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= psy14552
(290 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3EI1|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 14 Bp 6-4
Photoproduct Containing Dna-Duplex
pdb|3EI2|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Abasic Site
Containing Dna-Duplex
pdb|3EI3|A Chain A, Structure Of The Hsddb1-Drddb2 Complex
Length = 1158
Score = 63.2 bits (152), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 71/283 (25%), Positives = 111/283 (39%), Gaps = 62/283 (21%)
Query: 1 EFDAYIVVSFSNATLVLSI-GETVEEVSGSGFYGTTPTLCCSAMGDNSIVQVYPDGIRHI 59
E D +V+SF T VL + GE VEE GF T C + ++Q+ +R +
Sbjct: 438 ETDDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRLV 497
Query: 60 GAKNTTWXXXXXXXXXXXXIVRCAVNQRQIVIALQGGRLIYFEMHPVSDKKESDKKKIVR 119
+ VS+ KE K I
Sbjct: 498 SQEPKAL---------------------------------------VSEWKEPQAKNISV 518
Query: 120 CAVNQRQIVIALQGGRLIYFEMHPETGILDECSETIQMESEVLCMALSNAPSGEQMSRFL 179
+ N Q+V+A+ G L Y ++HP+ L + S T +ME EV C+ ++ +S
Sbjct: 519 ASCNSSQVVVAV-GRALYYLQIHPQE--LRQISHT-EMEHEVACLDITPLGDSNGLSPLC 574
Query: 180 AVGL-ADNTVRLISLAPQDCLKQKNLQGLPDLAESLVMIEMGASDPTSSDEPAGPVTLGN 238
A+GL D + R++ L P L K + G + S++M +S
Sbjct: 575 AIGLWTDISARILKL-PSFELLHKEMLGGEIIPRSILMTTFESSH--------------- 618
Query: 239 LYLYVGLQNGALLRMVVDQTSGDLSDNRMRYLGSRPVKLFKIR 281
YL L +GAL ++ +G LSD + LG++P L R
Sbjct: 619 -YLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFR 660
>pdb|3E0C|A Chain A, Crystal Structure Of Dna Damage-Binding Protein 1(Ddb1)
Length = 1140
Score = 63.2 bits (152), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 71/283 (25%), Positives = 111/283 (39%), Gaps = 62/283 (21%)
Query: 1 EFDAYIVVSFSNATLVLSI-GETVEEVSGSGFYGTTPTLCCSAMGDNSIVQVYPDGIRHI 59
E D +V+SF T VL + GE VEE GF T C + ++Q+ +R +
Sbjct: 420 ETDDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRLV 479
Query: 60 GAKNTTWXXXXXXXXXXXXIVRCAVNQRQIVIALQGGRLIYFEMHPVSDKKESDKKKIVR 119
+ VS+ KE K I
Sbjct: 480 SQEPKAL---------------------------------------VSEWKEPQAKNISV 500
Query: 120 CAVNQRQIVIALQGGRLIYFEMHPETGILDECSETIQMESEVLCMALSNAPSGEQMSRFL 179
+ N Q+V+A+ G L Y ++HP+ L + S T +ME EV C+ ++ +S
Sbjct: 501 ASCNSSQVVVAV-GRALYYLQIHPQE--LRQISHT-EMEHEVACLDITPLGDSNGLSPLC 556
Query: 180 AVGL-ADNTVRLISLAPQDCLKQKNLQGLPDLAESLVMIEMGASDPTSSDEPAGPVTLGN 238
A+GL D + R++ L P L K + G + S++M +S
Sbjct: 557 AIGLWTDISARILKL-PSFELLHKEMLGGEIIPRSILMTTFESSH--------------- 600
Query: 239 LYLYVGLQNGALLRMVVDQTSGDLSDNRMRYLGSRPVKLFKIR 281
YL L +GAL ++ +G LSD + LG++P L R
Sbjct: 601 -YLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFR 642
>pdb|4E54|A Chain A, Damaged Dna Induced Uv-Damaged Dna-Binding Protein
(Uv-Ddb) Dimerization And Its Roles In Chromatinized Dna
Repair
pdb|4E5Z|A Chain A, Damaged Dna Induced Uv-Damaged Dna-Binding Protein
(Uv-Ddb) Dimerization And Its Roles In Chromatinized Dna
Repair
Length = 1150
Score = 63.2 bits (152), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 71/283 (25%), Positives = 111/283 (39%), Gaps = 62/283 (21%)
Query: 1 EFDAYIVVSFSNATLVLSI-GETVEEVSGSGFYGTTPTLCCSAMGDNSIVQVYPDGIRHI 59
E D +V+SF T VL + GE VEE GF T C + ++Q+ +R +
Sbjct: 430 ETDDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRLV 489
Query: 60 GAKNTTWXXXXXXXXXXXXIVRCAVNQRQIVIALQGGRLIYFEMHPVSDKKESDKKKIVR 119
+ VS+ KE K I
Sbjct: 490 SQEPKAL---------------------------------------VSEWKEPQAKNISV 510
Query: 120 CAVNQRQIVIALQGGRLIYFEMHPETGILDECSETIQMESEVLCMALSNAPSGEQMSRFL 179
+ N Q+V+A+ G L Y ++HP+ L + S T +ME EV C+ ++ +S
Sbjct: 511 ASCNSSQVVVAV-GRALYYLQIHPQE--LRQISHT-EMEHEVACLDITPLGDSNGLSPLC 566
Query: 180 AVGL-ADNTVRLISLAPQDCLKQKNLQGLPDLAESLVMIEMGASDPTSSDEPAGPVTLGN 238
A+GL D + R++ L P L K + G + S++M +S
Sbjct: 567 AIGLWTDISARILKL-PSFELLHKEMLGGEIIPRSILMTTFESSH--------------- 610
Query: 239 LYLYVGLQNGALLRMVVDQTSGDLSDNRMRYLGSRPVKLFKIR 281
YL L +GAL ++ +G LSD + LG++P L R
Sbjct: 611 -YLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFR 652
>pdb|4A0A|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex (
Pyrimidine At D-1 Position) At 3.6 A Resolution (Cpd 3)
Length = 1159
Score = 63.2 bits (152), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 71/283 (25%), Positives = 111/283 (39%), Gaps = 62/283 (21%)
Query: 1 EFDAYIVVSFSNATLVLSI-GETVEEVSGSGFYGTTPTLCCSAMGDNSIVQVYPDGIRHI 59
E D +V+SF T VL + GE VEE GF T C + ++Q+ +R +
Sbjct: 439 ETDDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRLV 498
Query: 60 GAKNTTWXXXXXXXXXXXXIVRCAVNQRQIVIALQGGRLIYFEMHPVSDKKESDKKKIVR 119
+ VS+ KE K I
Sbjct: 499 SQEPKAL---------------------------------------VSEWKEPQAKNISV 519
Query: 120 CAVNQRQIVIALQGGRLIYFEMHPETGILDECSETIQMESEVLCMALSNAPSGEQMSRFL 179
+ N Q+V+A+ G L Y ++HP+ L + S T +ME EV C+ ++ +S
Sbjct: 520 ASCNSSQVVVAV-GRALYYLQIHPQE--LRQISHT-EMEHEVACLDITPLGDSNGLSPLC 575
Query: 180 AVGL-ADNTVRLISLAPQDCLKQKNLQGLPDLAESLVMIEMGASDPTSSDEPAGPVTLGN 238
A+GL D + R++ L P L K + G + S++M +S
Sbjct: 576 AIGLWTDISARILKL-PSFELLHKEMLGGEIIPRSILMTTFESSH--------------- 619
Query: 239 LYLYVGLQNGALLRMVVDQTSGDLSDNRMRYLGSRPVKLFKIR 281
YL L +GAL ++ +G LSD + LG++P L R
Sbjct: 620 -YLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFR 661
>pdb|4A08|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 13 Bp Cpd-Duplex (
Purine At D-1 Position) At 3.0 A Resolution (Cpd 1)
pdb|4A09|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 15 Bp Cpd-Duplex
(Purine At D-1 Position) At 3.1 A Resolution (Cpd 2)
Length = 1159
Score = 63.2 bits (152), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 71/283 (25%), Positives = 111/283 (39%), Gaps = 62/283 (21%)
Query: 1 EFDAYIVVSFSNATLVLSI-GETVEEVSGSGFYGTTPTLCCSAMGDNSIVQVYPDGIRHI 59
E D +V+SF T VL + GE VEE GF T C + ++Q+ +R +
Sbjct: 439 ETDDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRLV 498
Query: 60 GAKNTTWXXXXXXXXXXXXIVRCAVNQRQIVIALQGGRLIYFEMHPVSDKKESDKKKIVR 119
+ VS+ KE K I
Sbjct: 499 SQEPKAL---------------------------------------VSEWKEPQAKNISV 519
Query: 120 CAVNQRQIVIALQGGRLIYFEMHPETGILDECSETIQMESEVLCMALSNAPSGEQMSRFL 179
+ N Q+V+A+ G L Y ++HP+ L + S T +ME EV C+ ++ +S
Sbjct: 520 ASCNSSQVVVAV-GRALYYLQIHPQE--LRQISHT-EMEHEVACLDITPLGDSNGLSPLC 575
Query: 180 AVGL-ADNTVRLISLAPQDCLKQKNLQGLPDLAESLVMIEMGASDPTSSDEPAGPVTLGN 238
A+GL D + R++ L P L K + G + S++M +S
Sbjct: 576 AIGLWTDISARILKL-PSFELLHKEMLGGEIIPRSILMTTFESSH--------------- 619
Query: 239 LYLYVGLQNGALLRMVVDQTSGDLSDNRMRYLGSRPVKLFKIR 281
YL L +GAL ++ +G LSD + LG++P L R
Sbjct: 620 -YLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFR 661
>pdb|4A0L|A Chain A, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
pdb|4A0L|C Chain C, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 1144
Score = 63.2 bits (152), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 71/283 (25%), Positives = 111/283 (39%), Gaps = 62/283 (21%)
Query: 1 EFDAYIVVSFSNATLVLSI-GETVEEVSGSGFYGTTPTLCCSAMGDNSIVQVYPDGIRHI 59
E D +V+SF T VL + GE VEE GF T C + ++Q+ +R +
Sbjct: 424 ETDDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRLV 483
Query: 60 GAKNTTWXXXXXXXXXXXXIVRCAVNQRQIVIALQGGRLIYFEMHPVSDKKESDKKKIVR 119
+ VS+ KE K I
Sbjct: 484 SQEPKAL---------------------------------------VSEWKEPQAKNISV 504
Query: 120 CAVNQRQIVIALQGGRLIYFEMHPETGILDECSETIQMESEVLCMALSNAPSGEQMSRFL 179
+ N Q+V+A+ G L Y ++HP+ L + S T +ME EV C+ ++ +S
Sbjct: 505 ASCNSSQVVVAV-GRALYYLQIHPQE--LRQISHT-EMEHEVACLDITPLGDSNGLSPLC 560
Query: 180 AVGL-ADNTVRLISLAPQDCLKQKNLQGLPDLAESLVMIEMGASDPTSSDEPAGPVTLGN 238
A+GL D + R++ L P L K + G + S++M +S
Sbjct: 561 AIGLWTDISARILKL-PSFELLHKEMLGGEIIPRSILMTTFESSH--------------- 604
Query: 239 LYLYVGLQNGALLRMVVDQTSGDLSDNRMRYLGSRPVKLFKIR 281
YL L +GAL ++ +G LSD + LG++P L R
Sbjct: 605 -YLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFR 646
>pdb|4A0B|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex (
Pyrimidine At D-1 Position) At 3.8 A Resolution (Cpd 4)
pdb|4A0B|C Chain C, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex (
Pyrimidine At D-1 Position) At 3.8 A Resolution (Cpd 4)
Length = 1159
Score = 63.2 bits (152), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 71/283 (25%), Positives = 111/283 (39%), Gaps = 62/283 (21%)
Query: 1 EFDAYIVVSFSNATLVLSI-GETVEEVSGSGFYGTTPTLCCSAMGDNSIVQVYPDGIRHI 59
E D +V+SF T VL + GE VEE GF T C + ++Q+ +R +
Sbjct: 439 ETDDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRLV 498
Query: 60 GAKNTTWXXXXXXXXXXXXIVRCAVNQRQIVIALQGGRLIYFEMHPVSDKKESDKKKIVR 119
+ VS+ KE K I
Sbjct: 499 SQEPKAL---------------------------------------VSEWKEPQAKNISV 519
Query: 120 CAVNQRQIVIALQGGRLIYFEMHPETGILDECSETIQMESEVLCMALSNAPSGEQMSRFL 179
+ N Q+V+A+ G L Y ++HP+ L + S T +ME EV C+ ++ +S
Sbjct: 520 ASCNSSQVVVAV-GRALYYLQIHPQE--LRQISHT-EMEHEVACLDITPLGDSNGLSPLC 575
Query: 180 AVGL-ADNTVRLISLAPQDCLKQKNLQGLPDLAESLVMIEMGASDPTSSDEPAGPVTLGN 238
A+GL D + R++ L P L K + G + S++M +S
Sbjct: 576 AIGLWTDISARILKL-PSFELLHKEMLGGEIIPRSILMTTFESSH--------------- 619
Query: 239 LYLYVGLQNGALLRMVVDQTSGDLSDNRMRYLGSRPVKLFKIR 281
YL L +GAL ++ +G LSD + LG++P L R
Sbjct: 620 -YLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFR 661
>pdb|4A11|A Chain A, Structure Of The Hsddb1-Hscsa Complex
pdb|4A0K|C Chain C, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 1159
Score = 63.2 bits (152), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 71/283 (25%), Positives = 111/283 (39%), Gaps = 62/283 (21%)
Query: 1 EFDAYIVVSFSNATLVLSI-GETVEEVSGSGFYGTTPTLCCSAMGDNSIVQVYPDGIRHI 59
E D +V+SF T VL + GE VEE GF T C + ++Q+ +R +
Sbjct: 439 ETDDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRLV 498
Query: 60 GAKNTTWXXXXXXXXXXXXIVRCAVNQRQIVIALQGGRLIYFEMHPVSDKKESDKKKIVR 119
+ VS+ KE K I
Sbjct: 499 SQEPKAL---------------------------------------VSEWKEPQAKNISV 519
Query: 120 CAVNQRQIVIALQGGRLIYFEMHPETGILDECSETIQMESEVLCMALSNAPSGEQMSRFL 179
+ N Q+V+A+ G L Y ++HP+ L + S T +ME EV C+ ++ +S
Sbjct: 520 ASCNSSQVVVAV-GRALYYLQIHPQE--LRQISHT-EMEHEVACLDITPLGDSNGLSPLC 575
Query: 180 AVGL-ADNTVRLISLAPQDCLKQKNLQGLPDLAESLVMIEMGASDPTSSDEPAGPVTLGN 238
A+GL D + R++ L P L K + G + S++M +S
Sbjct: 576 AIGLWTDISARILKL-PSFELLHKEMLGGEIIPRSILMTTFESSH--------------- 619
Query: 239 LYLYVGLQNGALLRMVVDQTSGDLSDNRMRYLGSRPVKLFKIR 281
YL L +GAL ++ +G LSD + LG++P L R
Sbjct: 620 -YLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFR 661
>pdb|2B5N|A Chain A, Crystal Structure Of The Ddb1 Bpb Domain
pdb|2B5N|B Chain B, Crystal Structure Of The Ddb1 Bpb Domain
pdb|2B5N|C Chain C, Crystal Structure Of The Ddb1 Bpb Domain
pdb|2B5N|D Chain D, Crystal Structure Of The Ddb1 Bpb Domain
Length = 323
Score = 61.6 bits (148), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 71/278 (25%), Positives = 111/278 (39%), Gaps = 62/278 (22%)
Query: 6 IVVSFSNATLVLSI-GETVEEVSGSGFYGTTPTLCCSAMGDNSIVQVYPDGIRHIGAKNT 64
+V+SF T VL + GE VEE GF T C + ++Q+ +R
Sbjct: 39 LVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVR------- 91
Query: 65 TWXXXXXXXXXXXXIVRCAVNQRQIVIALQGGRLIYFEMHPVSDKKESDKKKIVRCAVNQ 124
V+Q + VS+ KE K I + N
Sbjct: 92 ------------------LVSQEPKAL--------------VSEWKEPQAKNISVASCNS 119
Query: 125 RQIVIALQGGRLIYFEMHPETGILDECSETIQMESEVLCMALSNAPSGEQMSRFLAVGL- 183
Q+V+A+ G L Y ++HP+ L + S T +ME EV C+ ++ +S A+GL
Sbjct: 120 SQVVVAV-GRALYYLQIHPQE--LRQISHT-EMEHEVACLDITPLGDSNGLSPLCAIGLW 175
Query: 184 ADNTVRLISLAPQDCLKQKNLQGLPDLAESLVMIEMGASDPTSSDEPAGPVTLGNLYLYV 243
D + R++ L P L K + G + S++M +S YL
Sbjct: 176 TDISARILKL-PSFELLHKEMLGGEIIPRSILMTTFESSH----------------YLLC 218
Query: 244 GLQNGALLRMVVDQTSGDLSDNRMRYLGSRPVKLFKIR 281
L +GAL ++ +G LSD + LG++P L R
Sbjct: 219 ALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFR 256
>pdb|3I7H|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Hbx
pdb|3I7K|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Whx
pdb|3I7L|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Ddb2
pdb|3I7N|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Wdtc1
pdb|3I7O|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Iqwd1
pdb|3I7P|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Wdr40a
pdb|3I89|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Wdr22
pdb|3I8C|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Wdr21a
pdb|3I8E|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Wdr42a
pdb|3I8E|B Chain B, Crystal Structure Of Ddb1 In Complex With The H-Box Motif
Of Wdr42a
Length = 1143
Score = 61.6 bits (148), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 69/278 (24%), Positives = 109/278 (39%), Gaps = 62/278 (22%)
Query: 6 IVVSFSNATLVLSI-GETVEEVSGSGFYGTTPTLCCSAMGDNSIVQVYPDGIRHIGAKNT 64
+V+SF T VL + GE VEE GF T C + ++Q+ +R + +
Sbjct: 428 LVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRLVSQEPK 487
Query: 65 TWXXXXXXXXXXXXIVRCAVNQRQIVIALQGGRLIYFEMHPVSDKKESDKKKIVRCAVNQ 124
VS+ KE K I + N
Sbjct: 488 AL---------------------------------------VSEWKEPQAKNISVASCNS 508
Query: 125 RQIVIALQGGRLIYFEMHPETGILDECSETIQMESEVLCMALSNAPSGEQMSRFLAVGL- 183
Q+V+A+ G L Y ++HP+ L + S T +ME EV C+ ++ +S A+GL
Sbjct: 509 SQVVVAV-GRALYYLQIHPQE--LRQISHT-EMEHEVACLDITPLGDSNGLSPLCAIGLW 564
Query: 184 ADNTVRLISLAPQDCLKQKNLQGLPDLAESLVMIEMGASDPTSSDEPAGPVTLGNLYLYV 243
D + R++ L P L K + G + S++M +S YL
Sbjct: 565 TDISARILKL-PSFELLHKEMLGGEIIPRSILMTTFESSH----------------YLLC 607
Query: 244 GLQNGALLRMVVDQTSGDLSDNRMRYLGSRPVKLFKIR 281
L +GAL ++ +G LSD + LG++P L R
Sbjct: 608 ALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFR 645
>pdb|3EI4|A Chain A, Structure Of The Hsddb1-Hsddb2 Complex
pdb|3EI4|C Chain C, Structure Of The Hsddb1-Hsddb2 Complex
pdb|3EI4|E Chain E, Structure Of The Hsddb1-Hsddb2 Complex
Length = 1158
Score = 61.2 bits (147), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 69/278 (24%), Positives = 109/278 (39%), Gaps = 62/278 (22%)
Query: 6 IVVSFSNATLVLSI-GETVEEVSGSGFYGTTPTLCCSAMGDNSIVQVYPDGIRHIGAKNT 64
+V+SF T VL + GE VEE GF T C + ++Q+ +R + +
Sbjct: 443 LVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRLVSQEPK 502
Query: 65 TWXXXXXXXXXXXXIVRCAVNQRQIVIALQGGRLIYFEMHPVSDKKESDKKKIVRCAVNQ 124
VS+ KE K I + N
Sbjct: 503 AL---------------------------------------VSEWKEPQAKNISVASCNS 523
Query: 125 RQIVIALQGGRLIYFEMHPETGILDECSETIQMESEVLCMALSNAPSGEQMSRFLAVGL- 183
Q+V+A+ G L Y ++HP+ L + S T +ME EV C+ ++ +S A+GL
Sbjct: 524 SQVVVAV-GRALYYLQIHPQE--LRQISHT-EMEHEVACLDITPLGDSNGLSPLCAIGLW 579
Query: 184 ADNTVRLISLAPQDCLKQKNLQGLPDLAESLVMIEMGASDPTSSDEPAGPVTLGNLYLYV 243
D + R++ L P L K + G + S++M +S YL
Sbjct: 580 TDISARILKL-PSFELLHKEMLGGEIIPRSILMTTFESSH----------------YLLC 622
Query: 244 GLQNGALLRMVVDQTSGDLSDNRMRYLGSRPVKLFKIR 281
L +GAL ++ +G LSD + LG++P L R
Sbjct: 623 ALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFR 660
>pdb|2B5L|A Chain A, Crystal Structure Of Ddb1 In Complex With Simian Virus 5 V
Protein
pdb|2B5L|B Chain B, Crystal Structure Of Ddb1 In Complex With Simian Virus 5 V
Protein
pdb|2B5M|A Chain A, Crystal Structure Of Ddb1
pdb|2HYE|A Chain A, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 1140
Score = 61.2 bits (147), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 69/278 (24%), Positives = 109/278 (39%), Gaps = 62/278 (22%)
Query: 6 IVVSFSNATLVLSI-GETVEEVSGSGFYGTTPTLCCSAMGDNSIVQVYPDGIRHIGAKNT 64
+V+SF T VL + GE VEE GF T C + ++Q+ +R + +
Sbjct: 425 LVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRLVSQEPK 484
Query: 65 TWXXXXXXXXXXXXIVRCAVNQRQIVIALQGGRLIYFEMHPVSDKKESDKKKIVRCAVNQ 124
VS+ KE K I + N
Sbjct: 485 AL---------------------------------------VSEWKEPQAKNISVASCNS 505
Query: 125 RQIVIALQGGRLIYFEMHPETGILDECSETIQMESEVLCMALSNAPSGEQMSRFLAVGL- 183
Q+V+A+ G L Y ++HP+ L + S T +ME EV C+ ++ +S A+GL
Sbjct: 506 SQVVVAV-GRALYYLQIHPQE--LRQISHT-EMEHEVACLDITPLGDSNGLSPLCAIGLW 561
Query: 184 ADNTVRLISLAPQDCLKQKNLQGLPDLAESLVMIEMGASDPTSSDEPAGPVTLGNLYLYV 243
D + R++ L P L K + G + S++M +S YL
Sbjct: 562 TDISARILKL-PSFELLHKEMLGGEIIPRSILMTTFESSH----------------YLLC 604
Query: 244 GLQNGALLRMVVDQTSGDLSDNRMRYLGSRPVKLFKIR 281
L +GAL ++ +G LSD + LG++P L R
Sbjct: 605 ALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFR 642
>pdb|1FZD|A Chain A, Structure Of Recombinant Alphaec Domain From Human
Fibrinogen-420
pdb|1FZD|B Chain B, Structure Of Recombinant Alphaec Domain From Human
Fibrinogen-420
pdb|1FZD|C Chain C, Structure Of Recombinant Alphaec Domain From Human
Fibrinogen-420
pdb|1FZD|D Chain D, Structure Of Recombinant Alphaec Domain From Human
Fibrinogen-420
pdb|1FZD|E Chain E, Structure Of Recombinant Alphaec Domain From Human
Fibrinogen-420
pdb|1FZD|F Chain F, Structure Of Recombinant Alphaec Domain From Human
Fibrinogen-420
pdb|1FZD|G Chain G, Structure Of Recombinant Alphaec Domain From Human
Fibrinogen-420
pdb|1FZD|H Chain H, Structure Of Recombinant Alphaec Domain From Human
Fibrinogen-420
Length = 201
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 23/35 (65%)
Query: 227 SDEPAGPVTLGNLYLYVGLQNGALLRMVVDQTSGD 261
+DE G LGN YL++ Q G++LR+ ++ +G+
Sbjct: 35 NDEGEGEFWLGNDYLHLLTQRGSVLRVELEDWAGN 69
>pdb|2WJZ|B Chain B, Crystal Structure Of (Hish) K181a Y138a Mutant Of
Imidazoleglycerolphosphate Synthase (Hish Hisf) Which
Displays Constitutive Glutaminase Activity
pdb|2WJZ|D Chain D, Crystal Structure Of (Hish) K181a Y138a Mutant Of
Imidazoleglycerolphosphate Synthase (Hish Hisf) Which
Displays Constitutive Glutaminase Activity
pdb|2WJZ|F Chain F, Crystal Structure Of (Hish) K181a Y138a Mutant Of
Imidazoleglycerolphosphate Synthase (Hish Hisf) Which
Displays Constitutive Glutaminase Activity
Length = 201
Score = 27.3 bits (59), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 24/36 (66%), Gaps = 2/36 (5%)
Query: 92 ALQGGRLIYFEMHPVSDKKESDK--KKIVRCAVNQR 125
A++ GR++ F+ HP + K K +K++ C++++R
Sbjct: 166 AVRKGRILGFQFHPEASSKIGRKLLEKVIECSLSRR 201
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
0.319 0.135 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,831,182
Number of Sequences: 62578
Number of extensions: 295472
Number of successful extensions: 619
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 582
Number of HSP's gapped (non-prelim): 30
length of query: 290
length of database: 14,973,337
effective HSP length: 98
effective length of query: 192
effective length of database: 8,840,693
effective search space: 1697413056
effective search space used: 1697413056
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)