Psyllid ID: psy6818

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160--
Protein Sequence
SPFFDGKTPKWFHEECFWKKNRPKALLDIHNVTSLRHQDQEMIKSKILGNIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFSASGKQIPGFGSLEKKDQKIVEATLPSLSDGVSKTDAISHFLLIPLYLTLQVS
Secondary Structure (PSIPRED)
ccccccccccEEccccccccccccccccccccccccHHHHHHHHHHccccEEEcccccccccccccccccccEEEEEEccccccccccccccEEEccccccccccccccccccccccccccccHHHHHHHHHHcHHcccccccccccccEEEEEcccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccHHHHHHccccccHHHcccccHccHHHHHHHHHHHHcccEEcccccccccccccHcccccEEEEEEEcccccccccccccccccHHHHHHHHHcccccccHHHcccHHHccHHHHHHHHHHHHHHcccccccccEEEEEEEEEEEccccc
Coil and Loop (DISEMBL)
spffdgktpkwfheecfwkknrpkalldihnvtslrhqDQEMIKSKILGNIEYAKsnrstcrgceakIAKGeirvskmnydsdqgkmiggipewyhLSCFNAVRldlefsasgkqipgfgslekkdQKIVEatlpslsdgvsktdaISHFLLIPLYLTLQVS
Flexible Loop (DISEMBL)
spffdgktpkwFHEECFWKKNRPKALLDIHnvtslrhqdqemIKSKILGNIeyaksnrstcrgceakiakgeirvskmnydSDQGKMIGGIPEWYHLSCFNAVRLDLEFSASGKQIpgfgslekkdQKIVEATlpslsdgvsKTDAISHFLLIPLYLTLQVS
Low Complexity Region (SEG)
SPFFDGKTPKWFHEECFWKKNRPKALLDIHNVTSLRHQDQEMIKSKILGNIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFSASGKQIPGFGSLEKKDQKIVEATLPSLSDGVSKTDAISHFLLIPLYLTLQVS
Disordered region (IsUnstruct)
*******TPKWFHEECFWKKNRPKALLDIHNVTSLRHQDQEMIKSKILGNIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFSASGKQIPGF**********V*********GVSKTDAISHFLLIPLYLTL***
Disordered Region (DISOPRED)
**FFDGKTPKWFHEECFWKKNRPKALLDIHNVTSLRHQD**********************RGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFSASGKQIPGFGSLEKKDQKIV*************************YL*****
Disordered Region (DISEMBL)
SPFFDGKTPKWFHEECFWKKNRPKALLDIHNVTSLRHQDQEMIKSKILGNIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFSASGKQIPGFGSLEKKDQKIVEATLPSLSDGVSKTDAISHFLLIPLYLTLQVS
Disordered Region (DISPRO)
****DGKTPKWFHEECFWKKNRPKALLDIHNVTSLRHQDQEMIKSKILGNIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFSASGKQIPGFGSLEKKDQKIVEATLPSLSDGVSKTDAISHFLLIPLYLTLQ*S
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
SPFFDGKTPKWFHEECFWKKNRPKALLDIHNVTSLRHQDQEMIKSKILGNIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFSASGKQIPGFGSLEKKDQKIVEATLPSLSDGVSKTDAISHFLLIPLYLTLQVS
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	162	2.2.26 [Sep-21-2011]
Q11208	996	Poly [ADP-ribose] polymer	N/A	N/A	0.876	0.142	0.394	9e-30
P35875	994	Poly [ADP-ribose] polymer	yes	N/A	0.845	0.137	0.416	6e-29
P31669	998	Poly [ADP-ribose] polymer	N/A	N/A	0.901	0.146	0.404	6e-27
P26446	1011	Poly [ADP-ribose] polymer	yes	N/A	0.833	0.133	0.388	3e-23
Q9R152	1013	Poly [ADP-ribose] polymer	yes	N/A	0.901	0.144	0.362	2e-22
P27008	1014	Poly [ADP-ribose] polymer	yes	N/A	0.901	0.143	0.362	1e-21
P09874	1014	Poly [ADP-ribose] polymer	yes	N/A	0.901	0.143	0.362	2e-21
P11103	1013	Poly [ADP-ribose] polymer	yes	N/A	0.901	0.144	0.350	1e-20
P18493	1016	Poly [ADP-ribose] polymer	yes	N/A	0.814	0.129	0.341	9e-17
Q9ZSV1	980	Poly [ADP-ribose] polymer	N/A	N/A	0.728	0.120	0.335	1e-12

>sp|Q11208|PARP_SARPE Poly [ADP-ribose] polymerase OS=Sarcophaga peregrina PE=1 SV=1

 Score =  129 bits (324), Expect = 9e-30,   Method: Compositional matrix adjust.
 Identities = 67/170 (39%), Positives = 94/170 (55%), Gaps = 28/170 (16%)

Query: 1   SPFFDGKTPKWFHEECFWKKNRPKALLDIHNVTSLRHQDQEMIKSKILG----------- 49
           S F DGK P WFHE+CF++K RP +  DI N  ++R +DQE IK  I             
Sbjct: 39  SAFHDGKQPNWFHEQCFFQKQRPTSAGDIENFENIRFEDQERIKKAIDNCTTVISAGGSK 98

Query: 50  ----------------NIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPE 93
                            IEYAKS R++CRGCE KI K +IR+ K  +D++ G   GG P 
Sbjct: 99  KGAKRSKGENNAIKDFGIEYAKSGRASCRGCEQKILKDQIRIRKTVFDTEVGMKYGGQPL 158

Query: 94  WYHLSCFNAVRLDLEFSASGKQIPGFGSLEKKDQKIVEATLPSLSD-GVS 142
           W+H+ CF  +R +L +  +G+ +PGF +L+  D+  V+  LP + D GVS
Sbjct: 159 WHHVECFAQLRGELGWLDTGENLPGFQTLKSDDKADVKKALPVIKDEGVS 208

Poly[ADP-ribose] polymerase modifies various nuclear proteins by poly(ADP-ribosyl)ation. The modification is dependent on DNA and is involved in the regulation of various important cellular processes such as differentiation, proliferation, and tumor transformation and also in the regulation of the molecular events involved in the recovery of cell from DNA damage.
Sarcophaga peregrina (taxid: 7386)
EC: 2EC: .EC: 4EC: .EC: 2EC: .EC: 3EC: 0

>sp|P35875|PARP_DROME Poly [ADP-ribose] polymerase OS=Drosophila melanogaster GN=Parp PE=2 SV=1

 Score =  126 bits (317), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 67/161 (41%), Positives = 89/161 (55%), Gaps = 24/161 (14%)

Query: 1   SPFFDGKTPKWFHEECFWKKNRPKALLDIHNVTSLRHQDQ----------EMIKSKILGN 50
           S F D K P WFH+ CF+K  RP ++ DI N+ +LR  DQ          + + S  LG 
Sbjct: 39  SAFHDAKVPNWFHKTCFFKNQRPSSVGDIQNIGNLRFADQKELTDLVENIQEVISAQLGK 98

Query: 51  --------------IEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYH 96
                         IEYAKS+RSTCRGCE KI K  +R+ K  YD++ G   GG P W+H
Sbjct: 99  KRSKAFNLALKDFGIEYAKSSRSTCRGCEQKINKDLVRLRKTVYDTEVGMKYGGQPLWHH 158

Query: 97  LSCFNAVRLDLEFSASGKQIPGFGSLEKKDQKIVEATLPSL 137
           L CF  +R +L + ASG+ +PGF SL   DQ  V+  +P +
Sbjct: 159 LECFAQLRSELGWFASGEDMPGFQSLADDDQAKVKNAIPPI 199

Poly[ADP-ribose] polymerase modifies various nuclear proteins by poly(ADP-ribosyl)ation. The modification is dependent on DNA and is involved in the regulation of various important cellular processes such as differentiation, proliferation, and tumor transformation and also in the regulation of the molecular events involved in the recovery of cell from DNA damage. Plays a fundamental role in organizing chromatin on a global scale; isoform e autoregulates Parp transcription by influencing the chromatin structure of its heterochromatic environment.

Drosophila melanogaster (taxid: 7227)

EC: 2

EC: .

EC: 4

EC: .

EC: 2

EC: .

EC: 3

EC: 0

>sp|P31669|PARP1_XENLA Poly [ADP-ribose] polymerase 1 (Fragment) OS=Xenopus laevis GN=parp1 PE=2 SV=1

 Score =  119 bits (299), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 70/173 (40%), Positives = 96/173 (55%), Gaps = 27/173 (15%)

Query: 1   SPFFDGKTPKWFHEECFWKKNRPKALLDIHNVTSLRHQDQEMIKSKI------------- 47
           SP FDGK P W H  CFWK+ R  +  DI+  T LR +DQEMIK  I             
Sbjct: 28  SPMFDGKVPHWHHYSCFWKRARVLSQGDIYGYTELRWEDQEMIKKAIETGGAAAGAGGDS 87

Query: 48  --------LGNI--EYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHL 97
                   L +   EYAKSNRS C+GCE KI KG+IR+SK + D ++ ++ G I  WYH 
Sbjct: 88  KGGKGEMTLNDFAAEYAKSNRSACKGCEQKIEKGQIRISKKSVDVERPQL-GMIDRWYHP 146

Query: 98  SCFNAVRLDLEF--SASGKQIPGFGSLEKKDQKIVEATLPSL-SDGVSKTDAI 147
            CF + R +L+F  S S  Q+ GF  L  +D+  ++  LP++ ++G  K D +
Sbjct: 147 DCFVSSREELDFLPSYSASQLKGFTILSAEDKDSLKKKLPAVKNEGKRKADEV 199

Poly[ADP-ribose] polymerase modifies various nuclear proteins by poly(ADP-ribosyl)ation. The modification is dependent on DNA and is involved in the regulation of various important cellular processes such as differentiation, proliferation, and tumor transformation and also in the regulation of the molecular events involved in the recovery of cell from DNA damage.

Xenopus laevis (taxid: 8355)

EC: 2

EC: .

EC: 4

EC: .

EC: 2

EC: .

EC: 3

EC: 0

>sp|P26446|PARP1_CHICK Poly [ADP-ribose] polymerase 1 OS=Gallus gallus GN=PARP1 PE=1 SV=2

 Score =  107 bits (267), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 63/162 (38%), Positives = 85/162 (52%), Gaps = 27/162 (16%)

Query: 1   SPFFDGKTPKWFHEECFWKKNRPKALLDIHNVTSLRHQDQEMIKSKI------------- 47
           SP FDGK P W H  CFWK+ R  +  DI     LR +DQE IK  I             
Sbjct: 41  SPMFDGKVPHWHHYSCFWKRARIVSHTDIDGFPELRWEDQEKIKKAIETGALQEEKGGTR 100

Query: 48  --LGN---------IEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYH 96
             +G           EYAKSNRSTC+GCE KI KG+IR+SK     ++ ++ G I  WYH
Sbjct: 101 KEVGKAEKSLTDFAAEYAKSNRSTCKGCEQKIEKGQIRISKKMVHPEKPQL-GMIDNWYH 159

Query: 97  LSCFNAVRLDLEF--SASGKQIPGFGSLEKKDQKIVEATLPS 136
             CF + R +L F  +    Q+ GF  L+ +D++ ++  LP+
Sbjct: 160 PDCFVSRRAELGFLPAYGATQLLGFSILKAEDKETLKKQLPA 201

Poly[ADP-ribose] polymerase modifies various nuclear proteins by poly(ADP-ribosyl)ation. The modification is dependent on DNA and is involved in the regulation of various important cellular processes such as differentiation, proliferation, and tumor transformation and also in the regulation of the molecular events involved in the recovery of cell from DNA damage.

Gallus gallus (taxid: 9031)

EC: 2

EC: .

EC: 4

EC: .

EC: 2

EC: .

EC: 3

EC: 0

>sp|Q9R152|PARP1_CRIGR Poly [ADP-ribose] polymerase 1 OS=Cricetulus griseus GN=PARP1 PE=2 SV=3

 Score =  104 bits (260), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 63/174 (36%), Positives = 92/174 (52%), Gaps = 28/174 (16%)

Query: 1   SPFFDGKTPKWFHEECFWKKNRP--KALLDIHNVTSLRHQDQEMIK-------------- 44
           SP FDGK P W+H  CFWK      +  +++   + LR  DQ+ +K              
Sbjct: 41  SPMFDGKVPHWYHFSCFWKVGHSIRQPDVEVDGFSELRWDDQQKVKKTAEAGGVAGKGQD 100

Query: 45  ------SKILGNI--EYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYH 96
                  K LG+   EYAKSNRSTC+GC  KI KG++R+SK   D ++ ++ G I  WYH
Sbjct: 101 GSGGKSEKTLGDFAAEYAKSNRSTCKGCMEKIEKGQVRLSKKMLDPEKPQL-GMIDRWYH 159

Query: 97  LSCFNAVRLDLEFSA--SGKQIPGFGSLEKKDQKIVEATLPSL-SDGVSKTDAI 147
            +CF   R +L F    S  Q+ GF  L  +D+++++  LP + S+G  K D +
Sbjct: 160 PTCFVKNREELGFRPEYSASQLKGFSLLSAEDKEVLKKQLPGVKSEGKRKGDEV 213

Involved in the base excision repair (BER) pathway, by catalyzing the poly(ADP-ribosyl)ation of a limited number of acceptor proteins involved in chromatin architecture and in DNA metabolism. This modification follows DNA damages and appears as an obligatory step in a detection/signaling pathway leading to the reparation of DNA strand breaks. Mediates the poly(ADP-ribosyl)ation of APLF and CHFR. Positively regulates the transcription of MTUS1 and negatively regulates the transcription of MTUS2/TIP150. With EEF1A1 and TXK, forms a complex that acts as a T-helper 1 (Th1) cell-specific transcription factor and binds the promoter of IFN-gamma to directly regulate its transcription, and is thus involved importantly in Th1 cytokine production.

Cricetulus griseus (taxid: 10029)

EC: 2

EC: .

EC: 4

EC: .

EC: 2

EC: .

EC: 3

EC: 0

>sp|P27008|PARP1_RAT Poly [ADP-ribose] polymerase 1 OS=Rattus norvegicus GN=Parp1 PE=1 SV=4

 Score =  102 bits (253), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 63/174 (36%), Positives = 91/174 (52%), Gaps = 28/174 (16%)

Query: 1   SPFFDGKTPKWFHEECFWKKNRP--KALLDIHNVTSLRHQDQEMIK-------------- 44
           SP FDGK P W+H  CFWK      +   ++   + LR  DQ+ +K              
Sbjct: 41  SPMFDGKVPHWYHFSCFWKVGHSIRQPDTEVDGFSELRWDDQQKVKKTAEAGGVAGKGQH 100

Query: 45  ------SKILGNI--EYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYH 96
                  K LG+   EYAKSNRSTC+GC  KI KG++R+SK   D ++ ++ G I  WYH
Sbjct: 101 GGGGKAEKTLGDFAAEYAKSNRSTCKGCMEKIEKGQMRLSKKMLDPEKPQL-GMIDRWYH 159

Query: 97  LSCFNAVRLDLEFSA--SGKQIPGFGSLEKKDQKIVEATLPSL-SDGVSKTDAI 147
            +CF   R +L F    S  Q+ GF  L  +D++ ++  LP++ S+G  K D +
Sbjct: 160 PTCFVKNRDELGFRPEYSASQLKGFSLLSAEDKEALKKQLPAVKSEGKRKCDEV 213

Involved in the base excision repair (BER) pathway, by catalyzing the poly(ADP-ribosyl)ation of a limited number of acceptor proteins involved in chromatin architecture and in DNA metabolism. This modification follows DNA damages and appears as an obligatory step in a detection/signaling pathway leading to the reparation of DNA strand breaks. Mediates the poly(ADP-ribosyl)ation of APLF and CHFR. Positively regulates the transcription of MTUS1 and negatively regulates the transcription of MTUS2/TIP150. With EEF1A1 and TXK, forms a complex that acts as a T-helper 1 (Th1) cell-specific transcription factor and binds the promoter of IFN-gamma to directly regulate its transcription, and is thus involved importantly in Th1 cytokine production.

Rattus norvegicus (taxid: 10116)

EC: 2

EC: .

EC: 4

EC: .

EC: 2

EC: .

EC: 3

EC: 0

>sp|P09874|PARP1_HUMAN Poly [ADP-ribose] polymerase 1 OS=Homo sapiens GN=PARP1 PE=1 SV=4

 Score =  101 bits (251), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 63/174 (36%), Positives = 89/174 (51%), Gaps = 28/174 (16%)

Query: 1   SPFFDGKTPKWFHEECFWKKNRP--KALLDIHNVTSLRHQDQEMIK-------------- 44
           SP FDGK P W+H  CFWK         +++   + LR  DQ+ +K              
Sbjct: 41  SPMFDGKVPHWYHFSCFWKVGHSIRHPDVEVDGFSELRWDDQQKVKKTAEAGGVTGKGQD 100

Query: 45  ------SKILGNI--EYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYH 96
                  K LG+   EYAKSNRSTC+GC  KI KG++R+SK   D ++ ++ G I  WYH
Sbjct: 101 GIGSKAEKTLGDFAAEYAKSNRSTCKGCMEKIEKGQVRLSKKMVDPEKPQL-GMIDRWYH 159

Query: 97  LSCFNAVRLDLEFSA--SGKQIPGFGSLEKKDQKIVEATLPSL-SDGVSKTDAI 147
             CF   R +L F    S  Q+ GF  L  +D++ ++  LP + S+G  K D +
Sbjct: 160 PGCFVKNREELGFRPEYSASQLKGFSLLATEDKEALKKQLPGVKSEGKRKGDEV 213

Involved in the base excision repair (BER) pathway, by catalyzing the poly(ADP-ribosyl)ation of a limited number of acceptor proteins involved in chromatin architecture and in DNA metabolism. This modification follows DNA damages and appears as an obligatory step in a detection/signaling pathway leading to the reparation of DNA strand breaks. Mediates the poly(ADP-ribosyl)ation of APLF and CHFR. Positively regulates the transcription of MTUS1 and negatively regulates the transcription of MTUS2/TIP150. With EEF1A1 and TXK, forms a complex that acts as a T-helper 1 (Th1) cell-specific transcription factor and binds the promoter of IFN-gamma to directly regulate its transcription, and is thus involved importantly in Th1 cytokine production.

Homo sapiens (taxid: 9606)

EC: 2

EC: .

EC: 4

EC: .

EC: 2

EC: .

EC: 3

EC: 0

>sp|P11103|PARP1_MOUSE Poly [ADP-ribose] polymerase 1 OS=Mus musculus GN=Parp1 PE=1 SV=3

 Score = 99.0 bits (245), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 61/174 (35%), Positives = 91/174 (52%), Gaps = 28/174 (16%)

Query: 1   SPFFDGKTPKWFHEECFWKKNRP--KALLDIHNVTSLRHQDQEMIK-------------- 44
           SP FDGK P W+H  CFWK  +      +++   + LR  DQ+ +K              
Sbjct: 41  SPMFDGKVPHWYHFSCFWKVGQSIRHPDVEVDGFSELRWDDQQKVKKTAEAGGVAGKGQD 100

Query: 45  ------SKILGNI--EYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYH 96
                  K LG+   EYAKSNRS C+GC  KI KG++R+SK   D ++ ++ G I  WYH
Sbjct: 101 GSGGKAEKTLGDFAAEYAKSNRSMCKGCLEKIEKGQMRLSKKMVDPEKPQL-GMIDRWYH 159

Query: 97  LSCFNAVRLDLEFSA--SGKQIPGFGSLEKKDQKIVEATLPSL-SDGVSKTDAI 147
            +CF   R +L F    S  Q+ GF  L  +D++ ++  LP++ ++G  K D +
Sbjct: 160 PTCFVKKRDELGFRPEYSASQLKGFSLLSAEDKEALKKQLPAIKNEGKRKGDEV 213

Positively regulates the transcription of MTUS1 and negatively regulates the transcription of MTUS2/TIP150. With EEF1A1 and TXK, forms a complex that acts as a T-helper 1 (Th1) cell-specific transcription factor and binds the promoter of IFN-gamma to directly regulate its transcription, and is thus involved importantly in Th1 cytokine production (By similarity). Involved in the base excision repair (BER) pathway, by catalyzing the poly(ADP-ribosyl)ation of a limited number of acceptor proteins involved in chromatin architecture and in DNA metabolism. This modification follows DNA damages and appears as an obligatory step in a detection/signaling pathway leading to the reparation of DNA strand breaks. Mediates the poly(ADP-ribosyl)ation of APLF and CHFR.

Mus musculus (taxid: 10090)

EC: 2

EC: .

EC: 4

EC: .

EC: 2

EC: .

EC: 3

EC: 0

>sp|P18493|PARP1_BOVIN Poly [ADP-ribose] polymerase 1 OS=Bos taurus GN=PARP1 PE=2 SV=2

 Score = 86.3 bits (212), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 58/170 (34%), Positives = 84/170 (49%), Gaps = 38/170 (22%)

Query: 1   SPFFDGKTPKWFHEECFWKKN----RPKALLDIHNVTSLRHQDQEMIK--------SKIL 48
           SP FDGK P W+H  CFWK       P   +++   + LR  DQ+ IK        + + 
Sbjct: 41  SPMFDGKIPHWYHLSCFWKVGFSIWHPD--VEVEGFSELRWDDQQTIKKMAETGGRTDVS 98

Query: 49  GNIE-----------------YAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGI 91
           G  +                 YAKSNRSTC+ C  KI KG++R+SK     D+ ++ G +
Sbjct: 99  GKGQDGVGSKTEKTLIDFGAGYAKSNRSTCKSCMEKIDKGQVRLSKKVVYPDKPQL-GMV 157

Query: 92  PEWYHLSCFNAVRLDL----EFSASGKQIPGFGSLEKKDQKIVEATLPSL 137
             WYH  CF   R +L    EFSA+   + GF  L  +DQ+ ++  LP++
Sbjct: 158 DCWYHPKCFVQKREELGFRPEFSAT--HLMGFSVLTAEDQETLKKQLPAI 205

Involved in the base excision repair (BER) pathway, by catalyzing the poly(ADP-ribosyl)ation of a limited number of acceptor proteins involved in chromatin architecture and in DNA metabolism. This modification follows DNA damages and appears as an obligatory step in a detection/signaling pathway leading to the reparation of DNA strand breaks. Mediates the poly(ADP-ribosyl)ation of APLF and CHFR. Positively regulates the transcription of MTUS1 and negatively regulates the transcription of MTUS2/TIP150. With EEF1A1 and TXK, forms a complex that acts as a T-helper 1 (Th1) cell-specific transcription factor and binds the promoter of IFN-gamma to directly regulate its transcription, and is thus involved importantly in Th1 cytokine production.

Bos taurus (taxid: 9913)

EC: 2

EC: .

EC: 4

EC: .

EC: 2

EC: .

EC: 3

EC: 0

>sp|Q9ZSV1|PARP1_MAIZE Poly [ADP-ribose] polymerase 1 OS=Zea mays GN=PARP1 PE=2 SV=1

 Score = 72.4 bits (176), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 48/143 (33%), Positives = 75/143 (52%), Gaps = 25/143 (17%)

Query: 4   FDGKTPKWFHEEC-FWKKNRPKALLDIHNVTSLRHQDQEMIKSKILG------------- 49
           FDG  P W H  C F KKN+ K++ D+  + +LR  DQE I++ +               
Sbjct: 43  FDGFMPMWNHARCIFSKKNQIKSVDDVEGIDALRWDDQEKIRNYVGSASAGTSSTAAPPE 102

Query: 50  --NIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDL 107
              IE A S R++CR C  KI KG +R+S    +S+  K   GIP WYH +CF     ++
Sbjct: 103 KCTIEIAPSARTSCRRCSEKITKGSVRLS-AKLESEGPK---GIP-WYHANCF----FEV 153

Query: 108 EFSASGKQIPGFGSLEKKDQKIV 130
             SA+ ++  G+ +L  +D++ +
Sbjct: 154 SPSATVEKFSGWDTLSDEDKRTM 176

Involved in the base excision repair (BER) pathway, by catalyzing the poly(ADP-ribosyl)ation of a limited number of acceptor proteins involved in chromatin architecture and in DNA metabolism. This modification follows DNA damages and appears as an obligatory step in a detection/signaling pathway leading to the reparation of DNA strand breaks.

Zea mays (taxid: 4577)

EC: 2

EC: .

EC: 4

EC: .

EC: 2

EC: .

EC: 3

EC: 0

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	162
307207165	983	Poly [ADP-ribose] polymerase [Harpegnath	0.851	0.140	0.398	6e-31
241644606	963	poly [ADP-ribose] polymerase, putative [	0.833	0.140	0.436	6e-31
195107726	992	GI23619 [Drosophila mojavensis] gi|19391	0.845	0.138	0.431	9e-30
427780093	987	Putative poly adp-ribose polymerase 1 [R	0.771	0.126	0.453	1e-29
350404320	990	PREDICTED: poly [ADP-ribose] polymerase-	0.845	0.138	0.397	2e-29
340716645	990	PREDICTED: LOW QUALITY PROTEIN: poly [AD	0.845	0.138	0.397	2e-29
307182369	983	Poly [ADP-ribose] polymerase [Camponotus	0.864	0.142	0.377	2e-29
383864408	991	PREDICTED: poly [ADP-ribose] polymerase-	0.864	0.141	0.426	9e-29
270004381	956	hypothetical protein TcasGA2_TC003717 [T	0.845	0.143	0.398	1e-28
380019416	991	PREDICTED: poly [ADP-ribose] polymerase-	0.845	0.138	0.391	1e-28

>gi|307207165|gb|EFN84955.1| Poly [ADP-ribose] polymerase [Harpegnathos saltator]

 Score =  139 bits (349), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 65/163 (39%), Positives = 95/163 (58%), Gaps = 25/163 (15%)

Query: 1   SPFFDGKTPKWFHEECFWKKNRPKALLDIHNVTSLRHQDQEMIKSKILG----------- 49
           SP  DGK PKW+H +CF+ K RPK+  DI     +R +DQE++K ++             
Sbjct: 39  SPVHDGKIPKWYHSKCFFLKQRPKSTADIACFDQIRDKDQEVLKKRLEEALKAPPVSGKG 98

Query: 50  --------------NIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWY 95
                          +EYAKS+RSTC+GCE KI K E+R+SK +Y++D+ K  GGI  WY
Sbjct: 99  RKRANATKSGSGDFKVEYAKSSRSTCKGCEEKIIKEEVRISKKDYETDEAKKYGGIDRWY 158

Query: 96  HLSCFNAVRLDLEFSASGKQIPGFGSLEKKDQKIVEATLPSLS 138
           H+ CF  +R+DL +   G ++PG   L K+DQ+ V+A L  ++
Sbjct: 159 HVECFAKLRVDLGYYGEGSELPGIKDLSKEDQETVKAALNKIN 201

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

>gi|241644606|ref|XP_002409668.1| poly [ADP-ribose] polymerase, putative [Ixodes scapularis] gi|215501402|gb|EEC10896.1| poly [ADP-ribose] polymerase, putative [Ixodes scapularis]

 Score =  139 bits (349), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 65/149 (43%), Positives = 92/149 (61%), Gaps = 14/149 (9%)

Query: 3   FFDGKTPKWFHEECFWKKNRPKALLDIHNVTSLRHQDQEMIKSKILGNI----------- 51
            FDGK P W+H  CF+ K RPK++ DI    +LR++DQ+ I+ KI   +           
Sbjct: 1   MFDGKVPHWYHFMCFFSKQRPKSVGDIDKYGTLRYEDQKRIQEKIESKMAAGTTADDLRD 60

Query: 52  ---EYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLE 108
              EYAKSN+STC+GC  KIAKGE+R+SK++YD    KM G +P+WYH+ CF   R DL+
Sbjct: 61  FSTEYAKSNKSTCKGCSEKIAKGEVRISKLDYDGAFSKMRGPVPQWYHVDCFVKKRDDLD 120

Query: 109 FSASGKQIPGFGSLEKKDQKIVEATLPSL 137
           ++     IPGF SL   DQ++++  +  L
Sbjct: 121 YTLGADSIPGFMSLGVDDQRMLKEKIKKL 149

Source: Ixodes scapularis

Species: Ixodes scapularis

Genus: Ixodes

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

>gi|195107726|ref|XP_001998459.1| GI23619 [Drosophila mojavensis] gi|193915053|gb|EDW13920.1| GI23619 [Drosophila mojavensis]

 Score =  134 bits (338), Expect = 9e-30,   Method: Compositional matrix adjust.
 Identities = 69/160 (43%), Positives = 96/160 (60%), Gaps = 23/160 (14%)

Query: 1   SPFFDGKTPKWFHEECFWKKNRPKALLDIHNVTSLRHQDQEMIKSKILG----------- 49
           S F DGKTP WFH++CF+KK +P ++ DI N  +LR  DQ  IK  I             
Sbjct: 39  SAFHDGKTPNWFHKDCFFKKQKPASVGDIKNFENLRFADQTEIKEMIGSGPVVVASKSGK 98

Query: 50  ------------NIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHL 97
                       +IEY+KS+R+ CRGCE KI K EIRVSK  YD++ G   GG   W+HL
Sbjct: 99  RSKAEQAALKDFSIEYSKSSRAGCRGCELKINKDEIRVSKTVYDTEVGMKYGGQKVWHHL 158

Query: 98  SCFNAVRLDLEFSASGKQIPGFGSLEKKDQKIVEATLPSL 137
            CF  +R D+ +  SG+ +PG+ SL+K+D+++V  TLP++
Sbjct: 159 ECFAQMRADIGWFDSGENLPGYKSLKKEDKELVLKTLPAI 198

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|427780093|gb|JAA55498.1| Putative poly adp-ribose polymerase 1 [Rhipicephalus pulchellus]

 Score =  134 bits (337), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 63/139 (45%), Positives = 86/139 (61%), Gaps = 14/139 (10%)

Query: 3   FFDGKTPKWFHEECFWKKNRPKALLDIHNVTSLRHQDQEMIKSKILGNI----------- 51
            FDGKTP W+H  CF+ K RPK++ DI    +LR++DQ+ I+ KI   +           
Sbjct: 1   MFDGKTPNWYHFMCFFAKQRPKSVGDIDKFGTLRYEDQKRIQEKIESKLATGTTEEDLKD 60

Query: 52  ---EYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLE 108
              EYAKS +STC+GC  KIAKGE+R+SK +YDS   KM G IP W+H+ CF   R DL+
Sbjct: 61  FATEYAKSGKSTCKGCNEKIAKGEVRISKNDYDSGYAKMRGAIPMWFHVDCFVQKRDDLD 120

Query: 109 FSASGKQIPGFGSLEKKDQ 127
           ++   + +PGF +L   DQ
Sbjct: 121 YTLGAESLPGFMTLGVDDQ 139

Source: Rhipicephalus pulchellus

Species: Rhipicephalus pulchellus

Genus: Rhipicephalus

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350404320|ref|XP_003487068.1| PREDICTED: poly [ADP-ribose] polymerase-like [Bombus impatiens]

 Score =  134 bits (336), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 66/166 (39%), Positives = 92/166 (55%), Gaps = 29/166 (17%)

Query: 1   SPFFDGKTPKWFHEECFWKKNRPKALLDIHNVTSLRHQDQEMIKSKILGN---------- 50
           SP  DGK PKW+H  CF+ K RPK   DI N  ++R +DQ+ ++ +I             
Sbjct: 39  SPVHDGKVPKWYHPPCFFMKQRPKTTADIANFDNIRWEDQKELQRRIEEASTLPLPASRK 98

Query: 51  -------------------IEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGI 91
                              ++YAKSN+STC+ CE KI +GEIRVSK +++S+ G+  GGI
Sbjct: 99  GRKRSGGGTAATGPLHDFLVQYAKSNKSTCKACEEKIVQGEIRVSKKDFESEHGRRYGGI 158

Query: 92  PEWYHLSCFNAVRLDLEFSASGKQIPGFGSLEKKDQKIVEATLPSL 137
             W+HL CF  VR  L+F  SG  +PG   L K DQK +++ LP +
Sbjct: 159 DRWHHLECFAKVRESLQFYESGDSLPGKDELSKDDQKKLKSVLPRI 204

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

>gi|340716645|ref|XP_003396806.1| PREDICTED: LOW QUALITY PROTEIN: poly [ADP-ribose] polymerase-like [Bombus terrestris]

 Score =  133 bits (335), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 66/166 (39%), Positives = 92/166 (55%), Gaps = 29/166 (17%)

Query: 1   SPFFDGKTPKWFHEECFWKKNRPKALLDIHNVTSLRHQDQEMIKSKILGN---------- 50
           SP  DGK PKW+H  CF+ K RPK   DI N  ++R +DQ+ ++ +I             
Sbjct: 39  SPVHDGKVPKWYHPPCFFMKQRPKTTADIANFDNIRWEDQKELQRRIEEASTLPLPASRK 98

Query: 51  -------------------IEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGI 91
                              ++YAKSN+STC+ CE KI +GEIRVSK +++S+ G+  GGI
Sbjct: 99  GRKRSGGGTAAAGPLHDFLVQYAKSNKSTCKACEEKIVQGEIRVSKKDFESEHGRRYGGI 158

Query: 92  PEWYHLSCFNAVRLDLEFSASGKQIPGFGSLEKKDQKIVEATLPSL 137
             W+HL CF  VR  L+F  SG  +PG   L K DQK +++ LP +
Sbjct: 159 DRWHHLECFAKVRESLQFYESGDALPGKDELSKDDQKKLKSVLPRI 204

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

>gi|307182369|gb|EFN69632.1| Poly [ADP-ribose] polymerase [Camponotus floridanus]

 Score =  133 bits (335), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 63/167 (37%), Positives = 94/167 (56%), Gaps = 27/167 (16%)

Query: 1   SPFFDGKTPKWFHEECFWKKNRPKALLDIHNVTSLRHQDQEMIKSKILG----------- 49
           SP  DG  P+W+H ECF++K RPK+  DI     +R +DQE I+ KI             
Sbjct: 39  SPVHDGTIPRWYHFECFFEKQRPKSTADIACFDEIRLEDQEEIQKKIEEFVNAPPVSGKG 98

Query: 50  ----------------NIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPE 93
                            +EYAKSN+STC+GC+ KI KGE R+SK +Y++ + +  GG+  
Sbjct: 99  RKRTKGGGASGSAGDFRVEYAKSNKSTCKGCDEKIIKGETRISKKDYETAEARRFGGLDR 158

Query: 94  WYHLSCFNAVRLDLEFSASGKQIPGFGSLEKKDQKIVEATLPSLSDG 140
           W+H+ CF  +R DL +  SG ++PG   L K+D+  ++A LP ++ G
Sbjct: 159 WHHVECFAKLRADLGYYGSGDELPGVKELSKEDRNSLKAALPKMTQG 205

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

>gi|383864408|ref|XP_003707671.1| PREDICTED: poly [ADP-ribose] polymerase-like [Megachile rotundata]

 Score =  131 bits (330), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 72/169 (42%), Positives = 97/169 (57%), Gaps = 29/169 (17%)

Query: 1   SPFFDGKTPKWFHEECFWKKNRPKALLDIHNVTSLRHQDQEMIKSKI------------- 47
           SP  DG  PKW+H +CF+ K RPK   D  N  ++R +DQ++I+ KI             
Sbjct: 39  SPVHDGLIPKWYHPDCFFLKQRPKDTADFANFDNIRWEDQKIIEKKIEEASTIPLPVSGK 98

Query: 48  -----------LGN-----IEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGI 91
                      LG      ++YAKSN+STC+ CE +I +GEIRVSK +++S+QG+  GGI
Sbjct: 99  GKKRGSAAAKNLGPLKDFLVQYAKSNKSTCKACEERIVQGEIRVSKKDFESEQGRRYGGI 158

Query: 92  PEWYHLSCFNAVRLDLEFSASGKQIPGFGSLEKKDQKIVEATLPSLSDG 140
             WYHL CF  VR  LEF  +G  +PG   L K D+K VEA LP ++ G
Sbjct: 159 DRWYHLECFAKVRESLEFFENGIILPGIKDLSKDDKKKVEAALPKINAG 207

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

>gi|270004381|gb|EFA00829.1| hypothetical protein TcasGA2_TC003717 [Tribolium castaneum]

 Score =  131 bits (329), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 67/168 (39%), Positives = 96/168 (57%), Gaps = 31/168 (18%)

Query: 1   SPFFDGKTPKWFHEECFWKKNRPKALLDIHNVTSLRHQDQEMIKSKI--LGNI------- 51
           SPF DG  P W H  CF+ K RPK+  DI++  +LR +DQE+I+ K+  +G+I       
Sbjct: 37  SPFHDGMMPNWHHLHCFFNKQRPKSEDDIYHFETLRLEDQEIIREKLSNMGSIIVPEKKG 96

Query: 52  ----------------------EYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIG 89
                                 EYAKS R+ CRGCE KI K EIR+SK ++++D GK  G
Sbjct: 97  KGKKRDATAIAQKNAALKDFKIEYAKSGRAACRGCEQKILKDEIRISKKDFETDIGKKYG 156

Query: 90  GIPEWYHLSCFNAVRLDLEFSASGKQIPGFGSLEKKDQKIVEATLPSL 137
           G   W+H++CF  +R +L +  S  Q+PGF SL+K+DQ   +  LP++
Sbjct: 157 GQDMWHHVTCFAQLRAELGYFESADQLPGFKSLKKEDQAETKKALPAI 204

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380019416|ref|XP_003693603.1| PREDICTED: poly [ADP-ribose] polymerase-like [Apis florea]

 Score =  131 bits (329), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 65/166 (39%), Positives = 93/166 (56%), Gaps = 29/166 (17%)

Query: 1   SPFFDGKTPKWFHEECFWKKNRPKALLDIHNVTSLRHQDQEMIKSKILGNI--------- 51
           SP  DGK P W+H  CF+ K RPK   DI N  ++R +DQ+ ++ KI  +I         
Sbjct: 39  SPVHDGKIPNWYHPPCFFTKQRPKTTADIANFDNIRWEDQKELQKKIEESINLPLPASGR 98

Query: 52  --------------------EYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGI 91
                               +YAKSN+STC+ CE +I +GEIR+SK +++S+Q +  GGI
Sbjct: 99  GKKRGSTSAKNIGPLRDFVVQYAKSNKSTCKACEERIVQGEIRISKKDFESEQARRYGGI 158

Query: 92  PEWYHLSCFNAVRLDLEFSASGKQIPGFGSLEKKDQKIVEATLPSL 137
            +W+HL CF  VR  L+F  SG  +PG   L K+DQK ++  LP +
Sbjct: 159 DKWHHLDCFIKVRESLQFYESGDALPGKEDLSKEDQKKLKDALPKI 204

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

---

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	162
FB|FBgn0010247	994	Parp "Poly-(ADP-ribose) polyme	0.537	0.087	0.505	1.3e-27
UNIPROTKB|F1NL05	1015	PARP1 "Poly [ADP-ribose] polym	0.586	0.093	0.424	9.3e-26
RGD|2053	1014	Parp1 "poly (ADP-ribose) polym	0.623	0.099	0.420	6.3e-24
UNIPROTKB|F1Q2M3	976	PARP1 "Uncharacterized protein	0.586	0.097	0.444	1.1e-23
UNIPROTKB|J9NXE3	972	PARP1 "Uncharacterized protein	0.586	0.097	0.444	1.5e-22
MGI|MGI:1340806	1013	Parp1 "poly (ADP-ribose) polym	0.623	0.099	0.401	1.8e-21
UNIPROTKB|F1MU08	1016	PARP1 "Poly [ADP-ribose] polym	0.506	0.080	0.438	1.2e-20
UNIPROTKB|P18493	1016	PARP1 "Poly [ADP-ribose] polym	0.518	0.082	0.402	8e-20
UNIPROTKB|I3LDH3	1018	PARP1 "Uncharacterized protein	0.808	0.128	0.378	7.5e-16
UNIPROTKB|P09874	1014	PARP1 "Poly [ADP-ribose] polym	0.808	0.129	0.378	9.4e-16

FB|FBgn0010247 Parp "Poly-(ADP-ribose) polymerase" [Drosophila melanogaster (taxid:7227)]

 Score = 226 (84.6 bits), Expect = 1.3e-27, Sum P(2) = 1.3e-27
 Identities = 44/87 (50%), Positives = 58/87 (66%)

Query:    51 IEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFS 110
             IEYAKS+RSTCRGCE KI K  +R+ K  YD++ G   GG P W+HL CF  +R +L + 
Sbjct:   113 IEYAKSSRSTCRGCEQKINKDLVRLRKTVYDTEVGMKYGGQPLWHHLECFAQLRSELGWF 172

Query:   111 ASGKQIPGFGSLEKKDQKIVEATLPSL 137
             ASG+ +PGF SL   DQ  V+  +P +
Sbjct:   173 ASGEDMPGFQSLADDDQAKVKNAIPPI 199

GO:0003950 "NAD+ ADP-ribosyltransferase activity" evidence=ISS;IDA

GO:0005634 "nucleus" evidence=NAS

GO:0006471 "protein ADP-ribosylation" evidence=IMP;NAS;TAS

GO:0007000 "nucleolus organization" evidence=IMP

GO:0005730 "nucleolus" evidence=IDA;TAS

GO:0005703 "polytene chromosome puff" evidence=IDA;TAS

GO:0051276 "chromosome organization" evidence=TAS

GO:0035079 "polytene chromosome puffing" evidence=TAS

GO:0007552 "metamorphosis" evidence=TAS

GO:0009303 "rRNA transcription" evidence=TAS

GO:0006355 "regulation of transcription, DNA-dependent" evidence=TAS

GO:0005700 "polytene chromosome" evidence=IDA;TAS

GO:0006963 "positive regulation of antibacterial peptide biosynthetic process" evidence=IMP

GO:0005719 "nuclear euchromatin" evidence=IDA

GO:0045087 "innate immune response" evidence=IMP

GO:0035080 "heat shock-mediated polytene chromosome puffing" evidence=IEP;IMP

GO:0008270 "zinc ion binding" evidence=IEA

GO:0051287 "NAD binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0051457 "maintenance of protein location in nucleus" evidence=IMP

GO:0005694 "chromosome" evidence=IDA

GO:0048812 "neuron projection morphogenesis" evidence=IMP

GO:0043484 "regulation of RNA splicing" evidence=IMP

GO:0042393 "histone binding" evidence=IPI

GO:0035363 "histone locus body" evidence=IDA

GO:0015030 "Cajal body" evidence=IDA

GO:0030576 "Cajal body organization" evidence=IMP

UNIPROTKB|F1NL05 PARP1 "Poly [ADP-ribose] polymerase 1" [Gallus gallus (taxid:9031)]

 Score = 188 (71.2 bits), Expect = 9.3e-26, Sum P(3) = 9.3e-26
 Identities = 42/99 (42%), Positives = 63/99 (63%)

Query:    52 EYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEF-S 110
             EYAKSNRSTC+GCE KI KG+IR+SK     ++ ++ G I  WYH  CF + R +L F  
Sbjct:   116 EYAKSNRSTCKGCEQKIEKGQIRISKKMVHPEKPQL-GMIDNWYHPDCFVSRRAELGFLP 174

Query:   111 ASGK-QIPGFGSLEKKDQKIVEATLPSL-SDGVSKTDAI 147
             A G  Q+ GF  L+ +D++ ++  LP+  ++G  K + +
Sbjct:   175 AYGATQLLGFSILKAEDKETLKKQLPATKTEGKRKGEEV 213

GO:0003677 "DNA binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0051287 "NAD binding" evidence=IEA

GO:0000723 "telomere maintenance" evidence=IEA

GO:0003950 "NAD+ ADP-ribosyltransferase activity" evidence=IEA

GO:0005635 "nuclear envelope" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0006284 "base-excision repair" evidence=IEA

GO:0008134 "transcription factor binding" evidence=IEA

GO:0032869 "cellular response to insulin stimulus" evidence=IEA

GO:0040009 "regulation of growth rate" evidence=IEA

GO:0047485 "protein N-terminus binding" evidence=IEA

GO:0070212 "protein poly-ADP-ribosylation" evidence=IEA

RGD|2053 Parp1 "poly (ADP-ribose) polymerase 1" [Rattus norvegicus (taxid:10116)]

 Score = 197 (74.4 bits), Expect = 6.3e-24, Sum P(3) = 6.3e-24
 Identities = 45/107 (42%), Positives = 66/107 (61%)

Query:    46 KILGNI--EYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAV 103
             K LG+   EYAKSNRSTC+GC  KI KG++R+SK   D ++ ++ G I  WYH +CF   
Sbjct:   108 KTLGDFAAEYAKSNRSTCKGCMEKIEKGQMRLSKKMLDPEKPQL-GMIDRWYHPTCFVKN 166

Query:   104 RLDLEFSA--SGKQIPGFGSLEKKDQKIVEATLPSL-SDGVSKTDAI 147
             R +L F    S  Q+ GF  L  +D++ ++  LP++ S+G  K D +
Sbjct:   167 RDELGFRPEYSASQLKGFSLLSAEDKEALKKQLPAVKSEGKRKCDEV 213

GO:0000723 "telomere maintenance" evidence=IEA;ISO

GO:0003677 "DNA binding" evidence=IEA

GO:0003950 "NAD+ ADP-ribosyltransferase activity" evidence=ISO;IDA;IMP

GO:0005634 "nucleus" evidence=ISO;NAS;IDA

GO:0005635 "nuclear envelope" evidence=IEA;ISO

GO:0005654 "nucleoplasm" evidence=ISO

GO:0005667 "transcription factor complex" evidence=IEA;ISO

GO:0005730 "nucleolus" evidence=IEA;ISO

GO:0006259 "DNA metabolic process" evidence=ISO

GO:0006284 "base-excision repair" evidence=IEA;ISO

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006471 "protein ADP-ribosylation" evidence=ISO;IDA

GO:0007179 "transforming growth factor beta receptor signaling pathway" evidence=IMP

GO:0008134 "transcription factor binding" evidence=IEA;ISO

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016540 "protein autoprocessing" evidence=IDA

GO:0016763 "transferase activity, transferring pentosyl groups" evidence=NAS

GO:0019899 "enzyme binding" evidence=IPI

GO:0023019 "signal transduction involved in regulation of gene expression" evidence=IMP

GO:0032869 "cellular response to insulin stimulus" evidence=IEA;ISO

GO:0040009 "regulation of growth rate" evidence=IEA;ISO

GO:0042769 "DNA damage response, detection of DNA damage" evidence=IDA

GO:0043234 "protein complex" evidence=ISO

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IMP

GO:0047485 "protein N-terminus binding" evidence=IEA;ISO

GO:0051287 "NAD binding" evidence=IDA

GO:0060391 "positive regulation of SMAD protein import into nucleus" evidence=IMP

GO:0070212 "protein poly-ADP-ribosylation" evidence=ISO;IMP

GO:0070412 "R-SMAD binding" evidence=IPI

GO:2000679 "positive regulation of transcription regulatory region DNA binding" evidence=IMP

UNIPROTKB|F1Q2M3 PARP1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 197 (74.4 bits), Expect = 1.1e-23, Sum P(3) = 1.1e-23
 Identities = 44/99 (44%), Positives = 61/99 (61%)

Query:    52 EYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFSA 111
             EYAKSNRSTC+GC  KI KG+IR+SK   D ++ ++ G I  WYH +CF   R +L F  
Sbjct:    76 EYAKSNRSTCKGCLEKIEKGQIRLSKKMLDPEKPQL-GMIDRWYHPNCFVKNREELGFRP 134

Query:   112 --SGKQIPGFGSLEKKDQKIVEATLPSL-SDGVSKTDAI 147
               S  Q  GFG L  +D++ ++  LP + S+G  K D +
Sbjct:   135 EYSASQFKGFGLLTPEDKEALKKQLPGVKSEGKRKGDEV 173

GO:0005634 "nucleus" evidence=IEA

GO:0003950 "NAD+ ADP-ribosyltransferase activity" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0051287 "NAD binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006471 "protein ADP-ribosylation" evidence=IEA

UNIPROTKB|J9NXE3 PARP1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 197 (74.4 bits), Expect = 1.5e-22, Sum P(3) = 1.5e-22
 Identities = 44/99 (44%), Positives = 61/99 (61%)

Query:    52 EYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFSA 111
             EYAKSNRSTC+GC  KI KG+IR+SK   D ++ ++ G I  WYH +CF   R +L F  
Sbjct:    74 EYAKSNRSTCKGCLEKIEKGQIRLSKKMLDPEKPQL-GMIDRWYHPNCFVKNREELGFRP 132

Query:   112 --SGKQIPGFGSLEKKDQKIVEATLPSL-SDGVSKTDAI 147
               S  Q  GFG L  +D++ ++  LP + S+G  K D +
Sbjct:   133 EYSASQFKGFGLLTPEDKEALKKQLPGVKSEGKRKGDEV 171

GO:0051287 "NAD binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006471 "protein ADP-ribosylation" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003950 "NAD+ ADP-ribosyltransferase activity" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

MGI|MGI:1340806 Parp1 "poly (ADP-ribose) polymerase family, member 1" [Mus musculus (taxid:10090)]

 Score = 188 (71.2 bits), Expect = 1.8e-21, Sum P(2) = 1.8e-21
 Identities = 43/107 (40%), Positives = 65/107 (60%)

Query:    46 KILGNI--EYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAV 103
             K LG+   EYAKSNRS C+GC  KI KG++R+SK   D ++ ++ G I  WYH +CF   
Sbjct:   108 KTLGDFAAEYAKSNRSMCKGCLEKIEKGQMRLSKKMVDPEKPQL-GMIDRWYHPTCFVKK 166

Query:   104 RLDLEFSA--SGKQIPGFGSLEKKDQKIVEATLPSL-SDGVSKTDAI 147
             R +L F    S  Q+ GF  L  +D++ ++  LP++ ++G  K D +
Sbjct:   167 RDELGFRPEYSASQLKGFSLLSAEDKEALKKQLPAIKNEGKRKGDEV 213

GO:0000723 "telomere maintenance" evidence=IMP

GO:0003677 "DNA binding" evidence=IEA

GO:0003950 "NAD+ ADP-ribosyltransferase activity" evidence=ISO

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=ISO;TAS

GO:0005635 "nuclear envelope" evidence=ISO

GO:0005654 "nucleoplasm" evidence=IDA

GO:0005667 "transcription factor complex" evidence=ISO

GO:0005730 "nucleolus" evidence=ISO;IDA

GO:0006259 "DNA metabolic process" evidence=IMP

GO:0006281 "DNA repair" evidence=TAS

GO:0006284 "base-excision repair" evidence=IMP

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006471 "protein ADP-ribosylation" evidence=ISO

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

GO:0007179 "transforming growth factor beta receptor signaling pathway" evidence=ISO

GO:0008134 "transcription factor binding" evidence=ISO

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016540 "protein autoprocessing" evidence=ISO

GO:0016740 "transferase activity" evidence=IEA

GO:0016757 "transferase activity, transferring glycosyl groups" evidence=IEA

GO:0019899 "enzyme binding" evidence=ISO

GO:0023019 "signal transduction involved in regulation of gene expression" evidence=ISO

GO:0032869 "cellular response to insulin stimulus" evidence=ISO

GO:0040009 "regulation of growth rate" evidence=IMP

GO:0042769 "DNA damage response, detection of DNA damage" evidence=ISO

GO:0043234 "protein complex" evidence=IDA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

GO:0047485 "protein N-terminus binding" evidence=ISO

GO:0051287 "NAD binding" evidence=ISO

GO:0060391 "positive regulation of SMAD protein import into nucleus" evidence=ISO

GO:0070212 "protein poly-ADP-ribosylation" evidence=ISO

GO:0070412 "R-SMAD binding" evidence=ISO

GO:2000679 "positive regulation of transcription regulatory region DNA binding" evidence=ISO

UNIPROTKB|F1MU08 PARP1 "Poly [ADP-ribose] polymerase 1" [Bos taurus (taxid:9913)]

 Score = 166 (63.5 bits), Expect = 1.2e-20, Sum P(3) = 1.2e-20
 Identities = 39/89 (43%), Positives = 55/89 (61%)

Query:    53 YAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDL----E 108
             YAKSNRSTC+ C  KI KG++R+SK     D+ ++ G +  WYH  CF   R +L    E
Sbjct:   120 YAKSNRSTCKSCMEKIDKGQVRLSKKVVYPDKPQL-GMVDCWYHPKCFVQKREELGFRPE 178

Query:   109 FSASGKQIPGFGSLEKKDQKIVEATLPSL 137
             FSAS  Q+ GF  L  +DQ+ ++  LP++
Sbjct:   179 FSAS--QLMGFSVLTAEDQETLKKQLPAI 205

GO:0070212 "protein poly-ADP-ribosylation" evidence=IEA

GO:0047485 "protein N-terminus binding" evidence=IEA

GO:0040009 "regulation of growth rate" evidence=IEA

GO:0032869 "cellular response to insulin stimulus" evidence=IEA

GO:0008134 "transcription factor binding" evidence=IEA

GO:0006284 "base-excision repair" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

GO:0005635 "nuclear envelope" evidence=IEA

GO:0003950 "NAD+ ADP-ribosyltransferase activity" evidence=IEA

GO:0000723 "telomere maintenance" evidence=IEA

GO:0051287 "NAD binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|P18493 PARP1 "Poly [ADP-ribose] polymerase 1" [Bos taurus (taxid:9913)]

 Score = 158 (60.7 bits), Expect = 8.0e-20, Sum P(3) = 8.0e-20
 Identities = 35/87 (40%), Positives = 51/87 (58%)

Query:    53 YAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFSA- 111
             YAKSNRSTC+ C  KI KG++R+SK     D+ ++ G +  WYH  CF   R +L F   
Sbjct:   120 YAKSNRSTCKSCMEKIDKGQVRLSKKVVYPDKPQL-GMVDCWYHPKCFVQKREELGFRPE 178

Query:   112 -SGKQIPGFGSLEKKDQKIVEATLPSL 137
              S   + GF  L  +DQ+ ++  LP++
Sbjct:   179 FSATHLMGFSVLTAEDQETLKKQLPAI 205

GO:0042802 "identical protein binding" evidence=ISS

GO:0005730 "nucleolus" evidence=ISS

GO:0005635 "nuclear envelope" evidence=ISS

GO:0003950 "NAD+ ADP-ribosyltransferase activity" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0051287 "NAD binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006471 "protein ADP-ribosylation" evidence=IEA

UNIPROTKB|I3LDH3 PARP1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 199 (75.1 bits), Expect = 7.5e-16, Sum P(2) = 7.5e-16
 Identities = 53/140 (37%), Positives = 77/140 (55%)

Query:    15 ECFWK-KNRPKALLDIHNVTSLRHQDQEMIKS-KILGNI--EYAKSNRSTCRGCEAKIAK 70
             E  W  + + K   +   VT  + QD    K+ K LG+   EYAKSNRSTC+GC  KI K
Sbjct:    76 ELRWDDQQKVKKTAEAGGVTG-KGQDGVGSKAEKTLGDFAAEYAKSNRSTCKGCMEKIEK 134

Query:    71 GEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFSA--SGKQIPGFGSLEKKDQK 128
             G +R+SK   D ++ ++ G I  WYH +CF   R +L F    S  Q+ GF  L  +D++
Sbjct:   135 GHVRLSKKMLDPEKPQL-GMIDRWYHPNCFVQNREELGFRPEYSASQLKGFSLLTAEDKE 193

Query:   129 IVEATLPSL-SDGVSKTDAI 147
              ++  LP + S+G  K D +
Sbjct:   194 ALKKQLPGIKSEGKRKGDEV 213

GO:0070212 "protein poly-ADP-ribosylation" evidence=IEA

GO:0047485 "protein N-terminus binding" evidence=IEA

GO:0040009 "regulation of growth rate" evidence=IEA

GO:0032869 "cellular response to insulin stimulus" evidence=IEA

GO:0008134 "transcription factor binding" evidence=IEA

GO:0006284 "base-excision repair" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

GO:0005635 "nuclear envelope" evidence=IEA

GO:0003950 "NAD+ ADP-ribosyltransferase activity" evidence=IEA

GO:0000723 "telomere maintenance" evidence=IEA

GO:0051287 "NAD binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|P09874 PARP1 "Poly [ADP-ribose] polymerase 1" [Homo sapiens (taxid:9606)]

 Score = 198 (74.8 bits), Expect = 9.4e-16, Sum P(2) = 9.4e-16
 Identities = 53/140 (37%), Positives = 77/140 (55%)

Query:    15 ECFWK-KNRPKALLDIHNVTSLRHQDQEMIKS-KILGNI--EYAKSNRSTCRGCEAKIAK 70
             E  W  + + K   +   VT  + QD    K+ K LG+   EYAKSNRSTC+GC  KI K
Sbjct:    76 ELRWDDQQKVKKTAEAGGVTG-KGQDGIGSKAEKTLGDFAAEYAKSNRSTCKGCMEKIEK 134

Query:    71 GEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFSA--SGKQIPGFGSLEKKDQK 128
             G++R+SK   D ++ ++ G I  WYH  CF   R +L F    S  Q+ GF  L  +D++
Sbjct:   135 GQVRLSKKMVDPEKPQL-GMIDRWYHPGCFVKNREELGFRPEYSASQLKGFSLLATEDKE 193

Query:   129 IVEATLPSL-SDGVSKTDAI 147
              ++  LP + S+G  K D +
Sbjct:   194 ALKKQLPGVKSEGKRKGDEV 213

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0000723 "telomere maintenance" evidence=IEA

GO:0006284 "base-excision repair" evidence=IEA

GO:0016540 "protein autoprocessing" evidence=IEA

GO:0040009 "regulation of growth rate" evidence=IEA

GO:0042769 "DNA damage response, detection of DNA damage" evidence=IEA

GO:0051287 "NAD binding" evidence=IEA

GO:0003950 "NAD+ ADP-ribosyltransferase activity" evidence=IDA;TAS

GO:0005730 "nucleolus" evidence=IDA

GO:0047485 "protein N-terminus binding" evidence=IPI

GO:0005515 "protein binding" evidence=IPI

GO:0006471 "protein ADP-ribosylation" evidence=IDA

GO:0005635 "nuclear envelope" evidence=IDA

GO:0006281 "DNA repair" evidence=TAS

GO:0070212 "protein poly-ADP-ribosylation" evidence=IDA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=TAS

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006351 "transcription, DNA-dependent" evidence=TAS

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=TAS

GO:0007179 "transforming growth factor beta receptor signaling pathway" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0008134 "transcription factor binding" evidence=IPI

GO:0032869 "cellular response to insulin stimulus" evidence=IDA

GO:0005667 "transcription factor complex" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

---

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	162
pfam00645	81	pfam00645, zf-PARP, Poly(ADP-ribose) polymerase an	1e-24
PLN03123	981	PLN03123, PLN03123, poly [ADP-ribose] polymerase;	6e-21
pfam00645	81	pfam00645, zf-PARP, Poly(ADP-ribose) polymerase an	3e-08
PLN03123	981	PLN03123, PLN03123, poly [ADP-ribose] polymerase;	3e-07

>gnl|CDD|189650 pfam00645, zf-PARP, Poly(ADP-ribose) polymerase and DNA-Ligase Zn-finger region

 Score = 90.4 bits (225), Expect = 1e-24
 Identities = 30/84 (35%), Positives = 45/84 (53%), Gaps = 3/84 (3%)

Query: 52  EYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFSA 111
           EYAKS R++C+ C+ KIAKGE+R+ K+          G + +WYH  CF   RL    + 
Sbjct: 1   EYAKSGRASCKKCKEKIAKGELRIGKVVPSPFFD---GKMKKWYHWGCFTEKRLRNRATE 57

Query: 112 SGKQIPGFGSLEKKDQKIVEATLP 135
               + GF  L  +DQ+ ++  L 
Sbjct: 58  DVDDLDGFEELRPEDQEKIKKALE 81

Poly(ADP-ribose) polymerase is an important regulatory component of the cellular response to DNA damage. The amino-terminal region of Poly(ADP-ribose) polymerase consists of two PARP-type zinc fingers. This region acts as a DNA nick sensor. Length = 81

>gnl|CDD|215590 PLN03123, PLN03123, poly [ADP-ribose] polymerase; Provisional

 Score = 88.3 bits (219), Expect = 6e-21
 Identities = 49/153 (32%), Positives = 71/153 (46%), Gaps = 32/153 (20%)

Query: 1   SPFFDGKTPKWFHEEC-FWKKNRPKALLDIHNVTSLRHQDQEMIKSKILG---------- 49
           S  FDG  P W H  C   KKN+ K++ D+  + SLR +DQ+ I+  +            
Sbjct: 40  STQFDGFMPMWNHASCILKKKNQIKSIDDVEGIDSLRWEDQQKIRKYVESGGTGTGTASD 99

Query: 50  --------NIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFN 101
                    IE AK++R+TCR C  KI KGE+R+S    +    K       W+H  CF 
Sbjct: 100 AAASSFEYGIEVAKTSRATCRRCSEKILKGEVRISSK-PEGQGYKG----LAWHHAKCF- 153

Query: 102 AVRLDLEFSASG--KQIPGFGSLEKKDQKIVEA 132
                LE S S   +++ G+ +L   DQ+ V  
Sbjct: 154 -----LEMSPSTPVEKLSGWDTLSDSDQEAVLP 181

Length = 981

>gnl|CDD|189650 pfam00645, zf-PARP, Poly(ADP-ribose) polymerase and DNA-Ligase Zn-finger region

 Score = 48.0 bits (115), Expect = 3e-08
 Identities = 22/52 (42%), Positives = 28/52 (53%), Gaps = 6/52 (11%)

Query: 1  SPFFDGKTPKWFHEECFWKKNRPKALL-----DIHNVTSLRHQDQEMIKSKI 47
          SPFFDGK  KW+H  CF +K R +        D+     LR +DQE IK  +
Sbjct: 30 SPFFDGKMKKWYHWGCFTEK-RLRNRATEDVDDLDGFEELRPEDQEKIKKAL 80

Poly(ADP-ribose) polymerase is an important regulatory component of the cellular response to DNA damage. The amino-terminal region of Poly(ADP-ribose) polymerase consists of two PARP-type zinc fingers. This region acts as a DNA nick sensor. Length = 81

>gnl|CDD|215590 PLN03123, PLN03123, poly [ADP-ribose] polymerase; Provisional

 Score = 48.2 bits (115), Expect = 3e-07
 Identities = 21/48 (43%), Positives = 31/48 (64%), Gaps = 3/48 (6%)

Query: 52 EYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSC 99
          EYAKS+RS+C+ C++ I K E+R+ KM   +   +  G +P W H SC
Sbjct: 11 EYAKSSRSSCKTCKSPIDKDELRLGKMVQST---QFDGFMPMWNHASC 55

Length = 981

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	162
PLN03123	981	poly [ADP-ribose] polymerase; Provisional	100.0
PF00645	82	zf-PARP: Poly(ADP-ribose) polymerase and DNA-Ligas	99.94
PLN03123	981	poly [ADP-ribose] polymerase; Provisional	99.86
KOG4437|consensus	482		99.57
PF00645	82	zf-PARP: Poly(ADP-ribose) polymerase and DNA-Ligas	99.36
KOG4437|consensus	482		97.59
KOG1037|consensus	531		94.92
KOG1037|consensus	531		93.35
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	87.5
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	84.64

>PLN03123 poly [ADP-ribose] polymerase; Provisional

Probab=100.00  E-value=2.8e-36  Score=287.57  Aligned_cols=127  Identities=35%  Similarity=0.592  Sum_probs=113.5

Q ss_pred             CCCCCCCCCceeeeccccCCCC-CCCCCCcCCCcCCChhhHHHHHHhhc-c-----------------ceeeecCCCccc
Q psy6818           1 SPFFDGKTPKWFHEECFWKKNR-PKALLDIHNVTSLRHQDQEMIKSKIL-G-----------------NIEYAKSNRSTC   61 (162)
Q Consensus         1 s~~fdG~~~~W~H~~Cff~k~~-~~~~~~i~g~~~Lrw~DQ~~i~~~i~-~-----------------~vEYAkS~Ra~C   61 (162)
                      ||+|||.||.|||++|||++.. +.++++|+||++|||+||++|+++|+ +                 .|||||||||+|
T Consensus        40 ~~~~dg~~~~W~H~~Cf~~~~~~~~~~~~l~G~~~L~~eDq~~i~~~i~~~~~~~~~~~~~~~~~~~~~vEyAkS~Ra~C  119 (981)
T PLN03123         40 STQFDGFMPMWNHASCILKKKNQIKSIDDVEGIDSLRWEDQQKIRKYVESGGTGTGTASDAAASSFEYGIEVAKTSRATC  119 (981)
T ss_pred             ccccCCCCCeeeccccccccccCCCChhhcCChhhCCHHHHHHHHHHHhccCCCCCcccccccCCcceEEEEecCCCCcc
Confidence            6899999999999999998764 45788999999999999999999994 0                 899999999999


Q ss_pred             ccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCccccccccccCCCCCCCCCCcCCCHHHHHHHHHHhhc
Q psy6818          62 RGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFSASGKQIPGFGSLEKKDQKIVEATLPS  136 (162)
Q Consensus        62 k~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~~~~~~~~~~~~e~I~Gf~~L~~eDQ~~Ik~~~~~  136 (162)
                      ++|+++|.||+||||+.++++.     |.++.|||++||++.....    ++++|+||++|+++||+.|++++.+
T Consensus       120 k~C~~kI~KgelRig~~v~~~~-----g~~~~W~H~~Cf~~~~~~~----~~e~l~Gf~~L~~eDqe~v~~li~~  185 (981)
T PLN03123        120 RRCSEKILKGEVRISSKPEGQG-----YKGLAWHHAKCFLEMSPST----PVEKLSGWDTLSDSDQEAVLPLVKK  185 (981)
T ss_pred             ccCCceecCCceEEEeeecCCC-----CCcccccccccccccCCCC----ChhhCCChhhCCHHHHHHHHHHHhh
Confidence            9999999999999999887652     4579999999999876532    6789999999999999999999954

>PF00645 zf-PARP: Poly(ADP-ribose) polymerase and DNA-Ligase Zn-finger region; InterPro: IPR001510 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=99.94  E-value=1.1e-27  Score=168.03  Aligned_cols=81  Identities=40%  Similarity=0.764  Sum_probs=67.4

Q ss_pred             eeecCCCcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCccccccccccC-CCCCCCCCCcCCCHHHHHHH
Q psy6818          52 EYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFS-ASGKQIPGFGSLEKKDQKIV  130 (162)
Q Consensus        52 EYAkS~Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~~~~~~~~~-~~~e~I~Gf~~L~~eDQ~~I  130 (162)
                      ||||||||+|++|+++|+||+||||+++.++..   +|.++.|||++||+......... .++++|+||+.|+++||++|
T Consensus         1 EyAks~Ra~Ck~C~~~I~kg~lRiG~~~~~~~~---~~~~~~W~H~~C~~~~~~~~~~~~~~~~~i~G~~~L~~~Dq~~i   77 (82)
T PF00645_consen    1 EYAKSGRAKCKGCKKKIAKGELRIGKIVPSPEG---DGDIPKWYHWDCFFKKQLRNRETTGDIEEIKGFDELKPEDQEKI   77 (82)
T ss_dssp             EE-SSSTEBETTTSCBE-TTSEEEEEEEEETTS---SCEEEEEEEHHHHHHTTCCTTSSTSCGGGCETCCCS-HHHHHHH
T ss_pred             CcCCCCCccCcccCCcCCCCCEEEEEEeccccc---CCCCCceECccccccchhhhcccCCCHHHCCChHHCCHHHHHHH
Confidence            899999999999999999999999999987753   46789999999999876443211 37899999999999999999


Q ss_pred             HHHhh
Q psy6818         131 EATLP  135 (162)
Q Consensus       131 k~~~~  135 (162)
                      +++|+
T Consensus        78 ~~~i~   82 (82)
T PF00645_consen   78 RKLIE   82 (82)
T ss_dssp             HHHHS
T ss_pred             HHHhC
Confidence            99885

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents PARP (Poly(ADP) polymerase) type zinc finger domains. NAD(+) ADP-ribosyltransferase(2.4.2.30 from EC) [, ] is a eukaryotic enzyme that catalyses the covalent attachment of ADP-ribose units from NAD(+) to various nuclear acceptor proteins. This post-translational modification of nuclear proteins is dependent on DNA. It appears to be involved in the regulation of various important cellular processes such as differentiation, proliferation and tumour transformation as well as in the regulation of the molecular events involved in the recovery of the cell from DNA damage. Structurally, NAD(+) ADP-ribosyltransferase consists of three distinct domains: an N-terminal zinc-dependent DNA-binding domain, a central automodification domain and a C-terminal NAD-binding domain. The DNA-binding region contains a pair of PARP-type zinc finger domains which have been shown to bind DNA in a zinc-dependent manner. The PARP-type zinc finger domains seem to bind specifically to single-stranded DNA and to act as a DNA nick sensor. DNA ligase III [] contains, in its N-terminal section, a single copy of a zinc finger highly similar to those of PARP. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding; PDB: 1UW0_A 3OD8_D 3ODA_A 4AV1_A 2DMJ_A 4DQY_D 2L30_A 2CS2_A 2L31_A 3ODE_B ....

>PLN03123 poly [ADP-ribose] polymerase; Provisional

Probab=99.86  E-value=4.9e-22  Score=190.29  Aligned_cols=85  Identities=34%  Similarity=0.583  Sum_probs=76.3

Q ss_pred             ceeeecCCCcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCccccccccccCCCCCCCCCCcCCCHHHHHH
Q psy6818          50 NIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFSASGKQIPGFGSLEKKDQKI  129 (162)
Q Consensus        50 ~vEYAkS~Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~~~~~~~~~~~~e~I~Gf~~L~~eDQ~~  129 (162)
                      .|||||||||+|++|+++|+||+||||+++++++   +.|.++.|||++||++.+..++   ++++|+||+.|+++||+.
T Consensus         9 ~~EYAkS~Rs~Ck~C~~~I~K~~lRi~~~v~~~~---~dg~~~~W~H~~Cf~~~~~~~~---~~~~l~G~~~L~~eDq~~   82 (981)
T PLN03123          9 KAEYAKSSRSSCKTCKSPIDKDELRLGKMVQSTQ---FDGFMPMWNHASCILKKKNQIK---SIDDVEGIDSLRWEDQQK   82 (981)
T ss_pred             eEEEecCCCccccccCCcccCCCeEEEEeecccc---cCCCCCeeeccccccccccCCC---ChhhcCChhhCCHHHHHH
Confidence            7999999999999999999999999999998774   2477899999999998766554   688999999999999999


Q ss_pred             HHHHhhccCCC
Q psy6818         130 VEATLPSLSDG  140 (162)
Q Consensus       130 Ik~~~~~~~~~  140 (162)
                      |+++++....+
T Consensus        83 i~~~i~~~~~~   93 (981)
T PLN03123         83 IRKYVESGGTG   93 (981)
T ss_pred             HHHHHhccCCC
Confidence            99999888754

>KOG4437|consensus

Probab=99.57  E-value=5.1e-17  Score=140.38  Aligned_cols=101  Identities=25%  Similarity=0.495  Sum_probs=85.6

Q ss_pred             ceeeecCCCcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCccc----cccccccCCCCCCCCCCcCCCHH
Q psy6818          50 NIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNA----VRLDLEFSASGKQIPGFGSLEKK  125 (162)
Q Consensus        50 ~vEYAkS~Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~----~~~~~~~~~~~e~I~Gf~~L~~e  125 (162)
                      +++||| ..|+|++|+++|.||.+|||+++++++..+ -|.|..|||..|+|.    .|.+++.++..++|+||++|..+
T Consensus         7 C~DYAK-R~A~C~KCK~~i~KGV~R~GKi~P~~~S~~-~~DMK~~~H~~C~FE~L~rAR~TTK~I~~~~EiEG~E~L~~~   84 (482)
T KOG4437|consen    7 CVDYAK-RTAGCKKCKEKIVKGVCRIGKVVPNPFSES-GGDMKEWYHIKCMFEKLERARATTKKIEDLTELEGWEELEDN   84 (482)
T ss_pred             HHHHHH-HhhhhHHHHHHHHHhhhhhccccCCCcccC-CchHHHHHHHHHHHHHHHhccccccccccchhhcchhhhchh
Confidence            578998 479999999999999999999998876522 245899999999875    46778888889999999999999


Q ss_pred             HHHHHHHHhhccCCCCCCcccccccee
Q psy6818         126 DQKIVEATLPSLSDGVSKTDAISHFLL  152 (162)
Q Consensus       126 DQ~~Ik~~~~~~~~~~~~~~~~~~~~~  152 (162)
                      ||+.|++.+.++....+|.+..+.++|
T Consensus        85 ~~~~I~~~i~~Ls~K~sK~~~~~~K~T  111 (482)
T KOG4437|consen   85 EKEQITQHIADLSSKAAKKAVVQAKLT  111 (482)
T ss_pred             hHHHHHHHHHHHHHHhhhccccccccC
Confidence            999999999998776666666666665

>PF00645 zf-PARP: Poly(ADP-ribose) polymerase and DNA-Ligase Zn-finger region; InterPro: IPR001510 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=99.36  E-value=1.2e-13  Score=96.64  Aligned_cols=47  Identities=38%  Similarity=0.707  Sum_probs=39.7

Q ss_pred             CCCCCCCCceeeeccccCCCCC-----CCCCCcCCCcCCChhhHHHHHHhhc
Q psy6818           2 PFFDGKTPKWFHEECFWKKNRP-----KALLDIHNVTSLRHQDQEMIKSKIL   48 (162)
Q Consensus         2 ~~fdG~~~~W~H~~Cff~k~~~-----~~~~~i~g~~~Lrw~DQ~~i~~~i~   48 (162)
                      +.++|.++.|||+.||+.....     .++++|.||++|+|+||++|++.|+
T Consensus        31 ~~~~~~~~~W~H~~C~~~~~~~~~~~~~~~~~i~G~~~L~~~Dq~~i~~~i~   82 (82)
T PF00645_consen   31 PEGDGDIPKWYHWDCFFKKQLRNRETTGDIEEIKGFDELKPEDQEKIRKLIE   82 (82)
T ss_dssp             TTSSCEEEEEEEHHHHHHTTCCTTSSTSCGGGCETCCCS-HHHHHHHHHHHS
T ss_pred             cccCCCCCceECccccccchhhhcccCCCHHHCCChHHCCHHHHHHHHHHhC
Confidence            4557899999999999986532     5789999999999999999999874

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents PARP (Poly(ADP) polymerase) type zinc finger domains. NAD(+) ADP-ribosyltransferase(2.4.2.30 from EC) [, ] is a eukaryotic enzyme that catalyses the covalent attachment of ADP-ribose units from NAD(+) to various nuclear acceptor proteins. This post-translational modification of nuclear proteins is dependent on DNA. It appears to be involved in the regulation of various important cellular processes such as differentiation, proliferation and tumour transformation as well as in the regulation of the molecular events involved in the recovery of the cell from DNA damage. Structurally, NAD(+) ADP-ribosyltransferase consists of three distinct domains: an N-terminal zinc-dependent DNA-binding domain, a central automodification domain and a C-terminal NAD-binding domain. The DNA-binding region contains a pair of PARP-type zinc finger domains which have been shown to bind DNA in a zinc-dependent manner. The PARP-type zinc finger domains seem to bind specifically to single-stranded DNA and to act as a DNA nick sensor. DNA ligase III [] contains, in its N-terminal section, a single copy of a zinc finger highly similar to those of PARP. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding; PDB: 1UW0_A 3OD8_D 3ODA_A 4AV1_A 2DMJ_A 4DQY_D 2L30_A 2CS2_A 2L31_A 3ODE_B ....

>KOG4437|consensus

Probab=97.59  E-value=7e-06  Score=71.86  Aligned_cols=44  Identities=25%  Similarity=0.618  Sum_probs=37.5

Q ss_pred             CCCCCceeeeccccCCC---CC-----CCCCCcCCCcCCChhhHHHHHHhhc
Q psy6818           5 DGKTPKWFHEECFWKKN---RP-----KALLDIHNVTSLRHQDQEMIKSKIL   48 (162)
Q Consensus         5 dG~~~~W~H~~Cff~k~---~~-----~~~~~i~g~~~Lrw~DQ~~i~~~i~   48 (162)
                      -|+|..|||..|+|.+.   ++     ...++|+||+.|.-+||+.|++.|.
T Consensus        43 ~~DMK~~~H~~C~FE~L~rAR~TTK~I~~~~EiEG~E~L~~~~~~~I~~~i~   94 (482)
T KOG4437|consen   43 GGDMKEWYHIKCMFEKLERARATTKKIEDLTELEGWEELEDNEKEQITQHIA   94 (482)
T ss_pred             CchHHHHHHHHHHHHHHHhccccccccccchhhcchhhhchhhHHHHHHHHH
Confidence            57899999999999743   33     3457999999999999999999994

>KOG1037|consensus

Probab=94.92  E-value=0.007  Score=55.92  Aligned_cols=70  Identities=26%  Similarity=0.395  Sum_probs=52.4

Q ss_pred             CCCCCCCCceeeeccccCCCC-CC-CCCCcCC---------------CcCCChhhHHHHHHhhc----------c-----
Q psy6818           2 PFFDGKTPKWFHEECFWKKNR-PK-ALLDIHN---------------VTSLRHQDQEMIKSKIL----------G-----   49 (162)
Q Consensus         2 ~~fdG~~~~W~H~~Cff~k~~-~~-~~~~i~g---------------~~~Lrw~DQ~~i~~~i~----------~-----   49 (162)
                      .+|++.++.|+|.+||+++.. +. +..+.+|               +..|+|++|++++....          |     
T Consensus        42 ~~~~~~~~~~~~~s~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~l~~d~~~~~~~~~~~~~v~~~~~s~~~~~~  121 (531)
T KOG1037|consen   42 LIFDGDVDKWKHTSCFLKKDHLIRGPEVKVPGLNQTNVENENNKEYTEEELEWDEQQKKRKTVEEGGVTGKGQSGIVKKS  121 (531)
T ss_pred             hccccccCcccccccccCcccccccccccccccccccccccccchhhhhhhhcccccceeeeeeecccccccccccchhh
Confidence            579999999999999998763 33 4457788               99999999999998884          1     


Q ss_pred             -------ceeeecCCCcccc---cccccccCC
Q psy6818          50 -------NIEYAKSNRSTCR---GCEAKIAKG   71 (162)
Q Consensus        50 -------~vEYAkS~Ra~Ck---~C~~kI~Kg   71 (162)
                             ..++.++++.++.   .|.+.|.++
T Consensus       122 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (531)
T KOG1037|consen  122 KSLDKAKKPFEIKSYKLTKNGMETRDEFIPLG  153 (531)
T ss_pred             hhhhhccchhhhhcchhhhhhhhhhhhhhccc
Confidence                   4445555554444   466777777

>KOG1037|consensus

Probab=93.35  E-value=0.019  Score=53.07  Aligned_cols=92  Identities=23%  Similarity=0.268  Sum_probs=67.3

Q ss_pred             ceeeecCCCcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCccccccccccCCCCCCCCC-----------
Q psy6818          50 NIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFSASGKQIPG-----------  118 (162)
Q Consensus        50 ~vEYAkS~Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~~~~~~~~~~~~e~I~G-----------  118 (162)
                      ..+|+++.++.|+.|...|.+..+|.++.....-   +.+..+.|+|..||.+......  +...+.+|           
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ik~~~~~---~~~~~~~~~~~s~~~~~~~~~~--~~~v~~~~~~~~~~~~~~~   84 (531)
T KOG1037|consen   10 NASVLKSEDLNSGTCEHVINKDEFRKGIKELKLI---FDGDVDKWKHTSCFLKKDHLIR--GPEVKVPGLNQTNVENENN   84 (531)
T ss_pred             cchhhhhhchhccCCcccccchhhhhhhhhhhhc---cccccCcccccccccCcccccc--ccccccccccccccccccc
Confidence            4578899999999999889999999998764432   1345788999999987643322  23445566           


Q ss_pred             ----CcCCCHHHHHHHHHHhhccCCCCCCccc
Q psy6818         119 ----FGSLEKKDQKIVEATLPSLSDGVSKTDA  146 (162)
Q Consensus       119 ----f~~L~~eDQ~~Ik~~~~~~~~~~~~~~~  146 (162)
                          .+.|.+++|+.++..++.........+-
T Consensus        85 ~~~~~~~l~~d~~~~~~~~~~~~~v~~~~~s~  116 (531)
T KOG1037|consen   85 KEYTEEELEWDEQQKKRKTVEEGGVTGKGQSG  116 (531)
T ss_pred             chhhhhhhhcccccceeeeeeecccccccccc
Confidence                8999999998887777666554444443

>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=87.50  E-value=0.52  Score=29.69  Aligned_cols=29  Identities=28%  Similarity=0.702  Sum_probs=21.8

Q ss_pred             cccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCccc
Q psy6818          61 CRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNA  102 (162)
Q Consensus        61 Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~  102 (162)
                      |.+|++.|..+++.+..             ...-||.+||.=
T Consensus         1 C~~C~~~I~~~~~~~~~-------------~~~~~H~~Cf~C   29 (58)
T PF00412_consen    1 CARCGKPIYGTEIVIKA-------------MGKFWHPECFKC   29 (58)
T ss_dssp             BTTTSSBESSSSEEEEE-------------TTEEEETTTSBE
T ss_pred             CCCCCCCccCcEEEEEe-------------CCcEEEcccccc
Confidence            78999999988876621             134789999973

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....

>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3

Probab=84.64  E-value=0.7  Score=26.31  Aligned_cols=30  Identities=30%  Similarity=0.771  Sum_probs=20.1

Q ss_pred             ccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCccc
Q psy6818          60 TCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNA  102 (162)
Q Consensus        60 ~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~  102 (162)
                      .|.+|++.|..++..+..             ...-||..||.=
T Consensus         1 ~C~~C~~~i~~~~~~~~~-------------~~~~~H~~Cf~C   30 (39)
T smart00132        1 KCAGCGKPIRGGELVLRA-------------LGKVWHPECFKC   30 (39)
T ss_pred             CccccCCcccCCcEEEEe-------------CCccccccCCCC
Confidence            488999999877444421             134678888864

Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	162
4av1_A	223	Crystal Structure Of The Human Parp-1 Dna Binding D		3e-21
2l31_A	112	Human Parp-1 Zinc Finger 2 Length = 112		1e-14
2cs2_A	134	Solution Structure Of The Second Zn-Finger Domain O		1e-14
3odc_A	111	Human Parp-1 Zinc Finger 2 (Zn2) Bound To Dna Lengt		4e-14
2dmj_A	106	Solution Structure Of The First Zf-Parp Domain Of H		2e-07
3oda_A	116	Human Parp-1 Zinc Finger 1 (Zn1) Bound To Dna Lengt		2e-07
2l30_A	108	Human Parp-1 Zinc Finger 1 Length = 108		2e-07
3od8_A	116	Human Parp-1 Zinc Finger 1 (Zn1) Bound To Dna Lengt		2e-06
1uw0_A	117	Solution Structure Of The Zinc-Finger Domain From D		3e-04

>pdb|4AV1|A Chain A, Crystal Structure Of The Human Parp-1 Dna Binding Domain In Complex With Dna Length = 223

Iteration: 1
 Score = 97.8 bits (242), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 59/163 (36%), Positives = 82/163 (50%), Gaps = 27/163 (16%)
Query: 1   SPFFDGKTPKWFHEECFWKKNRP--KALLDIHNVTSLRHQDQEMIK-------------- 44
           SP FDGK P W+H  CFWK         +++   + LR  DQ+ +K              
Sbjct: 62  SPMFDGKVPHWYHFSCFWKVGHSIRHPDVEVDGFSELRWDDQQKVKKTAEAGGVTGKGQD 121
Query: 45  ------SKILGNI--EYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYH 96
                  K LG+   EYAKSNRSTC+GC  KI KG++R+SK   D ++   +G I  WYH
Sbjct: 122 GIGSKAEKTLGDFAAEYAKSNRSTCKGCMEKIEKGQVRLSKKMVDPEK-PQLGMIDRWYH 180
Query: 97  LSCFNAVRLDLEFSA--SGKQIPGFGSLEKKDQKIVEATLPSL 137
             CF   R +L F    S  Q+ GF  L  +D++ ++  LP +
Sbjct: 181 PGCFVKNREELGFRPEYSASQLKGFSLLATEDKEALKKQLPGV 223

>pdb|2L31|A Chain A, Human Parp-1 Zinc Finger 2 Length = 112

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 47/109 (43%), Positives = 66/109 (60%), Gaps = 10/109 (9%)
Query: 46  KILGNI--EYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAV 103
           K LG+   EYAKSNRSTC+GC  KI KG++R+SK   D ++   +G I  WYH  CF   
Sbjct: 6   KTLGDFAAEYAKSNRSTCKGCMEKIEKGQVRLSKKMVDPEK-PQLGMIDRWYHPGCFVKN 64
Query: 104 RLDL----EFSASGKQIPGFGSLEKKDQKIVEATLPSL-SDGVSKTDAI 147
           R +L    E+SAS  Q+ GF  L  +D++ ++  LP + S+G  K D +
Sbjct: 65  REELGFRPEYSAS--QLKGFSLLATEDKEALKKQLPGVKSEGKRKGDEV 111

>pdb|2CS2|A Chain A, Solution Structure Of The Second Zn-Finger Domain Of Poly(Adp-Ribose) Polymerase-1 Length = 134

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 47/109 (43%), Positives = 66/109 (60%), Gaps = 10/109 (9%)
Query: 46  KILGNI--EYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAV 103
           K LG+   EYAKSNRSTC+GC  KI KG++R+SK   D ++   +G I  WYH  CF   
Sbjct: 13  KTLGDFAAEYAKSNRSTCKGCMEKIEKGQVRLSKKMVDPEK-PQLGMIDRWYHPGCFVKN 71
Query: 104 RLDL----EFSASGKQIPGFGSLEKKDQKIVEATLPSL-SDGVSKTDAI 147
           R +L    E+SAS  Q+ GF  L  +D++ ++  LP + S+G  K D +
Sbjct: 72  REELGFRPEYSAS--QLKGFSLLATEDKEALKKQLPGVKSEGKRKGDEV 118

>pdb|3ODC|A Chain A, Human Parp-1 Zinc Finger 2 (Zn2) Bound To Dna Length = 111

Iteration: 1
 Score = 73.6 bits (179), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 46/107 (42%), Positives = 66/107 (61%), Gaps = 10/107 (9%)
Query: 42  MIKSKILGNI--EYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSC 99
           M   K LG+   EYAKSNRSTC+GC  KI KG++R+SK   D ++ + +G I  WYH  C
Sbjct: 1   MKAEKTLGDFAAEYAKSNRSTCKGCMEKIEKGQVRLSKKMVDPEKPQ-LGMIDRWYHPGC 59
Query: 100 FNAVRLDL----EFSASGKQIPGFGSLEKKDQKIVEATLPSL-SDGV 141
           F   R +L    E+SAS  Q+ GF  L  +D++ ++  LP + S+G+
Sbjct: 60  FVKNREELGFRPEYSAS--QLKGFSLLATEDKEALKKQLPGVKSEGL 104

>pdb|2DMJ|A Chain A, Solution Structure Of The First Zf-Parp Domain Of Human Poly(Adp-Ribose)polymerase-1 Length = 106

Iteration: 1
 Score = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 33/96 (34%), Positives = 47/96 (48%), Gaps = 7/96 (7%)
Query: 48  LGNIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGG-IPEWYHLSCFNAVRLD 106
           L  +EYAKS R++C+ C   I K  +R++ M     Q  M  G +P WYH SCF  V   
Sbjct: 15  LYRVEYAKSGRASCKKCSESIPKDSLRMAIMV----QSPMFDGKVPHWYHFSCFWKVGHS 70
Query: 107 LEFSASGKQIPGFGSLEKKDQKIVEATLPSLSDGVS 142
           +       ++ GF  L   DQ+ V+ T  +   G S
Sbjct: 71  IRHPDV--EVDGFSELRWDDQQKVKKTAEAGGSGPS 104

>pdb|3ODA|A Chain A, Human Parp-1 Zinc Finger 1 (Zn1) Bound To Dna Length = 116

Iteration: 1
 Score = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 31/87 (35%), Positives = 44/87 (50%), Gaps = 7/87 (8%)
Query: 48  LGNIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGG-IPEWYHLSCFNAVRLD 106
           L  +EYAKS R++C+ C   I K  +R++ M     Q  M  G +P WYH SCF  V   
Sbjct: 28  LYRVEYAKSGRASCKKCSESIPKDSLRMAIMV----QSPMFDGKVPHWYHFSCFWKVGHS 83
Query: 107 LEFSASGKQIPGFGSLEKKDQKIVEAT 133
           +       ++ GF  L   DQ+ V+ T
Sbjct: 84  IRHPDV--EVDGFSELRWDDQQKVKKT 108

>pdb|2L30|A Chain A, Human Parp-1 Zinc Finger 1 Length = 108

Iteration: 1
 Score = 51.2 bits (121), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 31/87 (35%), Positives = 44/87 (50%), Gaps = 7/87 (8%)
Query: 48  LGNIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGG-IPEWYHLSCFNAVRLD 106
           L  +EYAKS R++C+ C   I K  +R++ M     Q  M  G +P WYH SCF  V   
Sbjct: 8   LYRVEYAKSGRASCKKCSESIPKDSLRMAIMV----QSPMFDGKVPHWYHFSCFWKVGHS 63
Query: 107 LEFSASGKQIPGFGSLEKKDQKIVEAT 133
           +       ++ GF  L   DQ+ V+ T
Sbjct: 64  IRHPDV--EVDGFSELRWDDQQKVKKT 88

>pdb|3OD8|A Chain A, Human Parp-1 Zinc Finger 1 (Zn1) Bound To Dna Length = 116

Iteration: 1
 Score = 48.1 bits (113), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 31/93 (33%), Positives = 43/93 (46%), Gaps = 13/93 (13%)
Query: 45  SKILGNIEYAKSNRSTCRGCEAKIAKGEIR----VSKMNYDSDQGKMIGGIPEWYHLSCF 100
           S  L  +EYAKS R++C+ C   I K  +R    V    +D       G +P WYH SCF
Sbjct: 25  SDKLYRVEYAKSGRASCKKCSESIPKDSLRXAIXVQSPXFD-------GKVPHWYHFSCF 77
Query: 101 NAVRLDLEFSASGKQIPGFGSLEKKDQKIVEAT 133
             V   +       ++ GF  L   DQ+ V+ T
Sbjct: 78  WKVGHSIRHPDV--EVDGFSELRWDDQQKVKKT 108

>pdb|1UW0|A Chain A, Solution Structure Of The Zinc-Finger Domain From Dna Ligase Iiia Length = 117

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 32/112 (28%), Positives = 55/112 (49%), Gaps = 14/112 (12%)
Query: 51  IEYAKSNRSTCRGCEAKIAKGEIRVSKM--NYDSDQGKMIGGIPEWYHLSCFNAVRLDLE 108
           ++YAK   + C+ C+ KI KG  R+ K+  N  S+ G   G + EWYH+ C    +L+  
Sbjct: 8   VDYAKRGTAGCKKCKEKIVKGVCRIGKVVPNPFSESG---GDMKEWYHIKCMFE-KLERA 63
Query: 109 FSASGK-----QIPGFGSLEKKDQKIVE---ATLPSLSDGVSKTDAISHFLL 152
            + + K     ++ G+  LE  +++ +    A L S + G  K  A+    L
Sbjct: 64  RATTKKIEDLTELEGWEELEDNEKEQITQHIADLSSKAAGTPKKKAVVQAKL 115

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	162
4av1_A	223	Poly [ADP-ribose] polymerase 1; transferase, PARP1	1e-31
4av1_A	223	Poly [ADP-ribose] polymerase 1; transferase, PARP1	2e-18
3odc_A	111	Poly [ADP-ribose] polymerase 1; protein-DNA comple	3e-26
3odc_A	111	Poly [ADP-ribose] polymerase 1; protein-DNA comple	1e-05
2cs2_A	134	Poly [ADP-ribose] polymerase-1; DNA BIND, DNA repa	4e-25
2cs2_A	134	Poly [ADP-ribose] polymerase-1; DNA BIND, DNA repa	1e-05
2dmj_A	106	Poly (ADP-ribose) polymerase family, member 1; zin	6e-22
2dmj_A	106	Poly (ADP-ribose) polymerase family, member 1; zin	3e-10
3od8_A	116	Poly [ADP-ribose] polymerase 1; protein-DNA comple	4e-21
3od8_A	116	Poly [ADP-ribose] polymerase 1; protein-DNA comple	9e-10
1uw0_A	117	DNA ligase III; DNA repair, zinc finger, PARP-like	4e-21
1uw0_A	117	DNA ligase III; DNA repair, zinc finger, PARP-like	1e-06
1v9x_A	114	Poly (ADP-ribose) polymerase; PARP, DNA repair, in	1e-20
1v9x_A	114	Poly (ADP-ribose) polymerase; PARP, DNA repair, in	5e-10

>4av1_A Poly [ADP-ribose] polymerase 1; transferase, PARP1, DNA-binding domain, DBD, DNA repair, CAN poly- ADP(ribosyl)ation; 3.10A {Homo sapiens} PDB: 2l30_A Length = 223

 Score =  112 bits (280), Expect = 1e-31
 Identities = 56/163 (34%), Positives = 77/163 (47%), Gaps = 27/163 (16%)

Query: 1   SPFFDGKTPKWFHEECFWKKNRPK--ALLDIHNVTSLRHQDQEMIKSKILG--------- 49
           SP FDGK P W+H  CFWK         +++   + LR  DQ+ +K              
Sbjct: 62  SPMFDGKVPHWYHFSCFWKVGHSIRHPDVEVDGFSELRWDDQQKVKKTAEAGGVTGKGQD 121

Query: 50  -------------NIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYH 96
                          EYAKSNRSTC+GC  KI KG++R+SK   D  +   +G I  WYH
Sbjct: 122 GIGSKAEKTLGDFAAEYAKSNRSTCKGCMEKIEKGQVRLSKKMVDP-EKPQLGMIDRWYH 180

Query: 97  LSCFNAVRLDLEF--SASGKQIPGFGSLEKKDQKIVEATLPSL 137
             CF   R +L F    S  Q+ GF  L  +D++ ++  LP +
Sbjct: 181 PGCFVKNREELGFRPEYSASQLKGFSLLATEDKEALKKQLPGV 223

>4av1_A Poly [ADP-ribose] polymerase 1; transferase, PARP1, DNA-binding domain, DBD, DNA repair, CAN poly- ADP(ribosyl)ation; 3.10A {Homo sapiens} PDB: 2l30_A Length = 223

 Score = 77.6 bits (190), Expect = 2e-18
 Identities = 28/84 (33%), Positives = 41/84 (48%), Gaps = 5/84 (5%)

Query: 51  IEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFS 110
           +EYAKS R++C+ C   I K  +R++ M          G +P WYH SCF  V   +   
Sbjct: 32  VEYAKSGRASCKKCSESIPKDSLRMAIMVQSPMFD---GKVPHWYHFSCFWKVGHSIRHP 88

Query: 111 ASGKQIPGFGSLEKKDQKIVEATL 134
               ++ GF  L   DQ+ V+ T 
Sbjct: 89  D--VEVDGFSELRWDDQQKVKKTA 110

>3odc_A Poly [ADP-ribose] polymerase 1; protein-DNA complex, PARP zinc finger, DNA binding protein-D complex; 2.80A {Homo sapiens} PDB: 3ode_A 2l31_A Length = 111

 Score = 95.1 bits (236), Expect = 3e-26
 Identities = 40/98 (40%), Positives = 56/98 (57%), Gaps = 4/98 (4%)

Query: 51  IEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEF- 109
            EYAKSNRSTC+GC  KI KG++R+SK   D  +   +G I  WYH  CF   R +L F 
Sbjct: 12  AEYAKSNRSTCKGCMEKIEKGQVRLSKKMVDP-EKPQLGMIDRWYHPGCFVKNREELGFR 70

Query: 110 -SASGKQIPGFGSLEKKDQKIVEATLPSL-SDGVSKTD 145
              S  Q+ GF  L  +D++ ++  LP + S+G+    
Sbjct: 71  PEYSASQLKGFSLLATEDKEALKKQLPGVKSEGLEHHH 108

>3odc_A Poly [ADP-ribose] polymerase 1; protein-DNA complex, PARP zinc finger, DNA binding protein-D complex; 2.80A {Homo sapiens} PDB: 3ode_A 2l31_A Length = 111

 Score = 41.1 bits (96), Expect = 1e-05
 Identities = 10/51 (19%), Positives = 19/51 (37%), Gaps = 6/51 (11%)

Query: 3  FFDGKTPKWFHEECFWKKNRPKALL------DIHNVTSLRHQDQEMIKSKI 47
             G   +W+H  CF K               +   + L  +D+E +K ++
Sbjct: 46 PQLGMIDRWYHPGCFVKNREELGFRPEYSASQLKGFSLLATEDKEALKKQL 96

>2cs2_A Poly [ADP-ribose] polymerase-1; DNA BIND, DNA repair, necrosis, apoptosis, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 134

 Score = 92.9 bits (230), Expect = 4e-25
 Identities = 38/95 (40%), Positives = 53/95 (55%), Gaps = 3/95 (3%)

Query: 51  IEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEF- 109
            EYAKSNRSTC+GC  KI KG++R+SK   D  +   +G I  WYH  CF   R +L F 
Sbjct: 20  AEYAKSNRSTCKGCMEKIEKGQVRLSKKMVDP-EKPQLGMIDRWYHPGCFVKNREELGFR 78

Query: 110 -SASGKQIPGFGSLEKKDQKIVEATLPSLSDGVSK 143
              S  Q+ GF  L  +D++ ++  LP +     +
Sbjct: 79  PEYSASQLKGFSLLATEDKEALKKQLPGVKSEGKR 113

>2cs2_A Poly [ADP-ribose] polymerase-1; DNA BIND, DNA repair, necrosis, apoptosis, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 134

 Score = 41.6 bits (97), Expect = 1e-05
 Identities = 15/80 (18%), Positives = 25/80 (31%), Gaps = 6/80 (7%)

Query: 3   FFDGKTPKWFHEECFWKKNRPKALL------DIHNVTSLRHQDQEMIKSKILGNIEYAKS 56
              G   +W+H  CF K               +   + L  +D+E +K ++ G     K 
Sbjct: 54  PQLGMIDRWYHPGCFVKNREELGFRPEYSASQLKGFSLLATEDKEALKKQLPGVKSEGKR 113

Query: 57  NRSTCRGCEAKIAKGEIRVS 76
                 G +    K     S
Sbjct: 114 KGDEVDGVDEVAKKKSGPSS 133

>2dmj_A Poly (ADP-ribose) polymerase family, member 1; zinc finger, PARP-1, ADPRT, NAD(+) ADP-ribosyltransferase 1, poly(ADP-ribose) synthetase 1; NMR {Homo sapiens} Length = 106

 Score = 83.8 bits (207), Expect = 6e-22
 Identities = 30/93 (32%), Positives = 44/93 (47%), Gaps = 5/93 (5%)

Query: 51  IEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFS 110
           +EYAKS R++C+ C   I K  +R++ M          G +P WYH SCF  V   +   
Sbjct: 18  VEYAKSGRASCKKCSESIPKDSLRMAIMVQSPMFD---GKVPHWYHFSCFWKVGHSIRHP 74

Query: 111 ASGKQIPGFGSLEKKDQKIVEATLPSLSDGVSK 143
               ++ GF  L   DQ+ V+ T  +   G S 
Sbjct: 75  D--VEVDGFSELRWDDQQKVKKTAEAGGSGPSS 105

>2dmj_A Poly (ADP-ribose) polymerase family, member 1; zinc finger, PARP-1, ADPRT, NAD(+) ADP-ribosyltransferase 1, poly(ADP-ribose) synthetase 1; NMR {Homo sapiens} Length = 106

 Score = 53.7 bits (129), Expect = 3e-10
 Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 2/49 (4%)

Query: 1  SPFFDGKTPKWFHEECFWKKNRPK--ALLDIHNVTSLRHQDQEMIKSKI 47
          SP FDGK P W+H  CFWK         +++   + LR  DQ+ +K   
Sbjct: 48 SPMFDGKVPHWYHFSCFWKVGHSIRHPDVEVDGFSELRWDDQQKVKKTA 96

>3od8_A Poly [ADP-ribose] polymerase 1; protein-DNA complex, PARP zinc finger, DNA binding protein-D complex; 2.40A {Homo sapiens} PDB: 3oda_A Length = 116

 Score = 82.3 bits (203), Expect = 4e-21
 Identities = 28/86 (32%), Positives = 42/86 (48%), Gaps = 5/86 (5%)

Query: 51  IEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFS 110
           +EYAKS R++C+ C   I K  +R++ M          G +P WYH SCF  V   +   
Sbjct: 31  VEYAKSGRASCKKCSESIPKDSLRMAIMVQSPMFD---GKVPHWYHFSCFWKVGHSIRHP 87

Query: 111 ASGKQIPGFGSLEKKDQKIVEATLPS 136
               ++ GF  L   DQ+ V+ T  +
Sbjct: 88  D--VEVDGFSELRWDDQQKVKKTAEA 111

>3od8_A Poly [ADP-ribose] polymerase 1; protein-DNA complex, PARP zinc finger, DNA binding protein-D complex; 2.40A {Homo sapiens} PDB: 3oda_A Length = 116

 Score = 52.3 bits (125), Expect = 9e-10
 Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 2/49 (4%)

Query: 1   SPFFDGKTPKWFHEECFWKKNRPK--ALLDIHNVTSLRHQDQEMIKSKI 47
           SP FDGK P W+H  CFWK         +++   + LR  DQ+ +K   
Sbjct: 61  SPMFDGKVPHWYHFSCFWKVGHSIRHPDVEVDGFSELRWDDQQKVKKTA 109

>1uw0_A DNA ligase III; DNA repair, zinc finger, PARP-like finger, cell division, DNA replication, nuclear protein; HET: DNA; NMR {Homo sapiens} SCOP: g.39.1.12 Length = 117

 Score = 82.0 bits (202), Expect = 4e-21
 Identities = 24/98 (24%), Positives = 45/98 (45%), Gaps = 5/98 (5%)

Query: 51  IEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCF----NAVRLD 106
           ++YAK   + C+ C+ KI KG  R+ K+   +   +  G + EWYH+ C        R  
Sbjct: 8   VDYAKRGTAGCKKCKEKIVKGVCRIGKV-VPNPFSESGGDMKEWYHIKCMFEKLERARAT 66

Query: 107 LEFSASGKQIPGFGSLEKKDQKIVEATLPSLSDGVSKT 144
            +      ++ G+  LE  +++ +   +  LS   + T
Sbjct: 67  TKKIEDLTELEGWEELEDNEKEQITQHIADLSSKAAGT 104

>1uw0_A DNA ligase III; DNA repair, zinc finger, PARP-like finger, cell division, DNA replication, nuclear protein; HET: DNA; NMR {Homo sapiens} SCOP: g.39.1.12 Length = 117

 Score = 44.3 bits (104), Expect = 1e-06
 Identities = 12/57 (21%), Positives = 25/57 (43%), Gaps = 10/57 (17%)

Query: 1  SPFFD--GKTPKWFHEECFWKK--------NRPKALLDIHNVTSLRHQDQEMIKSKI 47
          +PF +  G   +W+H +C ++K         + + L ++     L   ++E I   I
Sbjct: 38 NPFSESGGDMKEWYHIKCMFEKLERARATTKKIEDLTELEGWEELEDNEKEQITQHI 94

>1v9x_A Poly (ADP-ribose) polymerase; PARP, DNA repair, inflammation, cell death, structural genomics; NMR {Arabidopsis thaliana} Length = 114

 Score = 80.4 bits (198), Expect = 1e-20
 Identities = 27/96 (28%), Positives = 45/96 (46%), Gaps = 6/96 (6%)

Query: 51  IEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFS 110
            EYAKS+RS+C+ C++ I K   R+ K+   +      G +P W H SC       ++  
Sbjct: 13  AEYAKSSRSSCKTCKSVINKENFRLGKLVQSTHFD---GIMPMWNHASCILKKTKQIK-- 67

Query: 111 ASGKQIPGFGSLEKKDQKIVEATLPSLSDGVSKTDA 146
            S   + G  SL  +DQ+ +   + S +   + T  
Sbjct: 68  -SVDDVEGIESLRWEDQQKIRKYVESGAGSNTSTST 102

>1v9x_A Poly (ADP-ribose) polymerase; PARP, DNA repair, inflammation, cell death, structural genomics; NMR {Arabidopsis thaliana} Length = 114

 Score = 53.0 bits (127), Expect = 5e-10
 Identities = 20/72 (27%), Positives = 32/72 (44%), Gaps = 1/72 (1%)

Query: 1   SPFFDGKTPKWFHEECFWKKNRP-KALLDIHNVTSLRHQDQEMIKSKILGNIEYAKSNRS 59
           S  FDG  P W H  C  KK +  K++ D+  + SLR +DQ+ I+  +        S  +
Sbjct: 43  STHFDGIMPMWNHASCILKKTKQIKSVDDVEGIESLRWEDQQKIRKYVESGAGSNTSTST 102

Query: 60  TCRGCEAKIAKG 71
                 +  + G
Sbjct: 103 GTSTSSSGPSSG 114

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	162
4av1_A	223	Poly [ADP-ribose] polymerase 1; transferase, PARP1	100.0
1uw0_A	117	DNA ligase III; DNA repair, zinc finger, PARP-like	99.96
1v9x_A	114	Poly (ADP-ribose) polymerase; PARP, DNA repair, in	99.96
2dmj_A	106	Poly (ADP-ribose) polymerase family, member 1; zin	99.95
3odc_A	111	Poly [ADP-ribose] polymerase 1; protein-DNA comple	99.95
2cs2_A	134	Poly [ADP-ribose] polymerase-1; DNA BIND, DNA repa	99.95
3od8_A	116	Poly [ADP-ribose] polymerase 1; protein-DNA comple	99.94
4av1_A	223	Poly [ADP-ribose] polymerase 1; transferase, PARP1	99.91
1v9x_A	114	Poly (ADP-ribose) polymerase; PARP, DNA repair, in	99.57
3od8_A	116	Poly [ADP-ribose] polymerase 1; protein-DNA comple	99.52
2dmj_A	106	Poly (ADP-ribose) polymerase family, member 1; zin	99.47
1uw0_A	117	DNA ligase III; DNA repair, zinc finger, PARP-like	99.42
3odc_A	111	Poly [ADP-ribose] polymerase 1; protein-DNA comple	99.41
2cs2_A	134	Poly [ADP-ribose] polymerase-1; DNA BIND, DNA repa	99.35
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	85.96
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	85.11
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	84.67
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	84.08
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	83.99
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	83.77
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	83.51
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	83.45
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	82.8
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	81.28
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	80.87

>4av1_A Poly [ADP-ribose] polymerase 1; transferase, PARP1, DNA-binding domain, DBD, DNA repair, CAN poly- ADP(ribosyl)ation; 3.10A {Homo sapiens} PDB: 2l30_A

Probab=100.00  E-value=2.1e-45  Score=300.70  Aligned_cols=135  Identities=42%  Similarity=0.831  Sum_probs=43.1

Q ss_pred             CCCCCCCCCceeeeccccCCCCC--CCCCCcCCCcCCChhhHHHHHHhhc-c---------------------ceeeecC
Q psy6818           1 SPFFDGKTPKWFHEECFWKKNRP--KALLDIHNVTSLRHQDQEMIKSKIL-G---------------------NIEYAKS   56 (162)
Q Consensus         1 s~~fdG~~~~W~H~~Cff~k~~~--~~~~~i~g~~~Lrw~DQ~~i~~~i~-~---------------------~vEYAkS   56 (162)
                      |++|||.|++|||++|||.++..  .++++|+||++|+||||++|+++|+ |                     .||||||
T Consensus        62 ~~~~dG~~~~W~H~~Cf~~~~~~~~~~~~~I~G~~~L~~eDQekIk~~ie~g~~~~~~~~~~~~~~~~~~~~y~vEYAKS  141 (223)
T 4av1_A           62 SPMFDGKVPHWYHFSCFWKVGHSIRHPDVEVDGFSELRWDDQQKVKKTAEAGGVTGKGQDGIGSKAEKTLGDFAAEYAKS  141 (223)
T ss_dssp             ETTTTEEEEEEEEHHHHTTSCCCCSCHHHHEETTTSSCHHHHHHHHHHHHC-----------------------------
T ss_pred             CCCCCCCCceeEChhhhhhhhcccCCCHHHCCChhHCCHHHHHHHHHHHHhCCCCCccCCcccccccccccceEEEEecc
Confidence            57899999999999999997644  4678999999999999999999994 1                     8999999


Q ss_pred             CCcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCccccccccccC--CCCCCCCCCcCCCHHHHHHHHHHh
Q psy6818          57 NRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFS--ASGKQIPGFGSLEKKDQKIVEATL  134 (162)
Q Consensus        57 ~Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~~~~~~~~~--~~~e~I~Gf~~L~~eDQ~~Ik~~~  134 (162)
                      |||+|++|+++|.||+||||+++++++.+ ++|.++.|||++||++.+..+++.  .++++|+||++|+++||++|+++|
T Consensus       142 ~Ra~Ck~C~~kI~KgeLRig~~v~~~~~~-~~G~~~~W~H~~Cf~~~~~~l~~~~~~~~~~l~Gf~~L~~eDQ~~ikk~i  220 (223)
T 4av1_A          142 NRSTCKGCMEKIEKGQVRLSKKMVDPEKP-QLGMIDRWYHPGCFVKNREELGFRPEYSASQLKGFSLLATEDKEALKKQL  220 (223)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCccccccCCccCCCCeEEeeeecCcccc-cCCCcceeEChhhhhchhhhcccCCCCChHHCCChHHCCHHHHHHHHHhc
Confidence            99999999999999999999999887652 357789999999999987655432  268999999999999999999998


Q ss_pred             hc
Q psy6818         135 PS  136 (162)
Q Consensus       135 ~~  136 (162)
                      ++
T Consensus       221 ~~  222 (223)
T 4av1_A          221 PG  222 (223)
T ss_dssp             --
T ss_pred             cC
Confidence            65

>1uw0_A DNA ligase III; DNA repair, zinc finger, PARP-like finger, cell division, DNA replication, nuclear protein; HET: DNA; NMR {Homo sapiens} SCOP: g.39.1.12

Probab=99.96  E-value=2.8e-30  Score=192.53  Aligned_cols=102  Identities=25%  Similarity=0.470  Sum_probs=84.4

Q ss_pred             ceeeecCCCcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCcccc----ccccccCCCCCCCCCCcCCCHH
Q psy6818          50 NIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAV----RLDLEFSASGKQIPGFGSLEKK  125 (162)
Q Consensus        50 ~vEYAkS~Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~~----~~~~~~~~~~e~I~Gf~~L~~e  125 (162)
                      .|||||||||+|++|+++|.||+||||+++++++.+ .+|.++.|||++||+..    +.+++.+.++++|+||++|+++
T Consensus         7 ~vEYAkSgRA~Ck~C~~kI~KgeLRiG~~v~~~~~~-~~g~~~~W~H~~Cf~~k~~~~r~~~~~~~~~~~i~G~~~L~~e   85 (117)
T 1uw0_A            7 CVDYAKRGTAGCKKCKEKIVKGVCRIGKVVPNPFSE-SGGDMKEWYHIKCMFEKLERARATTKKIEDLTELEGWEELEDN   85 (117)
T ss_dssp             EEEECCSSCEECTTSSCEECTTCEEEEEEEECTTCS-SCCEECCBCCHHHHHHHHHHSCSSSCCSCTTSSSBSTTTSCHH
T ss_pred             EEEEeCCCCccchhhCcccCCCCeEEEEEecccccc-CCCCCCeeECcccchhHHhhhhhhccCCCChHHCcChHHCCHH
Confidence            699999999999999999999999999999887642 14668999999999953    4444555588999999999999


Q ss_pred             HHHHHHHHhhccCCC----CCCcccccccee
Q psy6818         126 DQKIVEATLPSLSDG----VSKTDAISHFLL  152 (162)
Q Consensus       126 DQ~~Ik~~~~~~~~~----~~~~~~~~~~~~  152 (162)
                      ||++|+++|++++..    ++|++..+.+++
T Consensus        86 DQ~~I~~~i~~~~~~~~~~~~~~~~~~~~~~  116 (117)
T 1uw0_A           86 EKEQITQHIADLSSKAAGTPKKKAVVQAKLT  116 (117)
T ss_dssp             HHHHHHHHHHHHHCCSSSCCCCSCCCCCCCC
T ss_pred             HHHHHHHHHHHhhccCCCCCccccccccccC
Confidence            999999999888664    455656666553

>1v9x_A Poly (ADP-ribose) polymerase; PARP, DNA repair, inflammation, cell death, structural genomics; NMR {Arabidopsis thaliana}

Probab=99.96  E-value=2e-29  Score=187.31  Aligned_cols=86  Identities=30%  Similarity=0.486  Sum_probs=76.8

Q ss_pred             ceeeecCCCcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCccccccccccCCCCCCCCCCcCCCHHHHHH
Q psy6818          50 NIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFSASGKQIPGFGSLEKKDQKI  129 (162)
Q Consensus        50 ~vEYAkS~Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~~~~~~~~~~~~e~I~Gf~~L~~eDQ~~  129 (162)
                      .|||||||||+|++|+++|+||+||||+++++++.   .|.++.|||+.||++.+..+   .++++|+||++|+++||++
T Consensus        12 ~vEYAKS~RA~Ck~Ck~kI~KgeLRiG~~v~~~~~---dG~~~~W~H~~Cf~~~~~~i---~~~~~I~G~~~L~~eDQ~~   85 (114)
T 1v9x_A           12 RAEYAKSSRSSCKTCKSVINKENFRLGKLVQSTHF---DGIMPMWNHASCILKKTKQI---KSVDDVEGIESLRWEDQQK   85 (114)
T ss_dssp             EEEECSCSCCBCSSSCCBCCSSSEEEEECCCCSSS---SCCCCEEEEHHHHHTSSSCC---SCGGGEETTTTSCHHHHHH
T ss_pred             EEEEeCCCCCCchhhCCccCCCCEEEEEEecCccc---CCCcceeECccccchhhccC---CChHHCCChHHCCHHHHHH
Confidence            79999999999999999999999999999987652   47789999999999876543   3789999999999999999


Q ss_pred             HHHHhhccCCCC
Q psy6818         130 VEATLPSLSDGV  141 (162)
Q Consensus       130 Ik~~~~~~~~~~  141 (162)
                      |+++|++....+
T Consensus        86 I~~~i~~~~~~~   97 (114)
T 1v9x_A           86 IRKYVESGAGSN   97 (114)
T ss_dssp             HHHHHSSCSSST
T ss_pred             HHHHHHHcCCCC
Confidence            999999988754

>2dmj_A Poly (ADP-ribose) polymerase family, member 1; zinc finger, PARP-1, ADPRT, NAD(+) ADP-ribosyltransferase 1, poly(ADP-ribose) synthetase 1; NMR {Homo sapiens}

Probab=99.95  E-value=6.1e-29  Score=182.40  Aligned_cols=90  Identities=33%  Similarity=0.622  Sum_probs=77.9

Q ss_pred             ceeeecCCCcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCccccccccccCCCCCCCCCCcCCCHHHHHH
Q psy6818          50 NIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFSASGKQIPGFGSLEKKDQKI  129 (162)
Q Consensus        50 ~vEYAkS~Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~~~~~~~~~~~~e~I~Gf~~L~~eDQ~~  129 (162)
                      .|||||||||+|++|+++|+||+||||++++++.   ++|.++.|||+.||++......  .+.++|+||++|+++||++
T Consensus        17 ~vEyAkS~Ra~Ck~C~~kI~KgelRig~~v~~~~---~~g~~~~W~H~~Cf~~~~~~~~--~~~~~i~G~~~L~~eDq~~   91 (106)
T 2dmj_A           17 RVEYAKSGRASCKKCSESIPKDSLRMAIMVQSPM---FDGKVPHWYHFSCFWKVGHSIR--HPDVEVDGFSELRWDDQQK   91 (106)
T ss_dssp             ECEECCSSCCBCSSSCCBCCTTCEEEEEEEEETT---TTEEEEEEEETTHHHHTTCCCS--CTTTSEETTTTSCHHHHHH
T ss_pred             EEEEeCCCCCcchhhCCccCCCCEEEEEEecCCC---CCCCcCEeECcCccchhhccCC--CChhhCCChHHCCHHHHHH
Confidence            7999999999999999999999999999998765   2466899999999998643222  2568999999999999999


Q ss_pred             HHHHhhccCCCCCCc
Q psy6818         130 VEATLPSLSDGVSKT  144 (162)
Q Consensus       130 Ik~~~~~~~~~~~~~  144 (162)
                      |+++|+....+++|.
T Consensus        92 i~~~~e~g~~~p~~~  106 (106)
T 2dmj_A           92 VKKTAEAGGSGPSSG  106 (106)
T ss_dssp             HHHHHHHCSSCCCCC
T ss_pred             HHHHHHhCCCCCCCC
Confidence            999999988887763

>3odc_A Poly [ADP-ribose] polymerase 1; protein-DNA complex, PARP zinc finger, DNA binding protein-D complex; 2.80A {Homo sapiens} PDB: 3ode_A 2l31_A

Probab=99.95  E-value=1.7e-29  Score=186.94  Aligned_cols=89  Identities=43%  Similarity=0.779  Sum_probs=74.4

Q ss_pred             ceeeecCCCcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCcccccccccc--CCCCCCCCCCcCCCHHHH
Q psy6818          50 NIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEF--SASGKQIPGFGSLEKKDQ  127 (162)
Q Consensus        50 ~vEYAkS~Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~~~~~~~~--~~~~e~I~Gf~~L~~eDQ  127 (162)
                      .|||||||||+|++|+++|+||+||||+++.+++.+ ++|.++.|||++||++.+..+++  ..++++|+||++|+++||
T Consensus        11 ~vEyAkS~Ra~Ck~C~~kI~Kg~lRig~~~~~~~~~-~~G~~~~W~H~~Cf~~~~~~l~~~~~~~~~~I~Gf~~L~~eDQ   89 (111)
T 3odc_A           11 AAEYAKSNRSTCKGCMEKIEKGQVRLSKKMVDPEKP-QLGMIDRWYHPGCFVKNREELGFRPEYSASQLKGFSLLATEDK   89 (111)
T ss_dssp             EEEECSSSCCBCTTTCCBCCTTCEEEEEEEEETTEE-EEEEEEEEECHHHHHHTHHHHTCCTTTGGGGEETGGGSCHHHH
T ss_pred             eEEEeecCCccccccCCCccCCceEEeEEecCcccc-CCCCcceeEChhhccchhhhcccCCCCCHHhCCChHHCCHHHH
Confidence            799999999999999999999999999999888642 35668999999999987643322  126789999999999999


Q ss_pred             HHHHHHhhccCC
Q psy6818         128 KIVEATLPSLSD  139 (162)
Q Consensus       128 ~~Ik~~~~~~~~  139 (162)
                      ++|+++|++++.
T Consensus        90 e~Ikk~i~~~~~  101 (111)
T 3odc_A           90 EALKKQLPGVKS  101 (111)
T ss_dssp             HHHHHHSCC---
T ss_pred             HHHHHHHHhhcc
Confidence            999999987754

>2cs2_A Poly [ADP-ribose] polymerase-1; DNA BIND, DNA repair, necrosis, apoptosis, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.95  E-value=1.5e-28  Score=187.20  Aligned_cols=89  Identities=43%  Similarity=0.779  Sum_probs=77.5

Q ss_pred             ceeeecCCCcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCcccccccccc--CCCCCCCCCCcCCCHHHH
Q psy6818          50 NIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEF--SASGKQIPGFGSLEKKDQ  127 (162)
Q Consensus        50 ~vEYAkS~Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~~~~~~~~--~~~~e~I~Gf~~L~~eDQ  127 (162)
                      .|||||||||+|++|+++|+||+||||+++++++.+ ++|.++.|||+.||+..+..+..  ..++++|+||+.|+++||
T Consensus        19 ~vEYAKSgRA~CK~C~~kI~KgeLRIG~~v~~~~~~-~~G~~~~W~H~~Cf~~~~~~~~~~~~~~~~~I~Gf~~L~~eDQ   97 (134)
T 2cs2_A           19 AAEYAKSNRSTCKGCMEKIEKGQVRLSKKMVDPEKP-QLGMIDRWYHPGCFVKNREELGFRPEYSASQLKGFSLLATEDK   97 (134)
T ss_dssp             EEEECSSSCCBCSSSCCBCCTTSEEEEEEEECSSCT-TTCEEEEEECHHHHHHTTTTTTCCTTCCGGGEETTTTSCHHHH
T ss_pred             EEEEeCCCCccchhcCCcccCCCeEEEEEecccccC-CCCCcceeECcCcChhhhhccccCCCCChHhCCChHHCCHHHH
Confidence            899999999999999999999999999999887653 35768999999999987654322  126899999999999999


Q ss_pred             HHHHHHhhccCC
Q psy6818         128 KIVEATLPSLSD  139 (162)
Q Consensus       128 ~~Ik~~~~~~~~  139 (162)
                      ++|+++|++++.
T Consensus        98 e~I~~~i~~~~~  109 (134)
T 2cs2_A           98 EALKKQLPGVKS  109 (134)
T ss_dssp             HHHHTTCCSSCC
T ss_pred             HHHHHHHHHHhh
Confidence            999999999876

>3od8_A Poly [ADP-ribose] polymerase 1; protein-DNA complex, PARP zinc finger, DNA binding protein-D complex; 2.40A {Homo sapiens} PDB: 3oda_A 4dqy_A*

Probab=99.94  E-value=1.8e-28  Score=182.61  Aligned_cols=84  Identities=33%  Similarity=0.643  Sum_probs=72.9

Q ss_pred             ceeeecCCCcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCccccccccccCCCCCCCCCCcCCCHHHHHH
Q psy6818          50 NIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFSASGKQIPGFGSLEKKDQKI  129 (162)
Q Consensus        50 ~vEYAkS~Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~~~~~~~~~~~~e~I~Gf~~L~~eDQ~~  129 (162)
                      .|||||||||+|++|+++|.||+||||++++++.   ++|.++.|||++||++.+..+..  +.++|+||++|++|||++
T Consensus        30 ~vEyAkS~RA~Ck~C~~kI~KgeLRiG~~v~~~~---~~G~~~~WyH~~Cf~~~~~~~~~--~~~~I~Gfd~L~~eDQek  104 (116)
T 3od8_A           30 RVEYAKSGRASCKKCSESIPKDSLRMAIMVQSPM---FDGKVPHWYHFSCFWKVGHSIRH--PDVEVDGFSELRWDDQQK  104 (116)
T ss_dssp             EEEECSSSCCBCTTTCCBCCTTSEEEEEEEECSS---SSSEEEEEEEHHHHHHTCCCCSC--HHHHEETGGGSCHHHHHH
T ss_pred             EEEEeccCCccCcccCCccCCCCEEEEEEeccCC---cCCCCCeeECCccChhhhhccCC--ChhhCcChHHCCHHHHHH
Confidence            8999999999999999999999999999998764   35778999999999997654432  357899999999999999


Q ss_pred             HHHHhhccC
Q psy6818         130 VEATLPSLS  138 (162)
Q Consensus       130 Ik~~~~~~~  138 (162)
                      |++++++..
T Consensus       105 Ikk~ie~g~  113 (116)
T 3od8_A          105 VKKTAEAGG  113 (116)
T ss_dssp             HHHHHHC--
T ss_pred             HHHHHHcCC
Confidence            999998753

>4av1_A Poly [ADP-ribose] polymerase 1; transferase, PARP1, DNA-binding domain, DBD, DNA repair, CAN poly- ADP(ribosyl)ation; 3.10A {Homo sapiens} PDB: 2l30_A

Probab=99.91  E-value=7.8e-26  Score=184.84  Aligned_cols=85  Identities=33%  Similarity=0.619  Sum_probs=72.5

Q ss_pred             ceeeecCCCcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCccccccccccCCCCCCCCCCcCCCHHHHHH
Q psy6818          50 NIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVRLDLEFSASGKQIPGFGSLEKKDQKI  129 (162)
Q Consensus        50 ~vEYAkS~Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~~~~~~~~~~~~e~I~Gf~~L~~eDQ~~  129 (162)
                      .|||||||||+|++|+++|.||+||||+++.++.   ++|.++.|||++||++.....  ..++++|+||++|+++||++
T Consensus        31 ~vEyAkS~RA~Ck~Ck~kI~Kg~LRig~~v~~~~---~dG~~~~W~H~~Cf~~~~~~~--~~~~~~I~G~~~L~~eDQek  105 (223)
T 4av1_A           31 RVEYAKSGRASCKKCSESIPKDSLRMAIMVQSPM---FDGKVPHWYHFSCFWKVGHSI--RHPDVEVDGFSELRWDDQQK  105 (223)
T ss_dssp             EEEECSSTTCBCTTTCCBCCTTCEEEEEEEEETT---TTEEEEEEEEHHHHTTSCCCC--SCHHHHEETTTSSCHHHHHH
T ss_pred             EEEEecCCCccCcccCCccCCCceEEEEEecCCC---CCCCCceeEChhhhhhhhccc--CCCHHHCCChhHCCHHHHHH
Confidence            8999999999999999999999999999998774   356689999999999875432  12568999999999999999


Q ss_pred             HHHHhhccCC
Q psy6818         130 VEATLPSLSD  139 (162)
Q Consensus       130 Ik~~~~~~~~  139 (162)
                      |++++++.+.
T Consensus       106 Ik~~ie~g~~  115 (223)
T 4av1_A          106 VKKTAEAGGV  115 (223)
T ss_dssp             HHHHHHC---
T ss_pred             HHHHHHhCCC
Confidence            9999998774

>1v9x_A Poly (ADP-ribose) polymerase; PARP, DNA repair, inflammation, cell death, structural genomics; NMR {Arabidopsis thaliana}

Probab=99.57  E-value=6e-16  Score=114.66  Aligned_cols=48  Identities=38%  Similarity=0.699  Sum_probs=44.2

Q ss_pred             CCCCCCCCCceeeeccccCCCCC-CCCCCcCCCcCCChhhHHHHHHhhc
Q psy6818           1 SPFFDGKTPKWFHEECFWKKNRP-KALLDIHNVTSLRHQDQEMIKSKIL   48 (162)
Q Consensus         1 s~~fdG~~~~W~H~~Cff~k~~~-~~~~~i~g~~~Lrw~DQ~~i~~~i~   48 (162)
                      +++|||.|++|||+.|||.++.. .++++|+||+.|+||||++|+++|+
T Consensus        43 ~~~~dG~~~~W~H~~Cf~~~~~~i~~~~~I~G~~~L~~eDQ~~I~~~i~   91 (114)
T 1v9x_A           43 STHFDGIMPMWNHASCILKKTKQIKSVDDVEGIESLRWEDQQKIRKYVE   91 (114)
T ss_dssp             CSSSSCCCCEEEEHHHHHTSSSCCSCGGGEETTTTSCHHHHHHHHHHHS
T ss_pred             CcccCCCcceeECccccchhhccCCChHHCCChHHCCHHHHHHHHHHHH
Confidence            57899999999999999988754 6889999999999999999999996

>3od8_A Poly [ADP-ribose] polymerase 1; protein-DNA complex, PARP zinc finger, DNA binding protein-D complex; 2.40A {Homo sapiens} PDB: 3oda_A 4dqy_A*

Probab=99.52  E-value=7.6e-16  Score=114.43  Aligned_cols=48  Identities=38%  Similarity=0.848  Sum_probs=42.1

Q ss_pred             CCCCCCCCCceeeeccccCCCCCC--CCCCcCCCcCCChhhHHHHHHhhc
Q psy6818           1 SPFFDGKTPKWFHEECFWKKNRPK--ALLDIHNVTSLRHQDQEMIKSKIL   48 (162)
Q Consensus         1 s~~fdG~~~~W~H~~Cff~k~~~~--~~~~i~g~~~Lrw~DQ~~i~~~i~   48 (162)
                      +++|||.+++|||++|||+++...  +.++|+||++|+||||++|+++|+
T Consensus        61 ~~~~~G~~~~WyH~~Cf~~~~~~~~~~~~~I~Gfd~L~~eDQekIkk~ie  110 (116)
T 3od8_A           61 SPMFDGKVPHWYHFSCFWKVGHSIRHPDVEVDGFSELRWDDQQKVKKTAE  110 (116)
T ss_dssp             CSSSSSEEEEEEEHHHHHHTCCCCSCHHHHEETGGGSCHHHHHHHHHHHH
T ss_pred             cCCcCCCCCeeECCccChhhhhccCCChhhCcChHHCCHHHHHHHHHHHH
Confidence            578999999999999999876432  247899999999999999999995

>2dmj_A Poly (ADP-ribose) polymerase family, member 1; zinc finger, PARP-1, ADPRT, NAD(+) ADP-ribosyltransferase 1, poly(ADP-ribose) synthetase 1; NMR {Homo sapiens}

Probab=99.47  E-value=5.6e-15  Score=107.95  Aligned_cols=48  Identities=38%  Similarity=0.866  Sum_probs=41.8

Q ss_pred             CCCCCCCCCceeeeccccCCCCC--CCCCCcCCCcCCChhhHHHHHHhhc
Q psy6818           1 SPFFDGKTPKWFHEECFWKKNRP--KALLDIHNVTSLRHQDQEMIKSKIL   48 (162)
Q Consensus         1 s~~fdG~~~~W~H~~Cff~k~~~--~~~~~i~g~~~Lrw~DQ~~i~~~i~   48 (162)
                      +++|||.++.|||+.|||+++..  .+.++|+||++|+||||++|+++|+
T Consensus        48 ~~~~~g~~~~W~H~~Cf~~~~~~~~~~~~~i~G~~~L~~eDq~~i~~~~e   97 (106)
T 2dmj_A           48 SPMFDGKVPHWYHFSCFWKVGHSIRHPDVEVDGFSELRWDDQQKVKKTAE   97 (106)
T ss_dssp             ETTTTEEEEEEEETTHHHHTTCCCSCTTTSEETTTTSCHHHHHHHHHHHH
T ss_pred             CCCCCCCcCEeECcCccchhhccCCCChhhCCChHHCCHHHHHHHHHHHH
Confidence            46899999999999999987532  2567899999999999999999996

>1uw0_A DNA ligase III; DNA repair, zinc finger, PARP-like finger, cell division, DNA replication, nuclear protein; HET: DNA; NMR {Homo sapiens} SCOP: g.39.1.12

Probab=99.42  E-value=2.5e-14  Score=106.25  Aligned_cols=48  Identities=25%  Similarity=0.621  Sum_probs=41.6

Q ss_pred             CCCC--CCCCCceeeeccccCCC--------CCCCCCCcCCCcCCChhhHHHHHHhhc
Q psy6818           1 SPFF--DGKTPKWFHEECFWKKN--------RPKALLDIHNVTSLRHQDQEMIKSKIL   48 (162)
Q Consensus         1 s~~f--dG~~~~W~H~~Cff~k~--------~~~~~~~i~g~~~Lrw~DQ~~i~~~i~   48 (162)
                      +++|  ||.++.|||+.|||.++        .+.++++|+||++|+||||++|+++|+
T Consensus        38 ~~~~~~~g~~~~W~H~~Cf~~k~~~~r~~~~~~~~~~~i~G~~~L~~eDQ~~I~~~i~   95 (117)
T 1uw0_A           38 NPFSESGGDMKEWYHIKCMFEKLERARATTKKIEDLTELEGWEELEDNEKEQITQHIA   95 (117)
T ss_dssp             CTTCSSCCEECCBCCHHHHHHHHHHSCSSSCCSCTTSSSBSTTTSCHHHHHHHHHHHH
T ss_pred             cccccCCCCCCeeECcccchhHHhhhhhhccCCCChHHCcChHHCCHHHHHHHHHHHH
Confidence            4677  89999999999999642        234789999999999999999999996

>3odc_A Poly [ADP-ribose] polymerase 1; protein-DNA complex, PARP zinc finger, DNA binding protein-D complex; 2.80A {Homo sapiens} PDB: 3ode_A 2l31_A

Probab=99.41  E-value=5.9e-15  Score=108.83  Aligned_cols=45  Identities=27%  Similarity=0.581  Sum_probs=39.7

Q ss_pred             CCCCCCceeeeccccCCC-----CC-CCCCCcCCCcCCChhhHHHHHHhhc
Q psy6818           4 FDGKTPKWFHEECFWKKN-----RP-KALLDIHNVTSLRHQDQEMIKSKIL   48 (162)
Q Consensus         4 fdG~~~~W~H~~Cff~k~-----~~-~~~~~i~g~~~Lrw~DQ~~i~~~i~   48 (162)
                      ++|.+++|||++|||.+.     ++ .++++|+||++|+||||++|+++|+
T Consensus        47 ~~G~~~~W~H~~Cf~~~~~~l~~~~~~~~~~I~Gf~~L~~eDQe~Ikk~i~   97 (111)
T 3odc_A           47 QLGMIDRWYHPGCFVKNREELGFRPEYSASQLKGFSLLATEDKEALKKQLP   97 (111)
T ss_dssp             EEEEEEEEECHHHHHHTHHHHTCCTTTGGGGEETGGGSCHHHHHHHHHHSC
T ss_pred             CCCCcceeEChhhccchhhhcccCCCCCHHhCCChHHCCHHHHHHHHHHHH
Confidence            479999999999999864     23 4688999999999999999999995

>2cs2_A Poly [ADP-ribose] polymerase-1; DNA BIND, DNA repair, necrosis, apoptosis, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.35  E-value=8.4e-14  Score=105.71  Aligned_cols=46  Identities=22%  Similarity=0.452  Sum_probs=40.2

Q ss_pred             CCCCCCCceeeeccccCCCC------CCCCCCcCCCcCCChhhHHHHHHhhc
Q psy6818           3 FFDGKTPKWFHEECFWKKNR------PKALLDIHNVTSLRHQDQEMIKSKIL   48 (162)
Q Consensus         3 ~fdG~~~~W~H~~Cff~k~~------~~~~~~i~g~~~Lrw~DQ~~i~~~i~   48 (162)
                      .+||.|++|||+.|||.++.      ..++++|+||++|+||||++|+++|+
T Consensus        54 ~~~G~~~~W~H~~Cf~~~~~~~~~~~~~~~~~I~Gf~~L~~eDQe~I~~~i~  105 (134)
T 2cs2_A           54 PQLGMIDRWYHPGCFVKNREELGFRPEYSASQLKGFSLLATEDKEALKKQLP  105 (134)
T ss_dssp             TTTCEEEEEECHHHHHHTTTTTTCCTTCCGGGEETTTTSCHHHHHHHHTTCC
T ss_pred             CCCCCcceeECcCcChhhhhccccCCCCChHhCCChHHCCHHHHHHHHHHHH
Confidence            35899999999999997642      34678999999999999999999995

>2cur_A Skeletal muscle LIM-protein 1; four and A half LIM domains protein 1, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=85.96  E-value=0.81  Score=28.88  Aligned_cols=32  Identities=31%  Similarity=0.594  Sum_probs=21.1

Q ss_pred             CCCcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCccc
Q psy6818          56 SNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNA  102 (162)
Q Consensus        56 S~Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~  102 (162)
                      +....|.+|++.|.-..|+.               ...-||.+||.=
T Consensus         3 ~~~~~C~~C~~~I~~~~~~a---------------~~~~~H~~CF~C   34 (69)
T 2cur_A            3 SGSSGCVKCNKAITSGGITY---------------QDQPWHADCFVC   34 (69)
T ss_dssp             CCCCCCSSSCCCCCTTCEEE---------------TTEEECTTTTBC
T ss_pred             CCcCCCcccCCEeCcceEEE---------------CccccccCcCEE
Confidence            45678999999997332211               124569999863

>2cup_A Skeletal muscle LIM-protein 1; four and half LIM domains protein 1, LIM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 g.39.1.3

Probab=85.11  E-value=0.54  Score=31.89  Aligned_cols=37  Identities=24%  Similarity=0.582  Sum_probs=25.1

Q ss_pred             eeecCCCcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCcc
Q psy6818          52 EYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFN  101 (162)
Q Consensus        52 EYAkS~Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~  101 (162)
                      -|.+.-..+|.+|++.|..|+..|.           .  ...-||.+||.
T Consensus        60 cy~~~~~~~C~~C~~~I~~~~~~~~-----------a--~~~~~H~~CF~   96 (101)
T 2cup_A           60 CTTREDSPKCKGCFKAIVAGDQNVE-----------Y--KGTVWHKDCFS   96 (101)
T ss_dssp             HHTTCCCCBCSSSCCBCCSSSCEEE-----------S--SSCEEETTTCC
T ss_pred             HhhhhcCCccccCCCccccCCeEEE-----------e--CCcchHHhCCC
Confidence            3444455799999999998765441           1  12357899986

>2d8x_A Protein pinch; LIM domain, pinch protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=84.67  E-value=1.1  Score=28.39  Aligned_cols=32  Identities=28%  Similarity=0.658  Sum_probs=21.4

Q ss_pred             CCCcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCccc
Q psy6818          56 SNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNA  102 (162)
Q Consensus        56 S~Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~  102 (162)
                      ++...|.+|++.|. ++. |  ..           ..+-||.+||.=
T Consensus         3 ~~~~~C~~C~~~I~-~~~-~--~a-----------~~~~~H~~CF~C   34 (70)
T 2d8x_A            3 SGSSGCHQCGEFII-GRV-I--KA-----------MNNSWHPECFRC   34 (70)
T ss_dssp             CCSSBCSSSCCBCC-SCC-E--EE-----------TTEEECTTTSBC
T ss_pred             CCCCcCccCCCEec-ceE-E--EE-----------CcccccccCCEe
Confidence            55678999999997 432 2  10           124669999974

>3f6q_B LIM and senescent cell antigen-like-containing domain protein 1; ILK, integrin-linked kinase, pinch, ankyrin repeat, ANK, IPP; 1.60A {Homo sapiens} PDB: 2kbx_B 3ixe_B

Probab=84.08  E-value=0.81  Score=28.73  Aligned_cols=35  Identities=34%  Similarity=0.570  Sum_probs=24.0

Q ss_pred             ecCCCcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCcc
Q psy6818          54 AKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFN  101 (162)
Q Consensus        54 AkS~Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~  101 (162)
                      .......|.+|++.|..++.-+..             ...-||..||.
T Consensus         7 ~~~~~~~C~~C~~~i~~~e~~~~~-------------~~~~~H~~CF~   41 (72)
T 3f6q_B            7 QGSASATCERCKGGFAPAEKIVNS-------------NGELYHEQCFV   41 (72)
T ss_dssp             CCCTTCBCTTTCCBCCTTCEEEEE-------------TTEEEETTTSS
T ss_pred             cCcCCccchhcCccccCCceEEEe-------------CcCeeCcCCCc
Confidence            334667999999999987644321             12346899987

>1wyh_A SLIM 2, skeletal muscle LIM-protein 2; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=83.99  E-value=0.8  Score=29.03  Aligned_cols=32  Identities=22%  Similarity=0.476  Sum_probs=21.6

Q ss_pred             CcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCccc
Q psy6818          58 RSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNA  102 (162)
Q Consensus        58 Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~  102 (162)
                      ...|.+|++.|..++..|-             ....-||..||.=
T Consensus         5 ~~~C~~C~~~I~~~~~~~~-------------a~~~~~H~~CF~C   36 (72)
T 1wyh_A            5 SSGCSACGETVMPGSRKLE-------------YGGQTWHEHCFLC   36 (72)
T ss_dssp             CCBCSSSCCBCCSSSCEEC-------------STTCCEETTTCBC
T ss_pred             CCCCccCCCccccCccEEE-------------ECccccCcccCeE
Confidence            4689999999987644441             0123568999874

>1x4l_A Skeletal muscle LIM-protein 3; LIM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=83.77  E-value=0.63  Score=29.67  Aligned_cols=35  Identities=34%  Similarity=0.602  Sum_probs=22.6

Q ss_pred             cCCCcccccccccccC--CCeEEEEEeecCCCCcccCCcCeeeecCCccc
Q psy6818          55 KSNRSTCRGCEAKIAK--GEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNA  102 (162)
Q Consensus        55 kS~Ra~Ck~C~~kI~K--geLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~  102 (162)
                      .+....|.+|++.|..  ++..|.             ...+-||.+||.=
T Consensus         2 s~~~~~C~~C~~~I~~~~~~~~~~-------------a~~~~wH~~CF~C   38 (72)
T 1x4l_A            2 SSGSSGCAGCTNPISGLGGTKYIS-------------FEERQWHNDCFNC   38 (72)
T ss_dssp             CSCSCSBTTTTBCCCCSSSCSCEE-------------CSSCEECTTTCBC
T ss_pred             CCCCCCCcCCCccccCCCCcceEE-------------ECCcccCcccCEe
Confidence            3556789999999985  332231             1124568999874

>1x61_A Thyroid receptor interacting protein 6; LIM domain, OPA-interacting protein 1, zyxin related protein 1 (ZRP-1), structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=83.51  E-value=0.66  Score=29.51  Aligned_cols=34  Identities=26%  Similarity=0.622  Sum_probs=22.5

Q ss_pred             CCCcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCccc
Q psy6818          56 SNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNA  102 (162)
Q Consensus        56 S~Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~  102 (162)
                      +....|.+|++.|.-++..|-.             ...-||..||.=
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~a-------------~~~~~H~~CF~C   36 (72)
T 1x61_A            3 SGSSGCGGCGEDVVGDGAGVVA-------------LDRVFHVGCFVC   36 (72)
T ss_dssp             SCCCCCSSSCSCCCSSSCCEEC-------------SSSEECTTTCBC
T ss_pred             CCCCCCccCCCccCCCceEEEE-------------CCCeEcccCCcc
Confidence            3457899999999865443310             123569999863

>1x63_A Skeletal muscle LIM-protein 1; LIM domain, four and A half LIM domains protein 1, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=83.45  E-value=0.91  Score=29.56  Aligned_cols=37  Identities=24%  Similarity=0.597  Sum_probs=24.5

Q ss_pred             eecCCCcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCccc
Q psy6818          53 YAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNA  102 (162)
Q Consensus        53 YAkS~Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~  102 (162)
                      |.+..-..|.+|++.|.-++..|..             ...-||.+||.=
T Consensus        10 y~~~~~~~C~~C~~~I~~~~~~~~a-------------~~~~~H~~CF~C   46 (82)
T 1x63_A           10 TTREDSPKCKGCFKAIVAGDQNVEY-------------KGTVWHKDCFTC   46 (82)
T ss_dssp             CSCCCSCBCSSSCCBCCSSSCEEEC-------------SSCEEETTTCCC
T ss_pred             HccccCCcCccCCcccccCceEEEE-------------CccccccccCch
Confidence            4445457999999999876644411             123458999874

>2cup_A Skeletal muscle LIM-protein 1; four and half LIM domains protein 1, LIM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 g.39.1.3

Probab=82.80  E-value=0.84  Score=30.89  Aligned_cols=36  Identities=25%  Similarity=0.514  Sum_probs=24.2

Q ss_pred             ecCCCcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCccc
Q psy6818          54 AKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNA  102 (162)
Q Consensus        54 AkS~Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~  102 (162)
                      |.+....|.+|++.|..+...|-.             ..+-||..||.=
T Consensus         1 ~s~~~~~C~~C~~~I~~~~~~~~a-------------~~~~~H~~CF~C   36 (101)
T 2cup_A            1 GSSGSSGCVECRKPIGADSKEVHY-------------KNRFWHDTCFRC   36 (101)
T ss_dssp             CCSCCCBCSSSCCBCCSSSCEEEE-------------TTEEEETTTCCC
T ss_pred             CCCCCCcCcccCCcccCCceEEEE-------------CccChhhcCCcc
Confidence            456778999999999754333311             124679999874

>2d8y_A Eplin protein; LIM domain, epithelial protein LOST in neoplasm, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=81.28  E-value=1.6  Score=29.14  Aligned_cols=37  Identities=24%  Similarity=0.618  Sum_probs=25.0

Q ss_pred             eeecCCCcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCccc
Q psy6818          52 EYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNA  102 (162)
Q Consensus        52 EYAkS~Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~  102 (162)
                      .|...+...|..|++.|..+++ |  ..           ...-||..||.=
T Consensus         9 ~~~~~~~~~C~~C~~~I~~~~~-v--~a-----------~~~~~H~~CF~C   45 (91)
T 2d8y_A            9 KFQAPARETCVECQKTVYPMER-L--LA-----------NQQVFHISCFRC   45 (91)
T ss_dssp             CSCSSSSCBCTTTCCBCCTTSE-E--EC-----------SSSEEETTTCBC
T ss_pred             ccCCCCCCcCccCCCccCCcee-E--EE-----------CCCEECCCCCee
Confidence            3455667899999999987663 3  11           123568999874

>1x4k_A Skeletal muscle LIM-protein 3; LIM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=80.87  E-value=0.92  Score=28.72  Aligned_cols=32  Identities=25%  Similarity=0.552  Sum_probs=22.0

Q ss_pred             CcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCccc
Q psy6818          58 RSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNA  102 (162)
Q Consensus        58 Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~  102 (162)
                      -..|..|++.|..++..|-.             ...-||..||.=
T Consensus         5 ~~~C~~C~~~I~~~~~~~~a-------------~~~~~H~~CF~C   36 (72)
T 1x4k_A            5 SSGCQECKKTIMPGTRKMEY-------------KGSSWHETCFIC   36 (72)
T ss_dssp             CCCBSSSCCCCCSSSCEEEE-------------TTEEEETTTTCC
T ss_pred             CCCCccCCCcccCCceEEEE-------------CcCeecccCCcc
Confidence            35899999999876544421             123568999874

---

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	162
d1uw0a_	117	g.39.1.12 (A:) DNA ligase III {Human (Homo sapiens	4e-23
d1uw0a_	117	g.39.1.12 (A:) DNA ligase III {Human (Homo sapiens	6e-06

>d1uw0a_ g.39.1.12 (A:) DNA ligase III {Human (Homo sapiens) [TaxId: 9606]} Length = 117

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: PARP-type zinc finger
domain: DNA ligase III
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 86.2 bits (213), Expect = 4e-23
 Identities = 24/98 (24%), Positives = 45/98 (45%), Gaps = 5/98 (5%)

Query: 51  IEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCF----NAVRLD 106
           ++YAK   + C+ C+ KI KG  R+ K+   +   +  G + EWYH+ C        R  
Sbjct: 8   VDYAKRGTAGCKKCKEKIVKGVCRIGKV-VPNPFSESGGDMKEWYHIKCMFEKLERARAT 66

Query: 107 LEFSASGKQIPGFGSLEKKDQKIVEATLPSLSDGVSKT 144
            +      ++ G+  LE  +++ +   +  LS   + T
Sbjct: 67  TKKIEDLTELEGWEELEDNEKEQITQHIADLSSKAAGT 104

>d1uw0a_ g.39.1.12 (A:) DNA ligase III {Human (Homo sapiens) [TaxId: 9606]} Length = 117

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: PARP-type zinc finger
domain: DNA ligase III
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.1 bits (96), Expect = 6e-06
 Identities = 12/57 (21%), Positives = 24/57 (42%), Gaps = 10/57 (17%)

Query: 1  SPFFD--GKTPKWFHEECFWKKNR--------PKALLDIHNVTSLRHQDQEMIKSKI 47
          +PF +  G   +W+H +C ++K           + L ++     L   ++E I   I
Sbjct: 38 NPFSESGGDMKEWYHIKCMFEKLERARATTKKIEDLTELEGWEELEDNEKEQITQHI 94

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	162
d1uw0a_	117	DNA ligase III {Human (Homo sapiens) [TaxId: 9606]	99.96
d1uw0a_	117	DNA ligase III {Human (Homo sapiens) [TaxId: 9606]	99.41
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	94.79
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	91.79
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	89.53
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	87.28
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	85.98
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	84.88

>d1uw0a_ g.39.1.12 (A:) DNA ligase III {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: PARP-type zinc finger
domain: DNA ligase III
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=5.1e-30  Score=189.23  Aligned_cols=102  Identities=24%  Similarity=0.447  Sum_probs=83.3

Q ss_pred             ceeeecCCCcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCccccc----cccccCCCCCCCCCCcCCCHH
Q psy6818          50 NIEYAKSNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCFNAVR----LDLEFSASGKQIPGFGSLEKK  125 (162)
Q Consensus        50 ~vEYAkS~Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf~~~~----~~~~~~~~~e~I~Gf~~L~~e  125 (162)
                      .|||||||||+|++|+++|+||+||||+++.+++.. .+|.++.|||++||++..    .....+.++++|+||++|+++
T Consensus         7 ~vEyAkS~Ra~Ck~C~~~I~Kg~lRig~~~~~~~~~-~~g~~~~W~H~~Cf~~~~~~~~~~~~~~~~~~~i~G~~~L~~e   85 (117)
T d1uw0a_           7 CVDYAKRGTAGCKKCKEKIVKGVCRIGKVVPNPFSE-SGGDMKEWYHIKCMFEKLERARATTKKIEDLTELEGWEELEDN   85 (117)
T ss_dssp             EEEECCSSCEECTTSSCEECTTCEEEEEEEECTTCS-SCCEECCBCCHHHHHHHHHHSCSSSCCSCTTSSSBSTTTSCHH
T ss_pred             eeEEccCCCcccCCCCccccCCCeEEEEEEeCcccc-cCCCcCccCCcccccchhhcccccccCCCCHHHCCChhhCCHH
Confidence            699999999999999999999999999999887642 246689999999998752    333334578999999999999


Q ss_pred             HHHHHHHHhhccCC----CCCCcccccccee
Q psy6818         126 DQKIVEATLPSLSD----GVSKTDAISHFLL  152 (162)
Q Consensus       126 DQ~~Ik~~~~~~~~----~~~~~~~~~~~~~  152 (162)
                      ||++|+++|+++..    .++|.....++++
T Consensus        86 Dq~~i~~~i~~~~~~~~~~~~kk~~~~~k~~  116 (117)
T d1uw0a_          86 EKEQITQHIADLSSKAAGTPKKKAVVQAKLT  116 (117)
T ss_dssp             HHHHHHHHHHHHHCCSSSCCCCSCCCCCCCC
T ss_pred             HHHHHHHHHHhhccccCCCCCcccchhcccC
Confidence            99999999987743    3466666666654

>d1uw0a_ g.39.1.12 (A:) DNA ligase III {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: PARP-type zinc finger
domain: DNA ligase III
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.41  E-value=1.4e-14  Score=105.67  Aligned_cols=48  Identities=25%  Similarity=0.639  Sum_probs=41.5

Q ss_pred             CCCCC--CCCCceeeeccccCCC--------CCCCCCCcCCCcCCChhhHHHHHHhhc
Q psy6818           1 SPFFD--GKTPKWFHEECFWKKN--------RPKALLDIHNVTSLRHQDQEMIKSKIL   48 (162)
Q Consensus         1 s~~fd--G~~~~W~H~~Cff~k~--------~~~~~~~i~g~~~Lrw~DQ~~i~~~i~   48 (162)
                      +|+||  |.+++|||++|||.+.        .+.++++|+||+.|+||||++|+++|+
T Consensus        38 ~~~~~~~g~~~~W~H~~Cf~~~~~~~~~~~~~~~~~~~i~G~~~L~~eDq~~i~~~i~   95 (117)
T d1uw0a_          38 NPFSESGGDMKEWYHIKCMFEKLERARATTKKIEDLTELEGWEELEDNEKEQITQHIA   95 (117)
T ss_dssp             CTTCSSCCEECCBCCHHHHHHHHHHSCSSSCCSCTTSSSBSTTTSCHHHHHHHHHHHH
T ss_pred             CcccccCCCcCccCCcccccchhhcccccccCCCCHHHCCChhhCCHHHHHHHHHHHH
Confidence            57887  8899999999998752        234678999999999999999999995

>d1rutx3 g.39.1.3 (X:83-113) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.79  E-value=0.006  Score=33.51  Aligned_cols=30  Identities=30%  Similarity=0.712  Sum_probs=23.3

Q ss_pred             CcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCc
Q psy6818          58 RSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCF  100 (162)
Q Consensus        58 Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf  100 (162)
                      -..|.+|++.|...|+-+-.             ...=||+.||
T Consensus         2 ~g~Ca~C~~~I~~~e~VmRA-------------~~~VyHl~CF   31 (31)
T d1rutx3           2 SGACSACGQSIPASELVMRA-------------QGNVYHLKCF   31 (31)
T ss_dssp             CEECTTTCCEECTTSEEEEE-------------TTEEECGGGC
T ss_pred             CcccccccCcCChhHhheec-------------ccceeeeccC
Confidence            35799999999999876521             2458999998

>d2dloa1 g.39.1.3 (A:8-42) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.79  E-value=0.1  Score=29.11  Aligned_cols=30  Identities=27%  Similarity=0.628  Sum_probs=23.9

Q ss_pred             CCCcccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCc
Q psy6818          56 SNRSTCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCF  100 (162)
Q Consensus        56 S~Ra~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf  100 (162)
                      +.-.+|..|++.|..--||-               ..+=||+.||
T Consensus         6 ~tlEkC~~C~~~I~driLrA---------------~Gk~yHP~CF   35 (35)
T d2dloa1           6 ATLEKCATCSQPILDRILRA---------------MGKAYHPGCF   35 (35)
T ss_dssp             SSCCBCTTTCCBCCSCCEEE---------------TTEEECTTTC
T ss_pred             HHHHHHHHhchHHHHHHHHH---------------hCCCCCCCCC
Confidence            34578999999999887776               2357999998

>d1x3ha1 g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Leupaxin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.53  E-value=0.15  Score=28.25  Aligned_cols=27  Identities=22%  Similarity=0.715  Sum_probs=18.3

Q ss_pred             cccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCc
Q psy6818          59 STCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCF  100 (162)
Q Consensus        59 a~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf  100 (162)
                      .+|.+|++.|.-.-|.-               +..=||++||
T Consensus         9 pkC~~C~~~I~g~~v~A---------------l~~~wHpeCF   35 (35)
T d1x3ha1           9 PKCGGCNRPVLENYLSA---------------MDTVWHPECF   35 (35)
T ss_dssp             CBCTTTCCBCCSSCEEE---------------TTEEECTTTC
T ss_pred             hhhhhcCCcccchheee---------------cCCccCcccC
Confidence            58999999996432211               2345799998

>d2dj7a2 g.39.1.3 (A:8-43) Actin-binding LIM protein 3, abLIM-3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 3, abLIM-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.28  E-value=0.33  Score=26.88  Aligned_cols=21  Identities=29%  Similarity=0.699  Sum_probs=17.1

Q ss_pred             CCCcccccccccccCCCeEEE
Q psy6818          56 SNRSTCRGCEAKIAKGEIRVS   76 (162)
Q Consensus        56 S~Ra~Ck~C~~kI~KgeLRig   76 (162)
                      ++-+.|.+|++.|..|+-=++
T Consensus         6 ~g~~~CagCg~eik~gQaL~A   26 (36)
T d2dj7a2           6 RGPSHCAGCKEEIKHGQSLLA   26 (36)
T ss_dssp             SSCSCCTTTCCCCSSSCCEEE
T ss_pred             cCCccccccchhhhCCceeee
Confidence            466889999999999976663

>d1x63a1 g.39.1.3 (A:8-44) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.98  E-value=0.34  Score=27.16  Aligned_cols=23  Identities=26%  Similarity=0.674  Sum_probs=17.5

Q ss_pred             eecCCCcccccccccccCCCeEE
Q psy6818          53 YAKSNRSTCRGCEAKIAKGEIRV   75 (162)
Q Consensus        53 YAkS~Ra~Ck~C~~kI~KgeLRi   75 (162)
                      |++---++|.+|+++|.-|.=.|
T Consensus         3 y~~~~a~~C~~C~k~I~~G~k~v   25 (37)
T d1x63a1           3 TTREDSPKCKGCFKAIVAGDQNV   25 (37)
T ss_dssp             CSCCCSCBCSSSCCBCCSSSCEE
T ss_pred             cccccCcccccCCCccCCCCeEe
Confidence            33444578999999999997666

>d1x62a2 g.39.1.3 (A:8-42) PDZ and LIM domain protein 1 Elfin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 1 Elfin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.88  E-value=0.27  Score=27.03  Aligned_cols=27  Identities=19%  Similarity=0.479  Sum_probs=18.5

Q ss_pred             cccccccccccCCCeEEEEEeecCCCCcccCCcCeeeecCCc
Q psy6818          59 STCRGCEAKIAKGEIRVSKMNYDSDQGKMIGGIPEWYHLSCF  100 (162)
Q Consensus        59 a~Ck~C~~kI~KgeLRig~~~~~~~~~~~~g~~~~WyH~~Cf  100 (162)
                      ..|-+|+.-|.---+++               ....||++||
T Consensus         9 p~CdkCg~GIVG~~VK~---------------rDk~rHPeCf   35 (35)
T d1x62a2           9 PMCDKCGTGIVGVFVKL---------------RDRHRHPECY   35 (35)
T ss_dssp             CCCSSSCCCCCSSCEEC---------------SSCEECTTTT
T ss_pred             ccccccCCCcEeEEEEe---------------ccccCCCCCC
Confidence            46888988775433222               2469999997