}

class: Multi-domain proteins (alpha and beta)
fold: DNA/RNA polymerases
superfamily: DNA/RNA polymerases
family: Lesion bypass DNA polymerase (Y-family), catalytic domain
domain: DNA polymerase kappa
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.85  E-value=5.9e-23  Score=162.74  Aligned_cols=125  Identities=23%  Similarity=0.297  Sum_probs=71.7

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccc--cc--------cCCCcceeccCCC---------
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIA--AS--------QLSNTFVVGFGPD---------   61 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~--~~--------~l~~~~~~g~~~~---------   61 (129)
                      ||++|++|+++|++|+|.||++||||+|||||+++..++.......  ..        ..+.......+..         
T Consensus       100 Yr~~S~~i~~il~~~~~~vE~~SIDE~flDlT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  179 (333)
T d1t94a2         100 YRAVSKEVKEILADYDPNFMAMSLDEAYLNITKHLEERQNWPEDKRRYFIKMGSSVENDNPGKEVNKLSEHERSISPLLF  179 (333)
T ss_dssp             HHHHHHHHHHHHHHHCTTCEECSSSEEEEECHHHHHHHTTCCGGGSEEECCC---CCCCCCCGGGGGGSTTTTTTGGGCC
T ss_pred             HHHHHHHHHHHHHHcCCCEEEEeccEEEEecchhhhhhcccccchhhhhccccccccccccccccccccccccccccccc
Confidence            8999999999999999999999999999999999987543211000  00        0000000000000         


Q ss_pred             -CCchHHhhhchhhhhccccCCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         62 -NNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        62 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                       ......+..+  ................+|... .+..|+++|.+||++|+++||||||||||+|||
T Consensus       180 ~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~-~~~~a~~la~~IR~~I~~etG~t~SaGIa~NK~  244 (333)
T d1t94a2         180 EESPSDVQPPG--DPFQVNFEEQNNPQILQNSVV-FGTSAQEVVKEIRFRIEQKTTLTASAGIAPNTM  244 (333)
T ss_dssp             ------------------------CCCCCCCEEE-CCSSHHHHHHHHHHHHHHHHSCCEEEEEESSHH
T ss_pred             ccccccccccc--ccccccccccccchhhhhhhh-ccccHHHHHHHHHHHHHHHhCCCeEEeECccHH
Confidence             0000000000  000000000000011223332 445689999999999999999999999999996

>d1zeta2 e.8.1.7 (A:27-299) DNA polymerase iota {Human (Homo sapiens) [TaxId: 9606]}

class: Multi-domain proteins (alpha and beta)
fold: DNA/RNA polymerases
superfamily: DNA/RNA polymerases
family: Lesion bypass DNA polymerase (Y-family), catalytic domain
domain: DNA polymerase iota
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.85  E-value=6.3e-22  Score=152.32  Aligned_cols=102  Identities=28%  Similarity=0.445  Sum_probs=78.0

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCcccccc-CCCcceeccCCCCCchHHhhhchhhhhccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQ-LSNTFVVGFGPDNNDEDARKAGVMEWLGQV   79 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~-l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~   79 (129)
                      |+++|++|+++|++|+|.||++||||+|||+|+.+..++.......... ....++.+.                     
T Consensus        76 Y~~~S~~i~~~l~~~~~~ve~~SiDE~flDlt~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------------  134 (273)
T d1zeta2          76 YREMSYKVTELLEEFSPVVERLGFDENFVDLTEMVEKRLQQLQSDELSAVTVSGHVYNN---------------------  134 (273)
T ss_dssp             HHHHHHHHHHHHHHHCSCEEEETTTEEEEECHHHHHHHHHHSCSSGGGGCCCCSEEGGG---------------------
T ss_pred             HHHHHHHHHHHHHHhCCeeEEEcCcceEEeccccccccccccccchhhccccccccccc---------------------
Confidence            8999999999999999999999999999999999987765433221110 011112111                     


Q ss_pred             cCCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         80 YSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        80 ~~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                          +..+..+|.+. .+..|+++|++||++|+++||||||+|||+||+
T Consensus       135 ----~~~~~~d~~~~-~~~~~~~~a~~ir~~I~~~~g~~~svGIa~nk~  178 (273)
T d1zeta2         135 ----QSINLLDVLHI-RLLVGSQIAAEMREAMYNQLGLTGCAGVASNKL  178 (273)
T ss_dssp             ----CCCCTTCHHHH-HHHHHHHHHHHHHHHHHHHHCCCEEEEEESSHH
T ss_pred             ----ccccchhhhhh-hcccHHHHHHHHHHHHHHHhCCCeEeeecCcHH
Confidence                11123456666 778899999999999999999999999999986

>d1im4a_ e.8.1.7 (A:) DinB homolog (DBH) {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Multi-domain proteins (alpha and beta)
fold: DNA/RNA polymerases
superfamily: DNA/RNA polymerases
family: Lesion bypass DNA polymerase (Y-family), catalytic domain
domain: DinB homolog (DBH)
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=99.79  E-value=5.7e-21  Score=142.38  Aligned_cols=70  Identities=29%  Similarity=0.518  Sum_probs=62.5

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|++++++|+|.||.+||||+|||+|+....                                           
T Consensus        85 Y~~~s~~i~~il~~~~p~ve~~SiDE~fldlt~~~~~-------------------------------------------  121 (209)
T d1im4a_          85 YEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNKVEG-------------------------------------------  121 (209)
T ss_dssp             HHHHHHHHHHHHHTTCSEEEEEETTEEEEECTTTTTT-------------------------------------------
T ss_pred             HHHHHHHHHHHHHhcCCceeeccccceeeeeccchhh-------------------------------------------
Confidence            8899999999999999999999999999999986531                                           


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                                     ....+..+|++||++|+++||||||+|||+||+
T Consensus       122 ---------------~~~~~~~~a~~ir~~I~~~~gl~~SiGIa~nk~  154 (209)
T d1im4a_         122 ---------------NFENGIELARKIKQEILEKEKITVTVGVAPNKI  154 (209)
T ss_dssp             ---------------CHHHHHHHHHHHHHHHHHHHCCCEEEEEESSHH
T ss_pred             ---------------ccchHHHHHHHHHHHHHHhcCCceeeccccchh
Confidence                           012367899999999999999999999999986

>d1jx4a2 e.8.1.7 (A:1-240) DinB homolog (DBH) {Archaeon Sulfolobus solfataricus, DNA polymerase IV [TaxId: 2287]}

class: Multi-domain proteins (alpha and beta)
fold: DNA/RNA polymerases
superfamily: DNA/RNA polymerases
family: Lesion bypass DNA polymerase (Y-family), catalytic domain
domain: DinB homolog (DBH)
species: Archaeon Sulfolobus solfataricus, DNA polymerase IV [TaxId: 2287]

Probab=99.64  E-value=8e-18  Score=127.04  Aligned_cols=69  Identities=36%  Similarity=0.582  Sum_probs=61.8

Q ss_pred             ChHHHHHHHHHHHhcchhhhhcccchhhhhccHHHHHHHHhcCccccccCCCcceeccCCCCCchHHhhhchhhhhcccc
Q psy16216          1 YRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVY   80 (129)
Q Consensus         1 Yr~~S~~I~~il~~~~p~ve~~SiDEaylDlT~~v~~~l~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (129)
                      |+++|++|++++.+|+|.||.+||||+|+|+|+..+.                                           
T Consensus        81 y~~~s~~i~~~l~~~~~~ve~~siDE~~ldl~~~~~~-------------------------------------------  117 (240)
T d1jx4a2          81 YQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKVRD-------------------------------------------  117 (240)
T ss_dssp             HHHHHHHHHHHHTTTCSCEEEEETTEEEEECTTTCSS-------------------------------------------
T ss_pred             HHHHHHHHHHHHHhhcceeeeccchhhhhcccccccc-------------------------------------------
Confidence            7899999999999999999999999999999986421                                           


Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHHHHHHHHHhhCceeeecccCCCC
Q psy16216         81 SDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKV  128 (129)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~aa~ia~~iR~~I~~~lgltcSaGIa~NKl  128 (129)
                                      +..+.+++..||++|+++||||||+|||+||+
T Consensus       118 ----------------~~~~~~~a~~i~~~i~~~~g~~~siGia~nk~  149 (240)
T d1jx4a2         118 ----------------YREAYNLGLEIKNKILEKEKITVTVGISKNKV  149 (240)
T ss_dssp             ----------------HHHHHHHHHHHHHHHHHHHCCCEEEEEESSHH
T ss_pred             ----------------cccHHHHHHHHHHHHHHhhccccceeecchhh
Confidence                            12357899999999999999999999999986