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= 044269
(129 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3D0K|A Chain A, Crystal Structure Of The Lpqc, Poly(3-Hydroxybutyrate)
Depolymerase From Bordetella Parapertussis
pdb|3D0K|B Chain B, Crystal Structure Of The Lpqc, Poly(3-Hydroxybutyrate)
Depolymerase From Bordetella Parapertussis
Length = 304
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/52 (25%), Positives = 25/52 (48%)
Query: 67 ERRFQHGLEACGVTKSLMKLGVKEGDTVIVGDMEMVWHDSANNPGPSKAKKG 118
E RF GL+ G+T+ + + T++ GD ++ D P+ ++G
Sbjct: 183 EHRFPEGLDGVGLTEDHLARLLAYPXTILAGDQDIATDDPNLPSEPAALRQG 234
>pdb|2LCJ|A Chain A, Solution Nmr Structure Of Pab Polii Intein
Length = 185
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 88 VKEGDTVIVGDMEMVWHDSANNPGPSKAKKG 118
VKEGD V+V ++E+V S++ P G
Sbjct: 111 VKEGDKVLVSELELVEQSSSSQDNPKNENLG 141
>pdb|2A35|A Chain A, 1.5 A Crystal Structure Of A Protein Of Unknown Function
Pa4017 From Pseudomonas Aeruginosa Pao1, Possible
Epimerase
pdb|2A35|B Chain B, 1.5 A Crystal Structure Of A Protein Of Unknown Function
Pa4017 From Pseudomonas Aeruginosa Pao1, Possible
Epimerase
Length = 215
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 17/23 (73%)
Query: 72 HGLEACGVTKSLMKLGVKEGDTV 94
HG+EAC + ++L +L ++EG V
Sbjct: 178 HGIEACDLARALWRLALEEGKGV 200
>pdb|1Z6I|A Chain A, Crystal Structure Of The Ectodomain Of Drosophila
Transmembrane Receptor Pgrp-Lca
Length = 167
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 38/85 (44%), Gaps = 6/85 (7%)
Query: 13 QVNLNQVADLVNKQRSASINDFEIFHDSGSNT---WNVVGAGLQRF---VQMTNWRYLDS 66
+V L Q D+ + Q+ +F I D WN +GA + Q ++ Y+ S
Sbjct: 46 RVRLLQTYDIESSQKCDIAYNFLIGGDGNVYVGRGWNKMGAHMNNINYDSQSLSFAYIGS 105
Query: 67 ERRFQHGLEACGVTKSLMKLGVKEG 91
+ Q + VT+ L++ GVK G
Sbjct: 106 FKTIQPSAKQLSVTRLLLERGVKLG 130
>pdb|2F2L|A Chain A, Crystal Structure Of Tracheal Cytotoxin (Tct) Bound To The
Ectodomain Complex Of Peptidoglycan Recognition Proteins
Lca (Pgrp-Lca) And Lcx (Pgrp-Lcx)
Length = 167
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 38/85 (44%), Gaps = 6/85 (7%)
Query: 13 QVNLNQVADLVNKQRSASINDFEIFHDSGSNT---WNVVGAGLQRF---VQMTNWRYLDS 66
+V L Q D+ + Q+ +F I D WN +GA + Q ++ Y+ S
Sbjct: 46 RVRLLQTYDIESSQKXDIAYNFLIGGDGNVYVGRGWNKMGAHMNNINYDSQSLSFAYIGS 105
Query: 67 ERRFQHGLEACGVTKSLMKLGVKEG 91
+ Q + VT+ L++ GVK G
Sbjct: 106 FKTIQPSAKQLSVTRLLLERGVKLG 130
>pdb|1SEF|A Chain A, Crystal Structure Of Cupin Domain Protein Ef2996 From
Enterococcus Faecalis
Length = 274
Score = 26.6 bits (57), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 19 VADLVNKQRSASINDF-EIFHDSGSNTWNVVGAGLQRFVQMTNWRYLDSERRFQHGLEAC 77
++ L + + A+ D+ FH +G T G G+Q V + + R S+ + H LEA
Sbjct: 50 ISILGSPKLGATFVDYIATFHKNGQQTTGFGGDGIQTLVYVIDGRLRVSDGQETHELEAG 109
Query: 78 G 78
G
Sbjct: 110 G 110
>pdb|2GM4|A Chain A, An Activated, Tetrameric Gamma-Delta Resolvase: Hin
Chimaera Bound To Cleaved Dna
pdb|2GM4|B Chain B, An Activated, Tetrameric Gamma-Delta Resolvase: Hin
Chimaera Bound To Cleaved Dna
Length = 183
Score = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 9/26 (34%), Positives = 19/26 (73%)
Query: 83 LMKLGVKEGDTVIVGDMEMVWHDSAN 108
L+++ VKEGD ++V ++ + D+A+
Sbjct: 50 LLRMKVKEGDVILVKKLDRLGRDTAD 75
>pdb|1ZR2|A Chain A, Structure Of A Synaptic Gamma-Delta Resolvase Tetramer
Covalently Linked To Two Cleaved Dnas
pdb|1ZR2|B Chain B, Structure Of A Synaptic Gamma-Delta Resolvase Tetramer
Covalently Linked To Two Cleaved Dnas
pdb|1ZR4|A Chain A, Structure Of A Synaptic Gamma-Delta Resolvase Tetramer
Covalently Linked To Two Cleaved Dnas
pdb|1ZR4|B Chain B, Structure Of A Synaptic Gamma-Delta Resolvase Tetramer
Covalently Linked To Two Cleaved Dnas
pdb|1ZR4|E Chain E, Structure Of A Synaptic Gamma-Delta Resolvase Tetramer
Covalently Linked To Two Cleaved Dnas
pdb|1ZR4|D Chain D, Structure Of A Synaptic Gamma-Delta Resolvase Tetramer
Covalently Linked To Two Cleaved Dnas
Length = 183
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 9/26 (34%), Positives = 19/26 (73%)
Query: 83 LMKLGVKEGDTVIVGDMEMVWHDSAN 108
L+++ VKEGD ++V ++ + D+A+
Sbjct: 50 LLRMKVKEGDVILVKKLDRLGRDTAD 75
>pdb|3W03|A Chain A, Xlf-Xrcc4 Complex
pdb|3W03|B Chain B, Xlf-Xrcc4 Complex
Length = 235
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 10/38 (26%), Positives = 19/38 (50%)
Query: 89 KEGDTVIVGDMEMVWHDSANNPGPSKAKKGFEDSIKWP 126
K+G ++V D++ VWH+ + S+ K + P
Sbjct: 33 KQGYALLVSDLQQVWHEQVDTSVVSQRAKELNKRLTAP 70
>pdb|3Q4F|E Chain E, Crystal Structure Of Xrcc4XLF-Cernunnos Complex
pdb|3Q4F|F Chain F, Crystal Structure Of Xrcc4XLF-Cernunnos Complex
pdb|3Q4F|A Chain A, Crystal Structure Of Xrcc4XLF-Cernunnos Complex
pdb|3Q4F|B Chain B, Crystal Structure Of Xrcc4XLF-Cernunnos Complex
pdb|3RWR|D Chain D, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|E Chain E, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|H Chain H, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|I Chain I, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|L Chain L, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|M Chain M, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|O Chain O, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|Q Chain Q, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|S Chain S, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|W Chain W, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|T Chain T, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|X Chain X, Crystal Structure Of The Human Xrcc4-Xlf Complex
Length = 230
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 10/38 (26%), Positives = 19/38 (50%)
Query: 89 KEGDTVIVGDMEMVWHDSANNPGPSKAKKGFEDSIKWP 126
K+G ++V D++ VWH+ + S+ K + P
Sbjct: 31 KQGYALLVSDLQQVWHEQVDTSVVSQRAKELNKRLTAP 68
>pdb|2R9A|A Chain A, Crystal Structure Of Human Xlf
pdb|2R9A|B Chain B, Crystal Structure Of Human Xlf
Length = 230
Score = 26.6 bits (57), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 10/38 (26%), Positives = 19/38 (50%)
Query: 89 KEGDTVIVGDMEMVWHDSANNPGPSKAKKGFEDSIKWP 126
K+G ++V D++ VWH+ + S+ K + P
Sbjct: 31 KQGYALLVSDLQQVWHEQVDTSVVSQRAKELNKRLTAP 68
>pdb|2QM4|A Chain A, Crystal Structure Of Human Xlf/cernunnos, A Non-homologous
End-joining Factor
pdb|2QM4|B Chain B, Crystal Structure Of Human Xlf/cernunnos, A Non-homologous
End-joining Factor
pdb|2QM4|C Chain C, Crystal Structure Of Human Xlf/cernunnos, A Non-homologous
End-joining Factor
pdb|2QM4|D Chain D, Crystal Structure Of Human Xlf/cernunnos, A Non-homologous
End-joining Factor
Length = 235
Score = 26.6 bits (57), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 10/38 (26%), Positives = 19/38 (50%)
Query: 89 KEGDTVIVGDMEMVWHDSANNPGPSKAKKGFEDSIKWP 126
K+G ++V D++ VWH+ + S+ K + P
Sbjct: 33 KQGYALLVSDLQQVWHEQVDTSVVSQRAKELNKRLTAP 70
>pdb|3SR2|C Chain C, Crystal Structure Of Human Xlf-Xrcc4 Complex
pdb|3SR2|D Chain D, Crystal Structure Of Human Xlf-Xrcc4 Complex
pdb|3SR2|G Chain G, Crystal Structure Of Human Xlf-Xrcc4 Complex
pdb|3SR2|H Chain H, Crystal Structure Of Human Xlf-Xrcc4 Complex
Length = 229
Score = 26.2 bits (56), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 10/38 (26%), Positives = 19/38 (50%)
Query: 89 KEGDTVIVGDMEMVWHDSANNPGPSKAKKGFEDSIKWP 126
K+G ++V D++ VWH+ + S+ K + P
Sbjct: 36 KQGYALLVSDLQQVWHEQVDTSVVSQRAKELNKRLTAP 73
>pdb|2XQN|M Chain M, Complex Of The 2nd And 3rd Lim Domains Of Tes With The
Evh1 Domain Of Mena And The N-Terminal Domain Of
Actin-Like Protein Arp7a
Length = 119
Score = 25.8 bits (55), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 28 SASINDFEIFHDSGSNTWNVVGAGLQ 53
S + I+H +G+NT+ VVG +Q
Sbjct: 32 STGFSRVHIYHHTGNNTFRVVGRKIQ 57
>pdb|2IYB|A Chain A, Structure Of Complex Between The 3rd Lim Domain Of Tes
And The Evh1 Domain Of Mena
pdb|2IYB|B Chain B, Structure Of Complex Between The 3rd Lim Domain Of Tes
And The Evh1 Domain Of Mena
pdb|2IYB|C Chain C, Structure Of Complex Between The 3rd Lim Domain Of Tes
And The Evh1 Domain Of Mena
pdb|2IYB|D Chain D, Structure Of Complex Between The 3rd Lim Domain Of Tes
And The Evh1 Domain Of Mena
Length = 114
Score = 25.4 bits (54), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 28 SASINDFEIFHDSGSNTWNVVGAGLQ 53
S + I+H +G+NT+ VVG +Q
Sbjct: 30 STGFSRVHIYHHTGNNTFRVVGRKIQ 55
>pdb|1EVH|A Chain A, Evh1 Domain From Murine Enabled In Complex With Acta
Peptide
Length = 112
Score = 25.4 bits (54), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 28 SASINDFEIFHDSGSNTWNVVGAGLQ 53
S + I+H +G+NT+ VVG +Q
Sbjct: 29 STGFSRVHIYHHTGNNTFRVVGRKIQ 54
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 0.131 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,057,481
Number of Sequences: 62578
Number of extensions: 153657
Number of successful extensions: 456
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 437
Number of HSP's gapped (non-prelim): 23
length of query: 129
length of database: 14,973,337
effective HSP length: 88
effective length of query: 41
effective length of database: 9,466,473
effective search space: 388125393
effective search space used: 388125393
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: 45 (21.9 bits)