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= 014440
(424 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1Z60|A Chain A, Solution Structure Of The Carboxy-Terminal Domain Of Human
Tfiih P44 Subunit
Length = 59
Score = 45.1 bits (105), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 29/46 (63%), Gaps = 5/46 (10%)
Query: 365 CFGCQQSLLASGNKAGLCVACPKCKKHFCLECDIYIHESLHNCPGC 410
C+GCQ L K C C+ FC++CD+++H+SLH+CPGC
Sbjct: 18 CYGCQGEL-----KDQHVYVCAVCQNVFCVDCDVFVHDSLHSCPGC 58
>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 = 34.7 bits (78), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 40/94 (42%), Gaps = 17/94 (18%)
Query: 282 QRAGEGSISICSCHKEVKIGVGYTCPRCKARVCELPTECRICGLQLVSSPHLARSYHHLF 341
+++GE I H V+ +G P + + ECR+ GL+L Y LF
Sbjct: 111 KQSGESIDIITRAHGNVQDRIGR--PSETGIIGIIDPECRMIGLRL---------YDGLF 159
Query: 342 PIAPFD------EATPSRLNDLHNISRSTCFGCQ 369
+ P D +A RL +LH I +GCQ
Sbjct: 160 KVIPLDRDNKELKAFNIRLEELHVIDVKFLYGCQ 193
>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 = 34.7 bits (78), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 40/94 (42%), Gaps = 17/94 (18%)
Query: 282 QRAGEGSISICSCHKEVKIGVGYTCPRCKARVCELPTECRICGLQLVSSPHLARSYHHLF 341
+++GE I H V+ +G P + + ECR+ GL+L Y LF
Sbjct: 111 KQSGESIDIITRAHGNVQDRIGR--PSETGIIGIIDPECRMIGLRL---------YDGLF 159
Query: 342 PIAPFD------EATPSRLNDLHNISRSTCFGCQ 369
+ P D +A RL +LH I +GCQ
Sbjct: 160 KVIPLDRDNKELKAFNIRLEELHVIDVKFLYGCQ 193
>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 = 34.7 bits (78), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 40/94 (42%), Gaps = 17/94 (18%)
Query: 282 QRAGEGSISICSCHKEVKIGVGYTCPRCKARVCELPTECRICGLQLVSSPHLARSYHHLF 341
+++GE I H V+ +G P + + ECR+ GL+L Y LF
Sbjct: 111 KQSGESIDIITRAHGNVQDRIGR--PSETGIIGIIDPECRMIGLRL---------YDGLF 159
Query: 342 PIAPFD------EATPSRLNDLHNISRSTCFGCQ 369
+ P D +A RL +LH I +GCQ
Sbjct: 160 KVIPLDRDNKELKAFNIRLEELHVIDVKFLYGCQ 193
>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 = 34.7 bits (78), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 40/94 (42%), Gaps = 17/94 (18%)
Query: 282 QRAGEGSISICSCHKEVKIGVGYTCPRCKARVCELPTECRICGLQLVSSPHLARSYHHLF 341
+++GE I H V+ +G P + + ECR+ GL+L Y LF
Sbjct: 111 KQSGESIDIITRAHGNVQDRIGR--PSETGIIGIIDPECRMIGLRL---------YDGLF 159
Query: 342 PIAPFD------EATPSRLNDLHNISRSTCFGCQ 369
+ P D +A RL +LH I +GCQ
Sbjct: 160 KVIPLDRDNKELKAFNIRLEELHVIDVKFLYGCQ 193
>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 = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 40/94 (42%), Gaps = 17/94 (18%)
Query: 282 QRAGEGSISICSCHKEVKIGVGYTCPRCKARVCELPTECRICGLQLVSSPHLARSYHHLF 341
+++GE I H V+ +G P + + ECR+ GL+L Y LF
Sbjct: 96 KQSGESIDIITRAHGNVQDRIGR--PSETGIIGIIDPECRMIGLRL---------YDGLF 144
Query: 342 PIAPFD------EATPSRLNDLHNISRSTCFGCQ 369
+ P D +A RL +LH I +GCQ
Sbjct: 145 KVIPLDRDNKELKAFNIRLEELHVIDVKFLYGCQ 178
>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 = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 40/94 (42%), Gaps = 17/94 (18%)
Query: 282 QRAGEGSISICSCHKEVKIGVGYTCPRCKARVCELPTECRICGLQLVSSPHLARSYHHLF 341
+++GE I H V+ +G P + + ECR+ GL+L Y LF
Sbjct: 110 KQSGESIDIITRAHGNVQDRIGR--PSETGIIGIIDPECRMIGLRL---------YDGLF 158
Query: 342 PIAPFD------EATPSRLNDLHNISRSTCFGCQ 369
+ P D +A RL +LH I +GCQ
Sbjct: 159 KVIPLDRDNKELKAFNIRLEELHVIDVKFLYGCQ 192
>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 = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 40/94 (42%), Gaps = 17/94 (18%)
Query: 282 QRAGEGSISICSCHKEVKIGVGYTCPRCKARVCELPTECRICGLQLVSSPHLARSYHHLF 341
+++GE I H V+ +G P + + ECR+ GL+L Y LF
Sbjct: 95 KQSGESIDIITRAHGNVQDRIGR--PSETGIIGIIDPECRMIGLRL---------YDGLF 143
Query: 342 PIAPFD------EATPSRLNDLHNISRSTCFGCQ 369
+ P D +A RL +LH I +GCQ
Sbjct: 144 KVIPLDRDNKELKAFNIRLEELHVIDVKFLYGCQ 177
>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 = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 40/94 (42%), Gaps = 17/94 (18%)
Query: 282 QRAGEGSISICSCHKEVKIGVGYTCPRCKARVCELPTECRICGLQLVSSPHLARSYHHLF 341
+++GE I H V+ +G P + + ECR+ GL+L Y LF
Sbjct: 110 KQSGESIDIITRAHGNVQDRIGR--PSETGIIGIIDPECRMIGLRL---------YDGLF 158
Query: 342 PIAPFD------EATPSRLNDLHNISRSTCFGCQ 369
+ P D +A RL +LH I +GCQ
Sbjct: 159 KVIPLDRDNKELKAFNIRLEELHVIDVKFLYGCQ 192
>pdb|3E0C|A Chain A, Crystal Structure Of Dna Damage-Binding Protein 1(Ddb1)
Length = 1140
Score = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 40/94 (42%), Gaps = 17/94 (18%)
Query: 282 QRAGEGSISICSCHKEVKIGVGYTCPRCKARVCELPTECRICGLQLVSSPHLARSYHHLF 341
+++GE I H V+ +G P + + ECR+ GL+L Y LF
Sbjct: 92 KQSGESIDIITRAHGNVQDRIGR--PSETGIIGIIDPECRMIGLRL---------YDGLF 140
Query: 342 PIAPFD------EATPSRLNDLHNISRSTCFGCQ 369
+ P D +A RL +LH I +GCQ
Sbjct: 141 KVIPLDRDNKELKAFNIRLEELHVIDVKFLYGCQ 174
>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 = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 40/94 (42%), Gaps = 17/94 (18%)
Query: 282 QRAGEGSISICSCHKEVKIGVGYTCPRCKARVCELPTECRICGLQLVSSPHLARSYHHLF 341
+++GE I H V+ +G P + + ECR+ GL+L Y LF
Sbjct: 102 KQSGESIDIITRAHGNVQDRIGR--PSETGIIGIIDPECRMIGLRL---------YDGLF 150
Query: 342 PIAPFD------EATPSRLNDLHNISRSTCFGCQ 369
+ P D +A RL +LH I +GCQ
Sbjct: 151 KVIPLDRDNKELKAFNIRLEELHVIDVKFLYGCQ 184
>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 = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 40/94 (42%), Gaps = 17/94 (18%)
Query: 282 QRAGEGSISICSCHKEVKIGVGYTCPRCKARVCELPTECRICGLQLVSSPHLARSYHHLF 341
+++GE I H V+ +G P + + ECR+ GL+L Y LF
Sbjct: 92 KQSGESIDIITRAHGNVQDRIGR--PSETGIIGIIDPECRMIGLRL---------YDGLF 140
Query: 342 PIAPFD------EATPSRLNDLHNISRSTCFGCQ 369
+ P D +A RL +LH I +GCQ
Sbjct: 141 KVIPLDRDNKELKAFNIRLEELHVIDVKFLYGCQ 174
>pdb|1Z6O|A Chain A, Crystal Structure Of Trichoplusia Ni Secreted Ferritin
pdb|1Z6O|B Chain B, Crystal Structure Of Trichoplusia Ni Secreted Ferritin
pdb|1Z6O|C Chain C, Crystal Structure Of Trichoplusia Ni Secreted Ferritin
pdb|1Z6O|D Chain D, Crystal Structure Of Trichoplusia Ni Secreted Ferritin
pdb|1Z6O|E Chain E, Crystal Structure Of Trichoplusia Ni Secreted Ferritin
pdb|1Z6O|F Chain F, Crystal Structure Of Trichoplusia Ni Secreted Ferritin
pdb|1Z6O|G Chain G, Crystal Structure Of Trichoplusia Ni Secreted Ferritin
pdb|1Z6O|H Chain H, Crystal Structure Of Trichoplusia Ni Secreted Ferritin
pdb|1Z6O|I Chain I, Crystal Structure Of Trichoplusia Ni Secreted Ferritin
pdb|1Z6O|J Chain J, Crystal Structure Of Trichoplusia Ni Secreted Ferritin
pdb|1Z6O|K Chain K, Crystal Structure Of Trichoplusia Ni Secreted Ferritin
pdb|1Z6O|L Chain L, Crystal Structure Of Trichoplusia Ni Secreted Ferritin
Length = 212
Score = 32.3 bits (72), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 30/67 (44%), Gaps = 6/67 (8%)
Query: 293 SCHKEVKIGVGYTC-----PRCKARVCELPTECRICG-LQLVSSPHLARSYHHLFPIAPF 346
+C+ +V + G T PRC A E + + LQ + HL RSY +L A F
Sbjct: 3 TCYNDVALDCGITSNSLALPRCNAVYGEYGSHGNVATELQAYAKLHLERSYDYLLSAAYF 62
Query: 347 DEATPSR 353
+ +R
Sbjct: 63 NNYQTNR 69
>pdb|3KSV|A Chain A, Hypothetical Protein From Leishmania Major
Length = 149
Score = 28.9 bits (63), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 34/74 (45%), Gaps = 9/74 (12%)
Query: 122 FFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLG---CSGDSSIQNALDLVH 178
F D NPLS+ ++ + A+CL +LG + + L+ K D S+Q +
Sbjct: 37 FMDINPLSRGHMLVIPKEHASCLHELGMEDAADVGVLLAKASRAVAGPDGSMQ------Y 90
Query: 179 GLLNQIPSYGHREV 192
+L S H+EV
Sbjct: 91 NVLQNNGSLAHQEV 104
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
0.322 0.136 0.420
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,236,111
Number of Sequences: 62578
Number of extensions: 409126
Number of successful extensions: 944
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: 943
Number of HSP's gapped (non-prelim): 17
length of query: 424
length of database: 14,973,337
effective HSP length: 101
effective length of query: 323
effective length of database: 8,652,959
effective search space: 2794905757
effective search space used: 2794905757
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)