BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 037230
(815 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4DQY|C Chain C, Structure Of Human Parp-1 Bound To A Dna Double Strand
Break
pdb|4DQY|F Chain F, Structure Of Human Parp-1 Bound To A Dna Double Strand
Break
Length = 506
Score = 187 bits (475), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 148/504 (29%), Positives = 244/504 (48%), Gaps = 27/504 (5%)
Query: 307 LKLYGKRGVYKDTKLQEQGGKILEKDGILYNCAFSLCDQGRGMNLYCIVQLITVPDSNLH 366
L L G V D+ L E +LEK G +++ L D +G N Y +QL+ N +
Sbjct: 9 LTLKGGAAVDPDSGL-EHSAHVLEKGGKVFSATLGLVDIVKGTNSYYKLQLLEDDKENRY 67
Query: 367 LYYKK-GKVGDDPNAEERLEEWTGVDNAIKEFVRLFEEVTGNEFEPWEREKKFQKKPLKF 425
++ G+VG + +LE+ ++AI+ F++L+EE TGN + K F K P KF
Sbjct: 68 WIFRSWGRVGTVIGSN-KLEQMPSKEDAIEHFMKLYEEKTGNAW----HSKNFTKYPKKF 122
Query: 426 YPIDMDDGVEVRHGGLGMRQLGV-AAAHSKLDPVVANFMKVLCSQEVYRYALMEMGLDAP 484
YP+++D G + +++L V SKL V + +K++ E + A++E +D
Sbjct: 123 YPLEIDYGQDEE----AVKKLTVNPGTKSKLPKPVQDLIKMIFDVESMKKAMVEYEIDLQ 178
Query: 485 DLPIGMLSNVHLNRCEEVLQQFIEAVKSTKETGQKAEAIWTDFSNRWFTLM---HSLRPF 541
+P+G LS + +L + +AV Q D SNR++TL+ ++
Sbjct: 179 KMPLGKLSKRQIQAAYSILSEVQQAVSQGSSDSQ-----ILDLSNRFYTLIPHDFGMKKP 233
Query: 542 IFRDNQEIADHAASSFEAVRDITVASHLIGDMSGSTLDDPLSDCYEKLACSISALEKDSD 601
+N + A + + DI VA L+ S + DP+ YEKL I +++DS+
Sbjct: 234 PLLNNADSVQAKAEMLDNLLDIEVAYSLLRGGSDDSSKDPIDVNYEKLKTDIKVVDRDSE 293
Query: 602 DYKMIVNYLEKTYEPVKLGDIEYGVSVDNIFVIESNAQ-PSLDEIKKLPNKVLLWCGTRS 660
+ ++I Y++ T+ Y + V +IF IE + K+L N+ LLW G+R+
Sbjct: 294 EAEIIRKYVKNTHATTHNA---YDLEVIDIFKIEREGECQRYKPFKQLHNRRLLWHGSRT 350
Query: 661 SNLLRHLQKGFLPASCSLPVPGYMFGRAIVCSDAAAEAARYGFTAADRPEGFLVLAVASL 720
+N L +G A PV GYMFG+ I +D +++A Y T+ P G ++L +L
Sbjct: 351 TNFAGILSQGLRIAPPEAPVTGYMFGKGIYFADMVSKSANYCHTSQGDPIGLILLGEVAL 410
Query: 721 GDQVTELKKPPEDTKSLEDXXXXXXXXXXXXTDESEHFFWNDDIKVPGGRLIPSEHKNSP 780
G+ + ELK +K L D S + D + VP G I S ++
Sbjct: 411 GN-MYELKHASHISK-LPKGKHSVKGLGKTTPDPSANISL-DGVDVPLGTGISSGVNDTS 467
Query: 781 LEYNEYAVYDPKQTSIRFLVGVKF 804
L YNEY VYD Q ++++L+ +KF
Sbjct: 468 LLYNEYIVYDIAQVNLKYLLKLKF 491
>pdb|2RD6|A Chain A, Parp Complexed With A861695
pdb|3GJW|A Chain A, Parp Complexed With A968427
pdb|3GN7|A Chain A, Parp Complexed With A861696
pdb|3L3M|A Chain A, Parp Complexed With A927929
pdb|3L3L|A Chain A, Parp Complexed With A906894
Length = 350
Score = 135 bits (341), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 103/356 (28%), Positives = 170/356 (47%), Gaps = 15/356 (4%)
Query: 453 SKLDPVVANFMKVLCSQEVYRYALMEMGLDAPDLPIGMLSNVHLNRCEEVLQQFIEAVKS 512
SKL V + +K++ E + A++E +D +P+G LS + +L + +AV
Sbjct: 2 SKLPKPVQDLIKMIFDVESMKKAMVEYEIDLQKMPLGKLSKRQIQAAYSILSEVQQAVSQ 61
Query: 513 TKETGQKAEAIWTDFSNRWFTLM---HSLRPFIFRDNQEIADHAASSFEAVRDITVASHL 569
Q D SNR++TL+ ++ +N + A + + DI VA L
Sbjct: 62 GSSDSQ-----ILDLSNRFYTLIPHDFGMKKPPLLNNADSVQAKAEMLDNLLDIEVAYSL 116
Query: 570 IGDMSGSTLDDPLSDCYEKLACSISALEKDSDDYKMIVNYLEKTYEPVKLGDIEYGVSVD 629
+ S + DP+ YEKL I +++DS++ ++I Y++ T+ Y + V
Sbjct: 117 LRGGSDDSSKDPIDVNYEKLKTDIKVVDRDSEEAEIIRKYVKNTHATTHNA---YDLEVI 173
Query: 630 NIFVIESNAQ-PSLDEIKKLPNKVLLWCGTRSSNLLRHLQKGFLPASCSLPVPGYMFGRA 688
+IF IE + K+L N+ LLW G+R++N L +G A PV GYMFG+
Sbjct: 174 DIFKIEREGECQRYKPFKQLHNRRLLWHGSRTTNFAGILSQGLRIAPPEAPVTGYMFGKG 233
Query: 689 IVCSDAAAEAARYGFTAADRPEGFLVLAVASLGDQVTELKKPPEDTKSLEDXXXXXXXXX 748
I +D +++A Y T+ P G ++L +LG+ + ELK +K L
Sbjct: 234 IYFADMVSKSANYCHTSQGDPIGLILLGEVALGN-MYELKHASHISK-LPKGKHSVKGLG 291
Query: 749 XXXTDESEHFFWNDDIKVPGGRLIPSEHKNSPLEYNEYAVYDPKQTSIRFLVGVKF 804
D S + D + VP G I S ++ L YNEY VYD Q ++++L+ +KF
Sbjct: 292 KTTPDPSANISL-DGVDVPLGTGISSGVNDTSLLYNEYIVYDIAQVNLKYLLKLKF 346
>pdb|1A26|A Chain A, The Catalytic Fragment Of Poly(Adp-Ribose) Polymerase
Complexed With Carba-Nad
pdb|1PAX|A Chain A, The Catalytic Fragment Of Poly(Adp-Ribose) Polymerase
Complexed With 3,4-Dihydro-5-Methyl-Isoquinolinone
pdb|2PAW|A Chain A, The Catalytic Fragment Of Poly(Adp-Ribose) Polymerase
pdb|2PAX|A Chain A, The Catalytic Fragment Of Poly(Adp-Ribose) Polymerase
Complexed With 4-Amino-1,8-Naphthalimide
pdb|3PAX|A Chain A, The Catalytic Fragment Of Poly(Adp-Ribose) Polymerase
Complexed With 3-Methoxybenzamide
pdb|4PAX|A Chain A, The Catalytic Fragment Of Poly(Adp-Ribose) Polymerase
Complexed With
8-Hydroxy-2-Methyl-3-Hydro-Quinazolin-4-One
Length = 361
Score = 134 bits (337), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 101/363 (27%), Positives = 172/363 (47%), Gaps = 15/363 (4%)
Query: 449 AAAHSKLDPVVANFMKVLCSQEVYRYALMEMGLDAPDLPIGMLSNVHLNRCEEVLQQFIE 508
A SKL + + +K++ E + A++E +D +P+G LS + +L + +
Sbjct: 6 AGTKSKLAKPIQDLIKMIFDVESMKKAMVEFEIDLQKMPLGKLSKRQIQSAYSILNEVQQ 65
Query: 509 AVKSTKETGQKAEAIWTDFSNRWFTLM---HSLRPFIFRDNQEIADHAASSFEAVRDITV 565
AV + G +++ + D SNR++TL+ ++ N E + + DI V
Sbjct: 66 AVS---DGGSESQIL--DLSNRFYTLIPHDFGMKKPPLLSNLEYIQAKVQMLDNLLDIEV 120
Query: 566 ASHLIGDMSGSTLDDPLSDCYEKLACSISALEKDSDDYKMIVNYLEKTYEPVKLGDIEYG 625
A L+ + DP+ YEKL I ++KDS++ K+I Y++ T+ Y
Sbjct: 121 AYSLLRGGNEDGDKDPIDINYEKLRTDIKVVDKDSEEAKIIKQYVKNTHAATHNA---YD 177
Query: 626 VSVDNIFVIESNAQPS-LDEIKKLPNKVLLWCGTRSSNLLRHLQKGFLPASCSLPVPGYM 684
+ V IF IE + K+L N+ LLW G+R++N L +G A PV GYM
Sbjct: 178 LKVVEIFRIEREGESQRYKPFKQLHNRQLLWHGSRTTNFAGILSQGLRIAPPEAPVTGYM 237
Query: 685 FGRAIVCSDAAAEAARYGFTAADRPEGFLVLAVASLGDQVTELKKPPEDTKSLEDXXXXX 744
FG+ I +D +++A Y T+ P G ++L +LG+ + ELK TK +
Sbjct: 238 FGKGIYFADMVSKSANYCHTSQADPIGLILLGEVALGN-MYELKNASHITKLPKGKHSVK 296
Query: 745 XXXXXXXTDESEHFFWNDDIKVPGGRLIPSEHKNSPLEYNEYAVYDPKQTSIRFLVGVKF 804
+ D ++VP G I + ++ L YNEY VYD Q ++++L+ +KF
Sbjct: 297 GLGKTAPDPTATTTL--DGVEVPLGNGISTGINDTCLLYNEYIVYDVAQVNLKYLLKLKF 354
Query: 805 EER 807
+
Sbjct: 355 NYK 357
>pdb|1UK0|A Chain A, Crystal Structure Of Catalytic Domain Of Human Poly(Adp-
Ribose) Polymerase With A Novel Inhibitor
pdb|1UK0|B Chain B, Crystal Structure Of Catalytic Domain Of Human Poly(Adp-
Ribose) Polymerase With A Novel Inhibitor
pdb|1UK1|A Chain A, Crystal Structure Of Human Poly(Adp-Ribose) Polymerase
Complexed With A Potent Inhibitor
pdb|1UK1|B Chain B, Crystal Structure Of Human Poly(Adp-Ribose) Polymerase
Complexed With A Potent Inhibitor
pdb|1WOK|A Chain A, Crystal Structure Of Catalytic Domain Of Human Poly(Adp-
Ribose) Polymerase Complexed With A Quinoxaline-Type
Inhibitor
pdb|1WOK|B Chain B, Crystal Structure Of Catalytic Domain Of Human Poly(Adp-
Ribose) Polymerase Complexed With A Quinoxaline-Type
Inhibitor
pdb|1WOK|C Chain C, Crystal Structure Of Catalytic Domain Of Human Poly(Adp-
Ribose) Polymerase Complexed With A Quinoxaline-Type
Inhibitor
pdb|1WOK|D Chain D, Crystal Structure Of Catalytic Domain Of Human Poly(Adp-
Ribose) Polymerase Complexed With A Quinoxaline-Type
Inhibitor
pdb|2RCW|A Chain A, Parp Complexed With A620223
Length = 350
Score = 134 bits (337), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 102/356 (28%), Positives = 169/356 (47%), Gaps = 15/356 (4%)
Query: 453 SKLDPVVANFMKVLCSQEVYRYALMEMGLDAPDLPIGMLSNVHLNRCEEVLQQFIEAVKS 512
SKL V + +K++ E + A++E +D +P+G LS + +L + +AV
Sbjct: 2 SKLPKPVQDLIKMIFDVESMKKAMVEYEIDLQKMPLGKLSKRQIQAAYSILSEVQQAVSQ 61
Query: 513 TKETGQKAEAIWTDFSNRWFTLM---HSLRPFIFRDNQEIADHAASSFEAVRDITVASHL 569
Q D SNR++TL+ ++ +N + + + DI VA L
Sbjct: 62 GSSDSQ-----ILDLSNRFYTLIPHDFGMKKPPLLNNADSVQAKVEMLDNLLDIEVAYSL 116
Query: 570 IGDMSGSTLDDPLSDCYEKLACSISALEKDSDDYKMIVNYLEKTYEPVKLGDIEYGVSVD 629
+ S + DP+ YEKL I +++DS++ ++I Y++ T+ Y + V
Sbjct: 117 LRGGSDDSSKDPIDVNYEKLKTDIKVVDRDSEEAEIIRKYVKNTHATTHNA---YDLEVI 173
Query: 630 NIFVIESNAQ-PSLDEIKKLPNKVLLWCGTRSSNLLRHLQKGFLPASCSLPVPGYMFGRA 688
+IF IE + K+L N+ LLW G+R++N L +G A PV GYMFG+
Sbjct: 174 DIFKIEREGECQRYKPFKQLHNRRLLWHGSRTTNFAGILSQGLRIAPPEAPVTGYMFGKG 233
Query: 689 IVCSDAAAEAARYGFTAADRPEGFLVLAVASLGDQVTELKKPPEDTKSLEDXXXXXXXXX 748
I +D +++A Y T+ P G ++L +LG+ + ELK +K L
Sbjct: 234 IYFADMVSKSANYCHTSQGDPIGLILLGEVALGN-MYELKHASHISK-LPKGKHSVKGLG 291
Query: 749 XXXTDESEHFFWNDDIKVPGGRLIPSEHKNSPLEYNEYAVYDPKQTSIRFLVGVKF 804
D S + D + VP G I S ++ L YNEY VYD Q ++++L+ +KF
Sbjct: 292 KTTPDPSANISL-DGVDVPLGTGISSGVNDTSLLYNEYIVYDIAQVNLKYLLKLKF 346
>pdb|1EFY|A Chain A, Crystal Structure Of The Catalytic Fragment Of Poly (Adp-
Ribose) Polymerase Complexed With A Benzimidazole
Inhibitor
Length = 350
Score = 132 bits (333), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 100/359 (27%), Positives = 169/359 (47%), Gaps = 15/359 (4%)
Query: 453 SKLDPVVANFMKVLCSQEVYRYALMEMGLDAPDLPIGMLSNVHLNRCEEVLQQFIEAVKS 512
SKL + + +K++ E + A++E +D +P+G LS + +L + +AV
Sbjct: 2 SKLAKPIQDLIKMIFDVESMKKAMVEFEIDLQKMPLGKLSKRQIQSAYSILNEVQQAV-- 59
Query: 513 TKETGQKAEAIWTDFSNRWFTLM---HSLRPFIFRDNQEIADHAASSFEAVRDITVASHL 569
+ +E+ D SNR++TL+ ++ N E + + DI VA L
Sbjct: 60 ---SDGGSESQILDLSNRFYTLIPHDFGMKKPPLLSNLEYIQAKVQMLDNLLDIEVAYSL 116
Query: 570 IGDMSGSTLDDPLSDCYEKLACSISALEKDSDDYKMIVNYLEKTYEPVKLGDIEYGVSVD 629
+ + DP+ YEKL I ++KDS++ K+I Y++ T+ Y + V
Sbjct: 117 LRGGNEDGDKDPIDINYEKLRTDIKVVDKDSEEAKIIKQYVKNTHAATHNA---YDLKVV 173
Query: 630 NIFVIESNAQPS-LDEIKKLPNKVLLWCGTRSSNLLRHLQKGFLPASCSLPVPGYMFGRA 688
IF IE + K+L N+ LLW G+R++N L +G A PV GYMFG+
Sbjct: 174 EIFRIEREGESQRYKPFKQLHNRQLLWHGSRTTNFAGILSQGLRIAPPEAPVTGYMFGKG 233
Query: 689 IVCSDAAAEAARYGFTAADRPEGFLVLAVASLGDQVTELKKPPEDTKSLEDXXXXXXXXX 748
I +D +++A Y T+ P G ++L +LG+ + ELK TK +
Sbjct: 234 IYFADMVSKSANYCHTSQADPIGLILLGEVALGN-MYELKNASHITKLPKGKHSVKGLGK 292
Query: 749 XXXTDESEHFFWNDDIKVPGGRLIPSEHKNSPLEYNEYAVYDPKQTSIRFLVGVKFEER 807
+ D ++VP G I + ++ L YNEY VYD Q ++++L+ +KF +
Sbjct: 293 TAPDPTATTTL--DGVEVPLGNGISTGINDTCLLYNEYIVYDVAQVNLKYLLKLKFNYK 349
>pdb|1GS0|A Chain A, Crystal Structure Of The Catalytic Fragment Of Murine Poly
(Adp-Ribose) Polymerase-2
pdb|1GS0|B Chain B, Crystal Structure Of The Catalytic Fragment Of Murine Poly
(Adp-Ribose) Polymerase-2
Length = 351
Score = 129 bits (325), Expect = 5e-30, Method: Compositional matrix adjust.
Identities = 96/362 (26%), Positives = 173/362 (47%), Gaps = 26/362 (7%)
Query: 453 SKLDPVVANFMKVLCSQEVYRYALMEMGLDAPDLPIGMLSNVHLNRCEEVLQQFIEAVKS 512
S+LD V +K++C+ + ++EM D P+G L+ + + L++ + +++
Sbjct: 2 SQLDLRVQELLKLICNVQTMEEMMIEMKYDTKRAPLGKLTVAQIKAGYQSLKKIEDCIRA 61
Query: 513 TKETGQKAEAIWTDFSNRWFTLM-HSLR---PFIFRDNQEIADHAASSFEAVRDITVASH 568
GQ A+ + N ++T + H P + R +E++D EA+ DI +A
Sbjct: 62 ----GQHGRAL-VEACNEFYTRIPHDFGLSIPPVIRTEKELSD-KVKLLEALGDIEIALK 115
Query: 569 LIGDMSGSTLDDPLSDCYEKLACSISALEKDSDDYKMIVNYLEKTYEPVKLGDIEYGVSV 628
L+ L+ PL Y L C++ L+ +S+++K+I YL+ T+ P +Y +++
Sbjct: 116 LVKS-ERQGLEHPLDQHYRNLHCALRPLDHESNEFKVISQYLQSTHAPT---HKDYTMTL 171
Query: 629 DNIFVIESNAQPSLDEIKKLPNKVLLWCGTRSSNLLRHLQKGFLPASCSLPVPGYMFGRA 688
++F +E + + LPN++LLW G+R SN + L G A P+ GYMFG+
Sbjct: 172 LDVFEVEKEGEKEAFR-EDLPNRMLLWHGSRLSNWVGILSHGLRVAPPEAPITGYMFGKG 230
Query: 689 IVCSDAAAEAARYGFTAADRPEGFLVLAVASLGDQVTELKKPPEDTKSLEDXXXXXXXXX 748
I +D ++++A Y F + + G L+L+ +LG L+ P+ L
Sbjct: 231 IYFADMSSKSANYCFASRLKNTGLLLLSEVALGQCNELLEANPKAQGLLRGKHSTKGMGK 290
Query: 749 XXXTDESEHFFWNDDIKVP------GGRLIPSEHKNSPLEYNEYAVYDPKQTSIRFLVGV 802
+ HF + VP G L P + L YNE+ VY P Q +R+L+ +
Sbjct: 291 MAPS--PAHFITLNGSTVPLGPASDTGILNPEGYT---LNYNEFIVYSPNQVRMRYLLKI 345
Query: 803 KF 804
+F
Sbjct: 346 QF 347
>pdb|3KCZ|A Chain A, Human Poly(Adp-Ribose) Polymerase 2, Catalytic Fragment In
Complex With An Inhibitor 3-Aminobenzamide
pdb|3KCZ|B Chain B, Human Poly(Adp-Ribose) Polymerase 2, Catalytic Fragment In
Complex With An Inhibitor 3-Aminobenzamide
pdb|3KJD|A Chain A, Human Poly(Adp-Ribose) Polymerase 2, Catalytic Fragment In
Complex With An Inhibitor Abt-888
pdb|3KJD|B Chain B, Human Poly(Adp-Ribose) Polymerase 2, Catalytic Fragment In
Complex With An Inhibitor Abt-888
Length = 368
Score = 115 bits (288), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 96/360 (26%), Positives = 174/360 (48%), Gaps = 26/360 (7%)
Query: 455 LDPVVANFMKVLCSQEVYRYALMEMGLDAPDLPIGMLSNVHLNRCEEVLQQFIEAVKSTK 514
+D V +K++C+ + +MEM + P+G L+ + + L++ + +++
Sbjct: 23 MDLRVQELIKLICNVQAMEEMMMEMKYNTKKAPLGKLTVAQIKAGYQSLKKIEDCIRA-- 80
Query: 515 ETGQKAEAIWTDFSNRWFTLM---HSLR-PFIFRDNQEIADHAASSFEAVRDITVASHLI 570
GQ A+ + N ++T + LR P + R +E+++ EA+ DI +A L+
Sbjct: 81 --GQHGRALM-EACNEFYTRIPHDFGLRTPPLIRTQKELSE-KIQLLEALGDIEIAIKLV 136
Query: 571 GDMSGSTLDDPLSDCYEKLACSISALEKDSDDYKMIVNYLEKTYEPVKLGDIEYGVSVDN 630
S + PL Y L C++ L+ +S ++K+I YL+ T+ P +Y +++ +
Sbjct: 137 KTELQSP-EHPLDQHYRNLHCALRPLDHESYEFKVISQYLQSTHAPTH---SDYTMTLLD 192
Query: 631 IFVIESNAQPSLDEIKKLPNKVLLWCGTRSSNLLRHLQKGFLPASCSLPVPGYMFGRAIV 690
+F +E + + + L N++LLW G+R SN + L G A P+ GYMFG+ I
Sbjct: 193 LFEVEKDGEKEAFR-EDLHNRMLLWHGSRMSNWVGILSHGLRIAHPEAPITGYMFGKGIY 251
Query: 691 CSDAAAEAARYGFTAADRPEGFLVLAVASLGDQVTELKKPPEDTKSLEDXXXXXXXXXXX 750
+D ++++A Y F + + G L+L+ +LG L+ P+ L+
Sbjct: 252 FADMSSKSANYCFASRLKNTGLLLLSEVALGQCNELLEANPKAEGLLQGKHSTKGLGKMA 311
Query: 751 XTDESEHFFWNDDIKVP------GGRLIPSEHKNSPLEYNEYAVYDPKQTSIRFLVGVKF 804
+ S HF + VP G L P + L YNEY VY+P Q +R+L+ V+F
Sbjct: 312 PS--SAHFVTLNGSTVPLGPASDTGILNPDGYT---LNYNEYIVYNPNQVRMRYLLKVQF 366
>pdb|3C49|A Chain A, Human Poly(Adp-Ribose) Polymerase 3, Catalytic Fragment In
Complex With An Inhibitor Ku0058948
pdb|3C4H|A Chain A, Human Poly(Adp-Ribose) Polymerase 3, Catalytic Fragment In
Complex With An Inhibitor Dr2313
pdb|3CE0|A Chain A, Human Poly(Adp-Ribose) Polymerase 3, Catalytic Fragment In
Complex With An Inhibitor Pj34
pdb|3FHB|A Chain A, Human Poly(Adp-Ribose) Polymerase 3, Catalytic Fragment In
Complex With An Inhibitor 3-Aminobenzoic Acid
Length = 357
Score = 65.1 bits (157), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 89/367 (24%), Positives = 153/367 (41%), Gaps = 39/367 (10%)
Query: 455 LDPVVANFMKVLCSQEVYRYALMEMGLDAPDLPIGMLSNVHLNRCEEVLQQFIEAVKSTK 514
LDP + + S+E+++ + M LD +P+G LS + R E L+ EA+K
Sbjct: 10 LDPATQKLITNIFSKEMFKNTMALMDLDVKKMPLGKLSKQQIARGFEALEALEEALKGPT 69
Query: 515 ETGQKAEAIWTDFSNRWFTLM-----HSLRPFIFRDNQEIADHAASSFEAVRDITVASHL 569
+ GQ E + S+ ++T++ HS P I ++ E+ + DI +A L
Sbjct: 70 DGGQSLE----ELSSHFYTVIPHNFGHSQPPPI--NSPELLQAKKDMLLVLADIELAQAL 123
Query: 570 IG----DMSGSTLDDPLSDCYEKLACSISALEKDSDDYKMIVNYLEKTYEPVKLGDIEYG 625
+ + + PL Y+ L C + L+ + +YK+I YLE+T G
Sbjct: 124 QAVSEQEKTVEEVPHPLDRDYQLLKCQLQLLDSGAPEYKVIQTYLEQT------GSNHRC 177
Query: 626 VSVDNIF-VIESNAQPSLDEIKKLPNKVLLWCGTRSSNLLRHLQKGFLPASCSLPVPGYM 684
++ +I+ V + + KL N+ LLW GT + + L G +P G
Sbjct: 178 PTLQHIWKVNQEGEEDRFQAHSKLGNRKLLWHGTNMAVVAAILTSGLR----IMPHSGGR 233
Query: 685 FGRAIVCSDAAAEAARY--GFTAADRPEGFLVLAVASLGDQV------TELKKPPEDTKS 736
G+ I + +++A Y G G++ L +LG + LK PP
Sbjct: 234 VGKGIYFASENSKSAGYVIGMKCGAHHVGYMFLGEVALGREHHINTDNPSLKSPPPGF-- 291
Query: 737 LEDXXXXXXXXXXXXTDESEHFFWNDDIKVPGGRLIP-SEHKNSPLEYNEYAVYDPKQTS 795
D T ++E + VP G+ +P E +S +EY +Y Q
Sbjct: 292 --DSVIARGHTEPDPTQDTELELDGQQVVVPQGQPVPCPEFSSSTFSQSEYLIYQESQCR 349
Query: 796 IRFLVGV 802
+R+L+ V
Sbjct: 350 LRYLLEV 356
>pdb|2CR9|A Chain A, Solution Structure Of Wgr Domain Of Poly(Adp-Ribose)
Polymerase-1
Length = 139
Score = 60.1 bits (144), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 41/125 (32%), Positives = 66/125 (52%), Gaps = 7/125 (5%)
Query: 307 LKLYGKRGVYKDTKLQEQGGKILEKDGILYNCAFSLCDQGRGMNLYCIVQLITVPDSNLH 366
L L G V D+ L E +LEK G +++ L D +G N Y +QL+ N +
Sbjct: 15 LTLKGGAAVDPDSGL-EHSAHVLEKGGKVFSATLGLVDIVKGTNSYYKLQLLEDDKENRY 73
Query: 367 LYYKK-GKVGDDPNAEERLEEWTGVDNAIKEFVRLFEEVTGNEFEPWEREKKFQKKPLKF 425
++ G+VG + +LE+ ++AI+ F++L+EE TGN + K F K P KF
Sbjct: 74 WIFRSWGRVGTVIGSN-KLEQMPSKEDAIEHFMKLYEEKTGNAW----HSKNFTKYPKKF 128
Query: 426 YPIDM 430
YP+++
Sbjct: 129 YPLEI 133
>pdb|2RIQ|A Chain A, Crystal Structure Of The Third Zinc-Binding Domain Of
Human Parp-1
pdb|4DQY|B Chain B, Structure Of Human Parp-1 Bound To A Dna Double Strand
Break
pdb|4DQY|E Chain E, Structure Of Human Parp-1 Bound To A Dna Double Strand
Break
Length = 160
Score = 52.8 bits (125), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 39/79 (49%)
Query: 76 SAEQMREILELNGQDSSGSDVAVVTKCLDMLFYGPLDKCPVCNGNLEFDGKRYSCKGMYS 135
S ++E+L N Q + A++ + D + +G L C C+G L F Y C G +
Sbjct: 43 STNDLKELLIFNKQQVPSGESAILDRVADGMVFGALLPCEECSGQLVFKSDAYYCTGDVT 102
Query: 136 EWSTCTFRTKDPPRKQEPT 154
W+ C +T+ P RK+ T
Sbjct: 103 AWTKCMVKTQTPNRKEWVT 121
>pdb|2JVN|A Chain A, Domain C Of Human Parp-1
Length = 126
Score = 52.4 bits (124), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 39/79 (49%)
Query: 76 SAEQMREILELNGQDSSGSDVAVVTKCLDMLFYGPLDKCPVCNGNLEFDGKRYSCKGMYS 135
S ++E+L N Q + A++ + D + +G L C C+G L F Y C G +
Sbjct: 25 STNDLKELLIFNKQQVPSGESAILDRVADGMVFGALLPCEECSGQLVFKSDAYYCTGDVT 84
Query: 136 EWSTCTFRTKDPPRKQEPT 154
W+ C +T+ P RK+ T
Sbjct: 85 AWTKCMVKTQTPNRKEWVT 103
>pdb|2COK|A Chain A, Solution Structure Of Brct Domain Of Poly(Adp-Ribose)
Polymerase-1
Length = 113
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 188 KPFTGMTISLMGRLSRTHQYWRTTIEKHGGKVAASPIGLTCLVASPAERERGGSSKLVEA 247
KP + M I +G+LSR + IEK GGK+ + + +++ E E+ + K+ E
Sbjct: 9 KPLSNMKILTLGKLSRNKDEVKAMIEKLGGKLTGTANKASLCISTKKEVEK-MNKKMEEV 67
Query: 248 MERGTRVVSEAWLID 262
E RVVSE +L D
Sbjct: 68 KEANIRVVSEDFLQD 82
>pdb|2LE0|A Chain A, Parp Brct Domain
Length = 106
Score = 39.7 bits (91), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 39/76 (51%), Gaps = 1/76 (1%)
Query: 187 VKPFTGMTISLMGRLSRTHQYWRTTIEKHGGKVAASPIGLTCLVASPAERERGGSSKLVE 246
+KP + M I +G+LS+ + IEK GGK+ S + +++ E E+ S K+ E
Sbjct: 1 MKPLSNMKILTLGKLSQNKDEAKAMIEKLGGKLTGSANKASLCISTKKEVEK-MSKKMEE 59
Query: 247 AMERGTRVVSEAWLID 262
RVV E +L D
Sbjct: 60 VKAANVRVVCEDFLQD 75
>pdb|2EOC|A Chain A, Solution Structure Of The Wgr Domain From Human Poly [adp-
Ribose] Polymerase-3
Length = 124
Score = 33.1 bits (74), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 23/95 (24%), Positives = 45/95 (47%), Gaps = 5/95 (5%)
Query: 336 YNCAFSLCDQGRGMNLYCIVQLITVPDSNLHLYYKKGKVGDDPNAEERLEEWTGVDNAIK 395
YNC + + N + I+QL+ + + + G+VG+ + ++ +T +++A K
Sbjct: 33 YNCTLNQTNIENNNNKFYIIQLLQDSNRFFTCWNRWGRVGEV--GQSKINHFTRLEDAKK 90
Query: 396 EFVRLFEEVTGNEFEPWEREKKFQKKPLKFYPIDM 430
+F + F E T N W F P K+ I++
Sbjct: 91 DFEKKFREKTKNN---WAERDHFVSHPGKYTLIEV 122
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.315 0.133 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,134,563
Number of Sequences: 62578
Number of extensions: 1086563
Number of successful extensions: 2530
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 2488
Number of HSP's gapped (non-prelim): 15
length of query: 815
length of database: 14,973,337
effective HSP length: 107
effective length of query: 708
effective length of database: 8,277,491
effective search space: 5860463628
effective search space used: 5860463628
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 56 (26.2 bits)