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= 036560
(420 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3UM3|A Chain A, Crystal Structure Of The Brox Bro1 Domain In Complex With
The C- Terminal Tail Of Chmp4b
Length = 411
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 76/341 (22%), Positives = 140/341 (41%), Gaps = 50/341 (14%)
Query: 74 LRRALEEYLTLLIGL------TKKENGLEDLVEFKWKNLGDYGKQEAFVANSWFELLSVV 127
++ A + Y +LL G + +E+ L + FKW + G+ + ++ FEL+S+
Sbjct: 57 MKNAADSYFSLLQGFINSLDESTQESKLRYIQNFKWTDTLQ-GQVPSAQQDAVFELISMG 115
Query: 128 HMMAMLTLSDANSLMIPKDFSGLAVRVLSSDCKREAVDLLLKASGYLEFCIKNIIVHIPP 187
+A+ A+ L ++ ++ D +E L A+G + ++ H+P
Sbjct: 116 FNVALWYTKYASRLAGKEN--------ITEDEAKEVHRSLKIAAGIFKHLKES---HLP- 163
Query: 188 DIKIMLP----KDLQDGVLEAISIQALGQGTEIQLGLAVDCQKATLSVKRRLACELLIYY 243
K++ P +DL+ ++EA IQ + E+ + A++ + A + LA E +Y
Sbjct: 164 --KLITPAEKGRDLESRLIEAYVIQCQAEAQEVTIARAIELKHAP-GLIAALAYETANFY 220
Query: 244 SQAYQCLSGCDMNHGYGKKHLWFIKWKFLQAKAAAYYYHGLIL---DKGNEPSCHVSAVC 300
+A LS + Y K ++ K A AY YHG L DK E A+
Sbjct: 221 QKADHTLSS--LEPAYSAKWRKYLHLKMCFYTAYAYCYHGETLLASDKCGE------AIR 272
Query: 301 CFLAAEEILAESKKACLTF--SLAPPTTRSPPLWGAMKHLHQTIPEVASRKSQMYGYLLE 358
AE++ A+++ C + + P T P + L + + + G++
Sbjct: 273 SLQEAEKLYAKAEALCKEYGETKGPGPTVKPSGHLFFRKLGNLVKNTLEKCQRENGFIY- 331
Query: 359 EEKALQALP-ELPNFQLS-----LRPDNYELPEIDQAWNTE 393
Q +P E P +L + P +E P W E
Sbjct: 332 ----FQKIPTEAPQLELKANYGLVEPIPFEFPPTSVQWTPE 368
>pdb|3ULY|A Chain A, Crystal Structure Of Brox Bro1 Domain In Complex With The
C-Terminal Tails Of Chmp5
pdb|3UM0|A Chain A, Crystal Structure Of The Brox Bro1 Domain In Complex With
The C- Terminal Tail Of Chmp5
Length = 410
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 76/341 (22%), Positives = 140/341 (41%), Gaps = 50/341 (14%)
Query: 74 LRRALEEYLTLLIGL------TKKENGLEDLVEFKWKNLGDYGKQEAFVANSWFELLSVV 127
++ A + Y +LL G + +E+ L + FKW + G+ + ++ FEL+S+
Sbjct: 56 MKNAADSYFSLLQGFINSLDESTQESKLRYIQNFKWTDTLQ-GQVPSAQQDAVFELISMG 114
Query: 128 HMMAMLTLSDANSLMIPKDFSGLAVRVLSSDCKREAVDLLLKASGYLEFCIKNIIVHIPP 187
+A+ A+ L ++ ++ D +E L A+G + ++ H+P
Sbjct: 115 FNVALWYTKYASRLAGKEN--------ITEDEAKEVHRSLKIAAGIFKHLKES---HLP- 162
Query: 188 DIKIMLP----KDLQDGVLEAISIQALGQGTEIQLGLAVDCQKATLSVKRRLACELLIYY 243
K++ P +DL+ ++EA IQ + E+ + A++ + A + LA E +Y
Sbjct: 163 --KLITPAEKGRDLESRLIEAYVIQCQAEAQEVTIARAIELKHAP-GLIAALAYETANFY 219
Query: 244 SQAYQCLSGCDMNHGYGKKHLWFIKWKFLQAKAAAYYYHGLIL---DKGNEPSCHVSAVC 300
+A LS + Y K ++ K A AY YHG L DK E A+
Sbjct: 220 QKADHTLSS--LEPAYSAKWRKYLHLKMCFYTAYAYCYHGETLLASDKCGE------AIR 271
Query: 301 CFLAAEEILAESKKACLTF--SLAPPTTRSPPLWGAMKHLHQTIPEVASRKSQMYGYLLE 358
AE++ A+++ C + + P T P + L + + + G++
Sbjct: 272 SLQEAEKLYAKAEALCKEYGETKGPGPTVKPSGHLFFRKLGNLVKNTLEKCQRENGFIY- 330
Query: 359 EEKALQALP-ELPNFQLS-----LRPDNYELPEIDQAWNTE 393
Q +P E P +L + P +E P W E
Sbjct: 331 ----FQKIPTEAPQLELKANYGLVEPIPFEFPPTSVQWTPE 367
>pdb|3ZXP|A Chain A, Structural And Functional Analyses Of The Bro1 Domain
Protein Brox
pdb|3ZXP|B Chain B, Structural And Functional Analyses Of The Bro1 Domain
Protein Brox
pdb|3ZXP|C Chain C, Structural And Functional Analyses Of The Bro1 Domain
Protein Brox
Length = 407
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 76/341 (22%), Positives = 140/341 (41%), Gaps = 50/341 (14%)
Query: 74 LRRALEEYLTLLIGL------TKKENGLEDLVEFKWKNLGDYGKQEAFVANSWFELLSVV 127
++ A + Y +LL G + +E+ L + FKW + G+ + ++ FEL+S+
Sbjct: 63 MKNAADSYFSLLQGFINSLDESTQESKLRYIQNFKWTDTLQ-GQVPSAQQDAVFELISMG 121
Query: 128 HMMAMLTLSDANSLMIPKDFSGLAVRVLSSDCKREAVDLLLKASGYLEFCIKNIIVHIPP 187
+A+ A+ L ++ ++ D +E L A+G + ++ H+P
Sbjct: 122 FNVALWYTKYASRLAGKEN--------ITEDEAKEVHRSLKIAAGIFKHLKES---HLP- 169
Query: 188 DIKIMLP----KDLQDGVLEAISIQALGQGTEIQLGLAVDCQKATLSVKRRLACELLIYY 243
K++ P +DL+ ++EA IQ + E+ + A++ + A + LA E +Y
Sbjct: 170 --KLITPAEKGRDLESRLIEAYVIQCQAEAQEVTIARAIELKHAP-GLIAALAYETANFY 226
Query: 244 SQAYQCLSGCDMNHGYGKKHLWFIKWKFLQAKAAAYYYHGLIL---DKGNEPSCHVSAVC 300
+A LS + Y K ++ K A AY YHG L DK E A+
Sbjct: 227 QKADHTLSS--LEPAYSAKWRKYLHLKMCFYTAYAYCYHGETLLASDKCGE------AIR 278
Query: 301 CFLAAEEILAESKKACLTF--SLAPPTTRSPPLWGAMKHLHQTIPEVASRKSQMYGYLLE 358
AE++ A+++ C + + P T P + L + + + G++
Sbjct: 279 SLQEAEKLYAKAEALCKEYGETKGPGPTVKPSGHLFFRKLGNLVKNTLEKCQRENGFIY- 337
Query: 359 EEKALQALP-ELPNFQLS-----LRPDNYELPEIDQAWNTE 393
Q +P E P +L + P +E P W E
Sbjct: 338 ----FQKIPTEAPQLELKANYGLVEPIPFEFPPTSVQWTPE 374
>pdb|3R9M|A Chain A, Crystal Structure Of The Brox Bro1 Domain
Length = 376
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 76/341 (22%), Positives = 140/341 (41%), Gaps = 50/341 (14%)
Query: 74 LRRALEEYLTLLIGL------TKKENGLEDLVEFKWKNLGDYGKQEAFVANSWFELLSVV 127
++ A + Y +LL G + +E+ L + FKW + G+ + ++ FEL+S+
Sbjct: 59 MKNAADSYFSLLQGFINSLDESTQESKLRYIQNFKWTDTLQ-GQVPSAQQDAVFELISMG 117
Query: 128 HMMAMLTLSDANSLMIPKDFSGLAVRVLSSDCKREAVDLLLKASGYLEFCIKNIIVHIPP 187
+A+ A+ L ++ ++ D +E L A+G + ++ H+P
Sbjct: 118 FNVALWYTKYASRLAGKEN--------ITEDEAKEVHRSLKIAAGIFKHLKES---HLP- 165
Query: 188 DIKIMLP----KDLQDGVLEAISIQALGQGTEIQLGLAVDCQKATLSVKRRLACELLIYY 243
K++ P +DL+ ++EA IQ + E+ + A++ + A + LA E +Y
Sbjct: 166 --KLITPAEKGRDLESRLIEAYVIQCQAEAQEVTIARAIELKHAP-GLIAALAYETANFY 222
Query: 244 SQAYQCLSGCDMNHGYGKKHLWFIKWKFLQAKAAAYYYHGLIL---DKGNEPSCHVSAVC 300
+A LS + Y K ++ K A AY YHG L DK E A+
Sbjct: 223 QKADHTLS--SLEPAYSAKWRKYLHLKMCFYTAYAYCYHGETLLASDKCGE------AIR 274
Query: 301 CFLAAEEILAESKKACLTF--SLAPPTTRSPPLWGAMKHLHQTIPEVASRKSQMYGYLLE 358
AE++ A+++ C + + P T P + L + + + G++
Sbjct: 275 SLQEAEKLYAKAEALCKEYGETKGPGPTVKPSGHLFFRKLGNLVKNTLEKCQRENGFIY- 333
Query: 359 EEKALQALP-ELPNFQLS-----LRPDNYELPEIDQAWNTE 393
Q +P E P +L + P +E P W E
Sbjct: 334 ----FQKIPTEAPQLELKANYGLVEPIPFEFPPTSVQWTPE 370
>pdb|3UM1|A Chain A, Crystal Structure Of The Brox Bro1 Domain In Complex With
The C- Terminal Tail Of Chmp5
pdb|3UM1|D Chain D, Crystal Structure Of The Brox Bro1 Domain In Complex With
The C- Terminal Tail Of Chmp5
pdb|3UM2|A Chain A, Crystal Structure Of The Brox Bro1 Domain In Complex With
The C- Terminal Tail Of Chmp5
pdb|3UM2|D Chain D, Crystal Structure Of The Brox Bro1 Domain In Complex With
The C- Terminal Tail Of Chmp5
Length = 376
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 76/341 (22%), Positives = 140/341 (41%), Gaps = 50/341 (14%)
Query: 74 LRRALEEYLTLLIGL------TKKENGLEDLVEFKWKNLGDYGKQEAFVANSWFELLSVV 127
++ A + Y +LL G + +E+ L + FKW + G+ + ++ FEL+S+
Sbjct: 56 MKNAADSYFSLLQGFINSLDESTQESKLRYIQNFKWTDTLQ-GQVPSAQQDAVFELISMG 114
Query: 128 HMMAMLTLSDANSLMIPKDFSGLAVRVLSSDCKREAVDLLLKASGYLEFCIKNIIVHIPP 187
+A+ A+ L ++ ++ D +E L A+G + ++ H+P
Sbjct: 115 FNVALWYTKYASRLAGKEN--------ITEDEAKEVHRSLKIAAGIFKHLKES---HLP- 162
Query: 188 DIKIMLP----KDLQDGVLEAISIQALGQGTEIQLGLAVDCQKATLSVKRRLACELLIYY 243
K++ P +DL+ ++EA IQ + E+ + A++ + A + LA E +Y
Sbjct: 163 --KLITPAEKGRDLESRLIEAYVIQCQAEAQEVTIARAIELKHAP-GLIAALAYETANFY 219
Query: 244 SQAYQCLSGCDMNHGYGKKHLWFIKWKFLQAKAAAYYYHGLIL---DKGNEPSCHVSAVC 300
+A LS + Y K ++ K A AY YHG L DK E A+
Sbjct: 220 QKADHTLS--SLEPAYSAKWRKYLHLKMCFYTAYAYCYHGETLLASDKCGE------AIR 271
Query: 301 CFLAAEEILAESKKACLTF--SLAPPTTRSPPLWGAMKHLHQTIPEVASRKSQMYGYLLE 358
AE++ A+++ C + + P T P + L + + + G++
Sbjct: 272 SLQEAEKLYAKAEALCKEYGETKGPGPTVKPSGHLFFRKLGNLVKNTLEKCQRENGFIY- 330
Query: 359 EEKALQALP-ELPNFQLS-----LRPDNYELPEIDQAWNTE 393
Q +P E P +L + P +E P W E
Sbjct: 331 ----FQKIPTEAPQLELKANYGLVEPIPFEFPPTSVQWTPE 367
>pdb|3P91|A Chain A, Crystal Structure Of Proliferating Cellular Nuclear
Antigen From Entamoeba Histolytica
Length = 265
Score = 29.3 bits (64), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 22/41 (53%)
Query: 131 AMLTLSDANSLMIPKDFSGLAVRVLSSDCKREAVDLLLKAS 171
A++TLS A L I KDFS L ++ C + V L K +
Sbjct: 139 AIITLSSAEFLKITKDFSALGDDSITIGCTKNEVTLTTKGA 179
>pdb|2PV4|A Chain A, Crystal Structure Of An Uncharacterized Protein From
Duf3069 Family (Sama_2622) From Shewanella Amazonensis
Sb2b At 1.95 A Resolution
Length = 145
Score = 28.9 bits (63), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 32/56 (57%), Gaps = 3/56 (5%)
Query: 115 FVANSWFELLSVVHMMAMLTLSDANSLMIPKDFSGLAVRVLSSDCKREAVDLLLKA 170
++AN+W +L V ++ L D + + +++SGL VRV + K E+V L KA
Sbjct: 77 YLANAWIQLSIVARDIS--ELQDTDEAIAEQEYSGLYVRVAEAALK-ESVKKLKKA 129
>pdb|1R8W|A Chain A, Native Structure Of The B12-Independent Glycerol
Dehydratase From Clostridium Butyricum
pdb|1R8W|B Chain B, Native Structure Of The B12-Independent Glycerol
Dehydratase From Clostridium Butyricum
pdb|1R9D|A Chain A, Glycerol Bound Form Of The B12-Independent Glycerol
Dehydratase From Clostridium Butyricum
pdb|1R9D|B Chain B, Glycerol Bound Form Of The B12-Independent Glycerol
Dehydratase From Clostridium Butyricum
pdb|1R9E|A Chain A, Structure Of The B12-Independent Glycerol Dehydratase With
1,2-Propanediol Bound
pdb|1R9E|B Chain B, Structure Of The B12-Independent Glycerol Dehydratase With
1,2-Propanediol Bound
Length = 787
Score = 28.1 bits (61), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 29/64 (45%), Gaps = 3/64 (4%)
Query: 311 ESKKACLTFSLAPPTTRSPPLWG---AMKHLHQTIPEVASRKSQMYGYLLEEEKALQALP 367
ES++A L T P + A+KH+ + IP + + G L +E ++ Q P
Sbjct: 28 ESERAILITESFKQTEGQPAILRRALALKHILENIPITIRDQELIVGSLTKEPRSSQVFP 87
Query: 368 ELPN 371
E N
Sbjct: 88 EFSN 91
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 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,452,483
Number of Sequences: 62578
Number of extensions: 501615
Number of successful extensions: 1090
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1088
Number of HSP's gapped (non-prelim): 10
length of query: 420
length of database: 14,973,337
effective HSP length: 101
effective length of query: 319
effective length of database: 8,652,959
effective search space: 2760293921
effective search space used: 2760293921
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)