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= psy6101
(341 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2LM4|A Chain A, Solution Nmr Structure Of Mitochondrial Succinate
Dehydrogenase Assembly Factor 2 From Saccharomyces
Cerevisiae, Northeast Structural Genomics Consortium
Target Yt682a
Length = 109
Score = 98.2 bits (243), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 51/98 (52%), Positives = 74/98 (75%), Gaps = 6/98 (6%)
Query: 235 ERVGEPLELRKARLLYQSRKRGMLENGLLLSTFAAKYLDTMNEDLLKQYDQLINLPSNDW 294
+R EPL+ ++ARL+YQSRKRG+LE LLLS FAAKYL MNE+ L++YD L+N DW
Sbjct: 13 KRTNEPLDKKRARLIYQSRKRGILETDLLLSGFAAKYLKKMNEEELEEYDSLLN--ELDW 70
Query: 295 DIYYWAT---GVRPIPLQF-NNEVMKLLQDHTKNKDRQ 328
DIYYWAT P+P ++ N++++K LQ+ ++NK+++
Sbjct: 71 DIYYWATKNFKTSPLPDKWANSKLLKQLQEFSENKEKE 108
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/58 (43%), Positives = 42/58 (72%), Gaps = 6/58 (10%)
Query: 65 MNEDLLKQYDQLINLPSNDWDIYYWAT---GVRPIPLQF-NNEVMKLLQDHTKNKDRQ 118
MNE+ L++YD L+N DWDIYYWAT P+P ++ N++++K LQ+ ++NK+++
Sbjct: 53 MNEEELEEYDSLLN--ELDWDIYYWATKNFKTSPLPDKWANSKLLKQLQEFSENKEKE 108
>pdb|2JR5|A Chain A, Solution Structure Of Upf0350 Protein Vc_2471. Northeast
Structural Genomics Target Vcr36
Length = 94
Score = 33.1 bits (74), Expect = 0.23, Method: Composition-based stats.
Identities = 20/59 (33%), Positives = 34/59 (57%), Gaps = 3/59 (5%)
Query: 244 RKARLLYQSRKRGMLENGLLLSTFAAKYLDTMNEDLLKQYDQLINLPSNDWDIYYWATG 302
+KAR+ + R RGMLE +++ F + D++ E +Q D + L S+D D++ W G
Sbjct: 6 QKARIKWACR-RGMLELDVVIMPFFEECFDSLTES--EQDDFVALLESDDPDLFAWVMG 61
>pdb|3A6P|A Chain A, Crystal Structure Of Exportin-5:rangtp:pre-Mirna Complex
pdb|3A6P|F Chain F, Crystal Structure Of Exportin-5:rangtp:pre-Mirna Complex
Length = 1204
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 22/39 (56%)
Query: 148 SRALLLDRRYCWLSHFDLCHGILISSDSNLSWNVDLEQQ 186
+ A L D C + H D+C +LI++ ++L+W L Q
Sbjct: 1007 AMAELTDLGKCLMKHEDVCTALLITAFNSLAWKDTLSCQ 1045
>pdb|3PTA|A Chain A, Crystal Structure Of Human Dnmt1(646-1600) In Complex With
Dna
Length = 956
Score = 28.1 bits (61), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 29/132 (21%), Positives = 48/132 (36%), Gaps = 17/132 (12%)
Query: 223 PPSQEPEIPAYQERVGEPLELRKARLLYQSRKRGMLENGLLLSTFAAKYLDTMNEDLLKQ 282
P S ++P + R+ + RK R + RK G +G L + + +Q
Sbjct: 788 PGSDWRDLPNIEVRLSDGTMARKLRYTHHDRKNGRSSSGALRGVCSCVEAGKACDPAARQ 847
Query: 283 YDQLI--NLPSN--------------DWDIYYWATGVRPIPLQFNNEVMKLLQDHTKNKD 326
++ LI LP +WD ++ T P P+ V+ Q +
Sbjct: 848 FNTLIPWCLPHTGNRHNHWAGLYGRLEWDGFFSTTVTNPEPMGKQGRVLHPEQHRVVSVR 907
Query: 327 RQARLRQ-PDLY 337
AR + PD Y
Sbjct: 908 ECARSQGFPDTY 919
>pdb|3SWR|A Chain A, Structure Of Human Dnmt1 (601-1600) In Complex With
Sinefungin
Length = 1002
Score = 28.1 bits (61), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 29/132 (21%), Positives = 48/132 (36%), Gaps = 17/132 (12%)
Query: 223 PPSQEPEIPAYQERVGEPLELRKARLLYQSRKRGMLENGLLLSTFAAKYLDTMNEDLLKQ 282
P S ++P + R+ + RK R + RK G +G L + + +Q
Sbjct: 834 PGSDWRDLPNIEVRLSDGTMARKLRYTHHDRKNGRSSSGALRGVCSCVEAGKACDPAARQ 893
Query: 283 YDQLI--NLPSN--------------DWDIYYWATGVRPIPLQFNNEVMKLLQDHTKNKD 326
++ LI LP +WD ++ T P P+ V+ Q +
Sbjct: 894 FNTLIPWCLPHTGNRHNHWAGLYGRLEWDGFFSTTVTNPEPMGKQGRVLHPEQHRVVSVR 953
Query: 327 RQARLRQ-PDLY 337
AR + PD Y
Sbjct: 954 ECARSQGFPDTY 965
>pdb|3DKB|A Chain A, Crystal Structure Of A20, 2.5 Angstrom
pdb|3DKB|B Chain B, Crystal Structure Of A20, 2.5 Angstrom
pdb|3DKB|C Chain C, Crystal Structure Of A20, 2.5 Angstrom
pdb|3DKB|D Chain D, Crystal Structure Of A20, 2.5 Angstrom
pdb|3DKB|E Chain E, Crystal Structure Of A20, 2.5 Angstrom
pdb|3DKB|F Chain F, Crystal Structure Of A20, 2.5 Angstrom
Length = 390
Score = 28.1 bits (61), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 4/54 (7%)
Query: 242 ELRKARLLYQSRKRGMLENGLLLSTFAAKYLDTMNEDLLKQYDQLINLPSNDWD 295
E+R L+ +R RG E+ L F + M E LLK+Y +I +P WD
Sbjct: 289 EIRAVPLV--NRDRGRFED--LKVHFLTDPENEMKEKLLKEYLMVIEIPVQGWD 338
>pdb|3V0A|A Chain A, 2.7 Angstrom Crystal Structure Of BontAI IN COMPLEX WITH
NTNHA
pdb|3V0B|A Chain A, 3.9 Angstrom Crystal Structure Of BontAI IN COMPLEX WITH
NTNHA
Length = 1296
Score = 28.1 bits (61), Expect = 8.1, Method: Composition-based stats.
Identities = 31/123 (25%), Positives = 56/123 (45%), Gaps = 9/123 (7%)
Query: 164 DLCHGILISSDSNL-----SWNVDLEQQSPVYENVEEEPVLTSLVFCGSQIVKNSVRSMS 218
DL G I+SD+N+ + ++DL QQ + N + EP S+ S I+ +
Sbjct: 474 DLNKGEEITSDTNIEAAEENISLDLIQQYYLTFNFDNEPENISIENLSSDIIGQLELMPN 533
Query: 219 KEIFPPSQEPEIPAY---QERVGEPLELRKARL-LYQSRKRGMLENGLLLSTFAAKYLDT 274
E FP ++ E+ Y + E K+R+ L S +L + + F++ Y+
Sbjct: 534 IERFPNGKKYELDKYTMFHYLRAQEFEHGKSRIALTNSVNEALLNPSRVYTFFSSDYVKK 593
Query: 275 MNE 277
+N+
Sbjct: 594 VNK 596
>pdb|3BTA|A Chain A, Crystal Structure Of Botulinum Neurotoxin Serotype A
pdb|2NYY|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type A Complexed
With Monoclonal Antibody Cr1
pdb|2NZ9|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type A Complexed
With Monoclonal Antibody Ar2
pdb|2NZ9|B Chain B, Crystal Structure Of Botulinum Neurotoxin Type A Complexed
With Monoclonal Antibody Ar2
Length = 1295
Score = 28.1 bits (61), Expect = 8.2, Method: Composition-based stats.
Identities = 31/123 (25%), Positives = 56/123 (45%), Gaps = 9/123 (7%)
Query: 164 DLCHGILISSDSNL-----SWNVDLEQQSPVYENVEEEPVLTSLVFCGSQIVKNSVRSMS 218
DL G I+SD+N+ + ++DL QQ + N + EP S+ S I+ +
Sbjct: 473 DLNKGEEITSDTNIEAAEENISLDLIQQYYLTFNFDNEPENISIENLSSDIIGQLELMPN 532
Query: 219 KEIFPPSQEPEIPAY---QERVGEPLELRKARL-LYQSRKRGMLENGLLLSTFAAKYLDT 274
E FP ++ E+ Y + E K+R+ L S +L + + F++ Y+
Sbjct: 533 IERFPNGKKYELDKYTMFHYLRAQEFEHGKSRIALTNSVNEALLNPSRVYTFFSSDYVKK 592
Query: 275 MNE 277
+N+
Sbjct: 593 VNK 595
>pdb|2VFJ|A Chain A, Structure Of The A20 Ovarian Tumour (Otu) Domain
pdb|2VFJ|B Chain B, Structure Of The A20 Ovarian Tumour (Otu) Domain
pdb|2VFJ|C Chain C, Structure Of The A20 Ovarian Tumour (Otu) Domain
pdb|2VFJ|D Chain D, Structure Of The A20 Ovarian Tumour (Otu) Domain
Length = 366
Score = 28.1 bits (61), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 4/54 (7%)
Query: 242 ELRKARLLYQSRKRGMLENGLLLSTFAAKYLDTMNEDLLKQYDQLINLPSNDWD 295
E+R L+ +R RG E+ L F + M E LLK+Y +I +P WD
Sbjct: 269 EIRAVPLV--NRDRGRFED--LKVHFLTDPENEMKEKLLKEYLMVIEIPVQGWD 318
>pdb|3V0C|A Chain A, 4.3 Angstrom Crystal Structure Of An Inactive BontA
(E224qR363AY366F)
Length = 1312
Score = 27.7 bits (60), Expect = 9.1, Method: Composition-based stats.
Identities = 31/123 (25%), Positives = 56/123 (45%), Gaps = 9/123 (7%)
Query: 164 DLCHGILISSDSNL-----SWNVDLEQQSPVYENVEEEPVLTSLVFCGSQIVKNSVRSMS 218
DL G I+SD+N+ + ++DL QQ + N + EP S+ S I+ +
Sbjct: 474 DLNKGEEITSDTNIEAAEENISLDLIQQYYLTFNFDNEPENISIENLSSDIIGQLELMPN 533
Query: 219 KEIFPPSQEPEIPAY---QERVGEPLELRKARL-LYQSRKRGMLENGLLLSTFAAKYLDT 274
E FP ++ E+ Y + E K+R+ L S +L + + F++ Y+
Sbjct: 534 IERFPNGKKYELDKYTMFHYLRAQEFEHGKSRIALTNSVNEALLNPSRVYTFFSSDYVKK 593
Query: 275 MNE 277
+N+
Sbjct: 594 VNK 596
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
0.318 0.134 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,827,757
Number of Sequences: 62578
Number of extensions: 391207
Number of successful extensions: 1113
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1101
Number of HSP's gapped (non-prelim): 21
length of query: 341
length of database: 14,973,337
effective HSP length: 100
effective length of query: 241
effective length of database: 8,715,537
effective search space: 2100444417
effective search space used: 2100444417
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)