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= psy16515
(570 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2OEX|A Chain A, Structure Of AlixAIP1 V DOMAIN
pdb|2OEX|B Chain B, Structure Of AlixAIP1 V DOMAIN
Length = 351
Score = 36.2 bits (82), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 25/98 (25%), Positives = 46/98 (46%), Gaps = 1/98 (1%)
Query: 381 QSLLDAVEGVSKPDPEKHALFIDVQPSATSQSKHAARFLRLAMASIMDILKVKPFVEVTV 440
QS D + + KP+PE +A P+ T Q L+ ++++ ++ K + +E +
Sbjct: 163 QSHRDTIVLLCKPEPELNAAIPSANPAKTXQGSEVVNVLKSLLSNLDEVKKEREGLENDL 222
Query: 441 GQLLWGYEDPLL-KLAKDVVPKEQKLPYEEFGLLYGGI 477
+ + L LA+D V E+ L E +YGG+
Sbjct: 223 KSVNFDXTSKFLTALAQDGVINEEALSVTELDRVYGGL 260
>pdb|2OJQ|A Chain A, Crystal Structure Of Alix V Domain
Length = 348
Score = 35.8 bits (81), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 25/98 (25%), Positives = 46/98 (46%), Gaps = 1/98 (1%)
Query: 381 QSLLDAVEGVSKPDPEKHALFIDVQPSATSQSKHAARFLRLAMASIMDILKVKPFVEVTV 440
QS D + + KP+PE +A P+ T Q L+ ++++ ++ K + +E +
Sbjct: 160 QSHRDTIVLLCKPEPELNAAIPSANPAKTXQGSEVVSVLKSLLSNLDEVKKEREGLENDL 219
Query: 441 GQLLWGYEDPLL-KLAKDVVPKEQKLPYEEFGLLYGGI 477
+ + L LA+D V E+ L E +YGG+
Sbjct: 220 KSVNFDXTSKFLTALAQDGVINEEALSVTELDRVYGGL 257
>pdb|2XS1|A Chain A, Crystal Structure Of Alix In Complex With The Sivmac239
Pykevtedl Late Domain
pdb|2XS8|A Chain A, Crystal Structure Of Alix In Complex With The Sivagmtan-1
Aydparkll Late Domain
Length = 704
Score = 35.4 bits (80), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 25/98 (25%), Positives = 46/98 (46%), Gaps = 1/98 (1%)
Query: 381 QSLLDAVEGVSKPDPEKHALFIDVQPSATSQSKHAARFLRLAMASIMDILKVKPFVEVTV 440
QS D + + KP+PE +A P+ T Q L+ ++++ ++ K + +E +
Sbjct: 520 QSHRDTIVLLCKPEPELNAAIPSANPAKTMQGSEVVNVLKSLLSNLDEVKKEREGLENDL 579
Query: 441 GQLLWGYEDPLL-KLAKDVVPKEQKLPYEEFGLLYGGI 477
+ + L LA+D V E+ L E +YGG+
Sbjct: 580 KSVNFDMTSKFLTALAQDGVINEEALSVTELDRVYGGL 617
>pdb|2OEV|A Chain A, Crystal Structure Of AlixAIP1
Length = 705
Score = 35.4 bits (80), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 25/98 (25%), Positives = 46/98 (46%), Gaps = 1/98 (1%)
Query: 381 QSLLDAVEGVSKPDPEKHALFIDVQPSATSQSKHAARFLRLAMASIMDILKVKPFVEVTV 440
QS D + + KP+PE +A P+ T Q L+ ++++ ++ K + +E +
Sbjct: 521 QSHRDTIVLLCKPEPELNAAIPSANPAKTMQGSEVVNVLKSLLSNLDEVKKEREGLENDL 580
Query: 441 GQLLWGYEDPLL-KLAKDVVPKEQKLPYEEFGLLYGGI 477
+ + L LA+D V E+ L E +YGG+
Sbjct: 581 KSVNFDMTSKFLTALAQDGVINEEALSVTELDRVYGGL 618
>pdb|2R02|A Chain A, Crystal Structure Of AlixAIP1 IN COMPLEX WITH THE HIV-1
Ypltsl Late Domain
pdb|2R03|A Chain A, Crystal Structure Of AlixAIP1 IN COMPLEX WITH THE YPDL
Late Domain
pdb|2R05|A Chain A, Crystal Structure Of AlixAIP1 IN COMPLEX WITH THE HIV-1
Yplasl Late Domain
Length = 697
Score = 35.0 bits (79), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 25/98 (25%), Positives = 46/98 (46%), Gaps = 1/98 (1%)
Query: 381 QSLLDAVEGVSKPDPEKHALFIDVQPSATSQSKHAARFLRLAMASIMDILKVKPFVEVTV 440
QS D + + KP+PE +A P+ T Q L+ ++++ ++ K + +E +
Sbjct: 513 QSHRDTIVLLCKPEPELNAAIPSANPAKTMQGSEVVNVLKSLLSNLDEVKKEREGLENDL 572
Query: 441 GQLLWGYEDPLL-KLAKDVVPKEQKLPYEEFGLLYGGI 477
+ + L LA+D V E+ L E +YGG+
Sbjct: 573 KSVNFDMTSKFLTALAQDGVINEEALSVTELDRVYGGL 610
>pdb|2YYO|A Chain A, Crystal Sturcture Of Human Spry Domain
Length = 171
Score = 30.4 bits (67), Expect = 2.6, Method: Composition-based stats.
Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 1/59 (1%)
Query: 229 VPNIPMLKNGTSKDNVTVFTGENGIMKFGLIDKYNGRDHLPHWKTDACNSLEGSDGSIF 287
V + P+ K+ + V +G G + GL+ +Y DH P W D+ + DG ++
Sbjct: 31 VASRPLTKDSNYFEVSIVDSGVRGTIAVGLVPQYYSLDHQPGWLPDSV-AYHADDGKLY 88
>pdb|2F0R|A Chain A, Crystallographic Structure Of Human Tsg101 Uev Domain
pdb|2F0R|B Chain B, Crystallographic Structure Of Human Tsg101 Uev Domain
Length = 159
Score = 29.6 bits (65), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 29/47 (61%), Gaps = 2/47 (4%)
Query: 86 FQQLTLREGAQVFEMWRKPPVHPVIRIFIYNVTNADEFLSVPGTKPV 132
++ LT+RE V +++ + PV+ +++N ++ E +++ GT PV
Sbjct: 31 YRDLTVRETVNVITLYKD--LKPVLDSYVFNDGSSRELMNLTGTIPV 75
>pdb|1KPP|A Chain A, Structure Of The Tsg101 Uev Domain
pdb|1KPQ|A Chain A, Structure Of The Tsg101 Uev Domain
pdb|1M4P|A Chain A, Structure Of The Tsg101 Uev Domain In Complex With A Hiv-1
Ptap "late Domain" Peptide, Dyana Ensemble
pdb|1M4Q|A Chain A, Structure Of The Tsg101 Uev Domain In Complex With A Hiv-1
Ptap "late Domain" Peptide, Cns Ensemble
Length = 145
Score = 29.3 bits (64), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 29/47 (61%), Gaps = 2/47 (4%)
Query: 86 FQQLTLREGAQVFEMWRKPPVHPVIRIFIYNVTNADEFLSVPGTKPV 132
++ LT+RE V +++ + PV+ +++N ++ E +++ GT PV
Sbjct: 17 YRDLTVRETVNVITLYKD--LKPVLDSYVFNDGSSRELMNLTGTIPV 61
>pdb|2EP5|A Chain A, Structural Study Of Project Id St1242 From Sulfolobus
Tokodaii Strain7
pdb|2EP5|B Chain B, Structural Study Of Project Id St1242 From Sulfolobus
Tokodaii Strain7
pdb|2EP5|C Chain C, Structural Study Of Project Id St1242 From Sulfolobus
Tokodaii Strain7
pdb|2EP5|D Chain D, Structural Study Of Project Id St1242 From Sulfolobus
Tokodaii Strain7
Length = 350
Score = 28.5 bits (62), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 12/52 (23%)
Query: 146 EKVDLSFLPNGSVTFNQRKVFRFDPDQSVGSEDDVVIVPNI-PMLTWEKVDL 196
E ++L + NG + + FR DPD VP I P + WE ++L
Sbjct: 91 ESIELELVKNGKIVVSNASPFRMDPD-----------VPLINPEINWEHLEL 131
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
0.320 0.138 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,821,377
Number of Sequences: 62578
Number of extensions: 709355
Number of successful extensions: 1300
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1290
Number of HSP's gapped (non-prelim): 11
length of query: 570
length of database: 14,973,337
effective HSP length: 104
effective length of query: 466
effective length of database: 8,465,225
effective search space: 3944794850
effective search space used: 3944794850
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: 54 (25.4 bits)