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= 045823
(233 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2A1I|A Chain A, Crystal Structure Of The Central Domain Of Human Ercc1
Length = 146
Score = 66.2 bits (160), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 42/123 (34%), Positives = 58/123 (47%), Gaps = 31/123 (25%)
Query: 1 KGNPLLKHITYVRWAFADVVCDYLLGQNSCALYLRLCIYFL--------------NLLFD 46
+GNP+LK + V W F DV+ DY+LGQ++CAL+L L + L N
Sbjct: 27 RGNPVLKFVRNVPWEFGDVIPDYVLGQSTCALFLSLRYHNLHPDYIHGRLQSLGKNFALR 86
Query: 47 NVLLWV--------------FSTFGTSSCLESWSNFSQEECGRYLETIKVYENKPADLTQ 92
+L+ V + + +W S EE GRYLET K YE KPADL
Sbjct: 87 VLLVQVDVKDPQQALKELAKMCILADCTLILAW---SPEEAGRYLETYKAYEQKPADLLM 143
Query: 93 GQM 95
++
Sbjct: 144 EKL 146
>pdb|2JPD|A Chain A, Solution Structure Of The Ercc1 Central Domain
Length = 135
Score = 61.6 bits (148), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 40/118 (33%), Positives = 54/118 (45%), Gaps = 31/118 (26%)
Query: 1 KGNPLLKHITYVRWAFADVVCDYLLGQNSCALYLRLCIYFL--------------NLLFD 46
+GNP+LK + V W F DV+ DY+LGQ++CAL+L L + L N
Sbjct: 14 RGNPVLKFVRNVPWEFGDVIPDYVLGQSTCALFLSLRYHNLHPDYIHGRLQSLGKNFALR 73
Query: 47 NVLLWV--------------FSTFGTSSCLESWSNFSQEECGRYLETIKVYENKPADL 90
+L+ V + + +W S EE GRYLET K YE KP L
Sbjct: 74 VLLVQVDVKDPQQALKELAKMCILADCTLILAW---SPEEAGRYLETYKAYEQKPGGL 128
>pdb|2A1J|B Chain B, Crystal Structure Of The Complex Between The C-Terminal
Domains Of Human Xpf And Ercc1
Length = 91
Score = 58.2 bits (139), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 29/63 (46%), Positives = 41/63 (65%), Gaps = 10/63 (15%)
Query: 87 PADLTQGQMDTDYLSRLTHALTSVRSVNKTDVVNLGSTFG----------EDLSHCPGIG 136
PADL +++ D++SR+T LT+V+SVNKTD L +TFG EDL+ CPG+G
Sbjct: 14 PADLLMEKLEQDFVSRVTECLTTVKSVNKTDSQTLLTTFGSLEQLIAASREDLALCPGLG 73
Query: 137 ERK 139
+K
Sbjct: 74 PQK 76
>pdb|1Z00|A Chain A, Solution Structure Of The C-Terminal Domain Of Ercc1
Complexed With The C-Terminal Domain Of Xpf
Length = 89
Score = 55.1 bits (131), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/62 (45%), Positives = 40/62 (64%), Gaps = 10/62 (16%)
Query: 88 ADLTQGQMDTDYLSRLTHALTSVRSVNKTDVVNLGSTFG----------EDLSHCPGIGE 137
ADL +++ D++SR+T LT+V+SVNKTD L +TFG EDL+ CPG+G
Sbjct: 2 ADLLMEKLEQDFVSRVTECLTTVKSVNKTDSQTLLTTFGSLEQLIAASREDLALCPGLGP 61
Query: 138 RK 139
+K
Sbjct: 62 QK 63
>pdb|2JNW|A Chain A, Solution Structure Of A Ercc1-Xpa Heterodimer
Length = 133
Score = 51.2 bits (121), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 35/109 (32%), Positives = 49/109 (44%), Gaps = 31/109 (28%)
Query: 1 KGNPLLKHITYVRWAFADVVCDYLLGQNSCALYLRLCIYFL--------------NLLFD 46
+GNP+LK + V W F DV+ DY+LGQ++CAL+L L + L N
Sbjct: 27 RGNPVLKFVRNVPWEFGDVIPDYVLGQSTCALFLSLRYHNLHPDYIHGRLQSLGKNFALR 86
Query: 47 NVLLWV--------------FSTFGTSSCLESWSNFSQEECGRYLETIK 81
+L+ V + + +W S EE GRYLET K
Sbjct: 87 VLLVQVDVKDPQQALKELAKMCILADCTLILAW---SPEEAGRYLETYK 132
>pdb|2Z23|A Chain A, Crystal Structure Of Y.Pestis Oligo Peptide Binding
Protein Oppa With Tri-Lysine Ligand
Length = 517
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 29/105 (27%), Positives = 48/105 (45%), Gaps = 9/105 (8%)
Query: 99 YLSRL-THALTSVRSVNKTDVVNLGSTFGEDLSHCPGIGERK---HVVSSHPPIPETPSQ 154
YL +L H L S VNKT V G + + + G G K +V+ + +P+
Sbjct: 154 YLDKLLAHPLMS--PVNKTVVEKFGEKWTQPQNFV-GNGAYKLKDWIVNERIVLERSPTY 210
Query: 155 KDVEPSSVNEVT--EVEKDAEDVNKRRKKELELTVKSALSAAFSK 197
D + +N+VT + + DVN+ R E+++T + F K
Sbjct: 211 WDNAKTVINQVTYLPISSEVTDVNRYRSGEIDMTYNNMPIELFQK 255
>pdb|1GGO|A Chain A, T453a Mutant Of Pyruvate, Phosphate Dikinase
Length = 873
Score = 28.1 bits (61), Expect = 4.1, Method: Composition-based stats.
Identities = 12/38 (31%), Positives = 24/38 (63%), Gaps = 3/38 (7%)
Query: 53 FSTFGTSSCLESWSNFSQEECGRYLET---IKVYENKP 87
F +FGT+ + FS+++ G++L++ K+YE+ P
Sbjct: 761 FFSFGTNDLTQMTFGFSRDDAGKFLDSYYKAKIYESDP 798
>pdb|2R82|A Chain A, Pyruvate Phosphate Dikinase (Ppdk) Triple Mutant
R219eE271RS262D Adapts A Second Conformational State
Length = 874
Score = 28.1 bits (61), Expect = 4.1, Method: Composition-based stats.
Identities = 12/38 (31%), Positives = 24/38 (63%), Gaps = 3/38 (7%)
Query: 53 FSTFGTSSCLESWSNFSQEECGRYLET---IKVYENKP 87
F +FGT+ + FS+++ G++L++ K+YE+ P
Sbjct: 762 FFSFGTNDLTQMTFGFSRDDAGKFLDSYYKAKIYESDP 799
>pdb|1KBL|A Chain A, Pyruvate Phosphate Dikinase
pdb|1KC7|A Chain A, Pyruvate Phosphate Dikinase With Bound
Mg-Phosphonopyruvate
Length = 873
Score = 28.1 bits (61), Expect = 4.1, Method: Composition-based stats.
Identities = 12/38 (31%), Positives = 24/38 (63%), Gaps = 3/38 (7%)
Query: 53 FSTFGTSSCLESWSNFSQEECGRYLET---IKVYENKP 87
F +FGT+ + FS+++ G++L++ K+YE+ P
Sbjct: 761 FFSFGTNDLTQMTFGFSRDDAGKFLDSYYKAKIYESDP 798
>pdb|2DIK|A Chain A, R337a Mutant Of Pyruvate Phosphate Dikinase
Length = 873
Score = 28.1 bits (61), Expect = 4.1, Method: Composition-based stats.
Identities = 12/38 (31%), Positives = 24/38 (63%), Gaps = 3/38 (7%)
Query: 53 FSTFGTSSCLESWSNFSQEECGRYLET---IKVYENKP 87
F +FGT+ + FS+++ G++L++ K+YE+ P
Sbjct: 761 FFSFGTNDLTQMTFGFSRDDAGKFLDSYYKAKIYESDP 798
>pdb|1DIK|A Chain A, Pyruvate Phosphate Dikinase
Length = 874
Score = 28.1 bits (61), Expect = 4.1, Method: Composition-based stats.
Identities = 12/38 (31%), Positives = 24/38 (63%), Gaps = 3/38 (7%)
Query: 53 FSTFGTSSCLESWSNFSQEECGRYLET---IKVYENKP 87
F +FGT+ + FS+++ G++L++ K+YE+ P
Sbjct: 762 FFSFGTNDLTQMTFGFSRDDAGKFLDSYYKAKIYESDP 799
>pdb|1JDE|A Chain A, K22a Mutant Of Pyruvate, Phosphate Dikinase
Length = 873
Score = 28.1 bits (61), Expect = 4.1, Method: Composition-based stats.
Identities = 12/38 (31%), Positives = 24/38 (63%), Gaps = 3/38 (7%)
Query: 53 FSTFGTSSCLESWSNFSQEECGRYLET---IKVYENKP 87
F +FGT+ + FS+++ G++L++ K+YE+ P
Sbjct: 761 FFSFGTNDLTQMTFGFSRDDAGKFLDSYYKAKIYESDP 798
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
0.313 0.129 0.375
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,009,806
Number of Sequences: 62578
Number of extensions: 279943
Number of successful extensions: 582
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 565
Number of HSP's gapped (non-prelim): 27
length of query: 233
length of database: 14,973,337
effective HSP length: 96
effective length of query: 137
effective length of database: 8,965,849
effective search space: 1228321313
effective search space used: 1228321313
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 50 (23.9 bits)