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= 026297
(240 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3RLS|A Chain A, Crystal Structure Of Yeast Af-9 Homolog Protein Yaf9
pdb|3RLS|B Chain B, Crystal Structure Of Yeast Af-9 Homolog Protein Yaf9
Length = 175
Score = 130 bits (328), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 68/169 (40%), Positives = 99/169 (58%), Gaps = 17/169 (10%)
Query: 11 LKDVEISIPIVYGNVAFWLGK----KASEYQSHKWTVYVRGATNEDLGVVIKRAVFQLHS 66
+K + +S PI+YGN A +G A +H WT++VRG NED+ IK+ VF+LH
Sbjct: 1 IKTLSVSRPIIYGNTAKKMGSVKPPNAPAEHTHLWTIFVRGPQNEDISYFIKKVVFKLHD 60
Query: 67 SFNNPTRAVESPPFELSESGWGEFEIAITLYFHADVCDKPLNLYHHLKLYP--------- 117
++ NP R++E+PPFEL+E+GWGEF+I I +YF + +K LN YH L+L+P
Sbjct: 61 TYPNPVRSIEAPPFELTETGWGEFDINIKVYFVEEANEKVLNFYHRLRLHPYANPVPNSD 120
Query: 118 ---EDESGSMSTKKPVVVESY-DEIVFPEPSDSFLARVQNHPAVTLPRL 162
E + ++K V Y DEIVF EP++ F + + P LP L
Sbjct: 121 NGNEQNTTDHNSKDAEVSSVYFDEIVFNEPNEEFFKILMSRPGNLLPSL 169
>pdb|3FK3|A Chain A, Structure Of The Yeats Domain, Yaf9
pdb|3FK3|B Chain B, Structure Of The Yeats Domain, Yaf9
pdb|3FK3|C Chain C, Structure Of The Yeats Domain, Yaf9
Length = 164
Score = 124 bits (312), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 64/156 (41%), Positives = 93/156 (59%), Gaps = 17/156 (10%)
Query: 10 KLKDVEISIPIVYGNVAFWLGK----KASEYQSHKWTVYVRGATNEDLGVVIKRAVFQLH 65
++K + +S PI+YGN A G A +H WT++VRG NED+ IK+ VF+LH
Sbjct: 3 RIKTLSVSRPIIYGNTAKKXGSVKPPNAPAEHTHLWTIFVRGPQNEDISYFIKKVVFKLH 62
Query: 66 SSFNNPTRAVESPPFELSESGWGEFEIAITLYFHADVCDKPLNLYHHLKLYP-------- 117
++ NP R++E+PPFEL+E+GWGEF+I I +YF + +K LN YH L+L+P
Sbjct: 63 DTYPNPVRSIEAPPFELTETGWGEFDINIKVYFVEEANEKVLNFYHRLRLHPYANPVPNS 122
Query: 118 ----EDESGSMSTKKPVVVESY-DEIVFPEPSDSFL 148
E + ++K V Y DEIVF EP++ F
Sbjct: 123 DNGNEQNTTDHNSKDAEVSSVYFDEIVFNEPNEEFF 158
>pdb|2L7E|A Chain A, The Structure Of A Domain From Yeast
Length = 131
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 25/45 (55%)
Query: 54 GVVIKRAVFQLHSSFNNPTRAVESPPFELSESGWGEFEIAITLYF 98
+ + ++ LH +F NP R PPF + E GWG F + I+++
Sbjct: 48 ATIFDKVIYHLHPTFANPNRTFTDPPFRIEEQGWGGFPLDISVFL 92
>pdb|3QRL|A Chain A, Crystal Structure Of The Taf14 Yeats Domain
Length = 140
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 25/45 (55%)
Query: 54 GVVIKRAVFQLHSSFNNPTRAVESPPFELSESGWGEFEIAITLYF 98
+ + ++ LH +F NP R PPF + E GWG F + I+++
Sbjct: 51 ATIFDKVIYHLHPTFANPNRTFTDPPFRIEEQGWGGFPLDISVFL 95
>pdb|3BQG|A Chain A, Structure Of The Central Domain (msra) Of Neisseria
Meningitidis Pilb (sulfenic Acid Form)
Length = 194
Score = 28.1 bits (61), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 24/54 (44%)
Query: 98 FHADVCDKPLNLYHHLKLYPEDESGSMSTKKPVVVESYDEIVFPEPSDSFLARV 151
+H D K N Y H+ + DE TK + +D + +PSD+ L R
Sbjct: 141 YHQDYLIKNPNGYSHIDIRKADEPLPGKTKTAPQGKGFDAATYKKPSDAELKRT 194
>pdb|3BQF|A Chain A, Structure Of The Central Domain (Msra) Of Neisseria
Meningitidis Pilb (Complex With A Substrate)
Length = 194
Score = 27.3 bits (59), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 24/54 (44%)
Query: 98 FHADVCDKPLNLYHHLKLYPEDESGSMSTKKPVVVESYDEIVFPEPSDSFLARV 151
+H D K N Y H+ + DE TK + +D + +PSD+ L R
Sbjct: 141 YHQDYLIKNPNGYCHIDIRKADEPLPGKTKTAPQGKGFDAATYKKPSDAELKRT 194
>pdb|3BQH|A Chain A, Structure Of The Central Domain (Msra) Of Neisseria
Meningitidis Pilb (Oxidized Form)
Length = 193
Score = 27.3 bits (59), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 24/54 (44%)
Query: 98 FHADVCDKPLNLYHHLKLYPEDESGSMSTKKPVVVESYDEIVFPEPSDSFLARV 151
+H D K N Y H+ + DE TK + +D + +PSD+ L R
Sbjct: 140 YHQDYLIKNPNGYCHIDIRKADEPLPGKTKTAPQGKGFDAATYKKPSDAELKRT 193
>pdb|3BQE|A Chain A, Structure Of The Central Domain (Msra) Of Neisseria
Meningitidis Pilb (Reduced Form)
Length = 194
Score = 27.3 bits (59), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 24/54 (44%)
Query: 98 FHADVCDKPLNLYHHLKLYPEDESGSMSTKKPVVVESYDEIVFPEPSDSFLARV 151
+H D K N Y H+ + DE TK + +D + +PSD+ L R
Sbjct: 141 YHQDYLIKNPNGYCHIDIRKADEPLPGKTKTAPQGKGFDAATYKKPSDAELKRT 194
>pdb|3PH9|A Chain A, Crystal Structure Of The Human Anterior Gradient Protein 3
pdb|3PH9|B Chain B, Crystal Structure Of The Human Anterior Gradient Protein 3
Length = 151
Score = 26.9 bits (58), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 27/57 (47%), Gaps = 9/57 (15%)
Query: 76 ESPPFELSESGWGEFEIAITLY----FHADVCDKPLNLYHHLKLYPEDESGSMSTKK 128
+ PP LS GWG+ + Y F+A KPL + HHL ED S + KK
Sbjct: 13 KRPPQTLSR-GWGDDITWVQTYEEGLFYAQKSKKPLMVIHHL----EDCQYSQALKK 64
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
0.317 0.134 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,024,762
Number of Sequences: 62578
Number of extensions: 276236
Number of successful extensions: 585
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 569
Number of HSP's gapped (non-prelim): 14
length of query: 240
length of database: 14,973,337
effective HSP length: 96
effective length of query: 144
effective length of database: 8,965,849
effective search space: 1291082256
effective search space used: 1291082256
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: 50 (23.9 bits)