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= psy8245
(629 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2V64|A Chain A, Crystallographic Structure Of The Conformational Dimer Of
The Spindle Assembly Checkpoint Protein Mad2.
pdb|2V64|C Chain C, Crystallographic Structure Of The Conformational Dimer Of
The Spindle Assembly Checkpoint Protein Mad2.
pdb|2V64|F Chain F, Crystallographic Structure Of The Conformational Dimer Of
The Spindle Assembly Checkpoint Protein Mad2
Length = 213
Score = 32.7 bits (73), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 9/54 (16%)
Query: 388 KLGRSCGDEVRRVMRQRAESVRLLPEVEQACVDDLGMY------CPER---TGP 432
K ++ DE+R V+RQ +V LP +E +C DL +Y PE+ +GP
Sbjct: 127 KSQKAIQDEIRSVIRQITATVTFLPLLEVSCSFDLLIYTDKDLVVPEKWEESGP 180
>pdb|2VFX|A Chain A, Structure Of The Symmetric Mad2 Dimer
pdb|2VFX|B Chain B, Structure Of The Symmetric Mad2 Dimer
pdb|2VFX|C Chain C, Structure Of The Symmetric Mad2 Dimer
pdb|2VFX|D Chain D, Structure Of The Symmetric Mad2 Dimer
pdb|2VFX|E Chain E, Structure Of The Symmetric Mad2 Dimer
pdb|2VFX|F Chain F, Structure Of The Symmetric Mad2 Dimer
pdb|2VFX|G Chain G, Structure Of The Symmetric Mad2 Dimer
pdb|2VFX|H Chain H, Structure Of The Symmetric Mad2 Dimer
pdb|2VFX|I Chain I, Structure Of The Symmetric Mad2 Dimer
pdb|2VFX|J Chain J, Structure Of The Symmetric Mad2 Dimer
pdb|2VFX|K Chain K, Structure Of The Symmetric Mad2 Dimer
pdb|2VFX|L Chain L, Structure Of The Symmetric Mad2 Dimer
Length = 206
Score = 32.3 bits (72), Expect = 0.80, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 25/43 (58%)
Query: 383 SETKWKLGRSCGDEVRRVMRQRAESVRLLPEVEQACVDDLGMY 425
S + K ++ DE+R V+RQ +V LP +E +C DL +Y
Sbjct: 115 SAPREKSQKAIQDEIRSVIRQITATVTFLPLLEVSCSFDLLIY 157
>pdb|3GMH|A Chain A, Crystal Structure Of The Mad2 Dimer
pdb|3GMH|B Chain B, Crystal Structure Of The Mad2 Dimer
pdb|3GMH|C Chain C, Crystal Structure Of The Mad2 Dimer
pdb|3GMH|D Chain D, Crystal Structure Of The Mad2 Dimer
pdb|3GMH|E Chain E, Crystal Structure Of The Mad2 Dimer
pdb|3GMH|F Chain F, Crystal Structure Of The Mad2 Dimer
pdb|3GMH|G Chain G, Crystal Structure Of The Mad2 Dimer
pdb|3GMH|H Chain H, Crystal Structure Of The Mad2 Dimer
pdb|3GMH|I Chain I, Crystal Structure Of The Mad2 Dimer
pdb|3GMH|J Chain J, Crystal Structure Of The Mad2 Dimer
pdb|3GMH|K Chain K, Crystal Structure Of The Mad2 Dimer
pdb|3GMH|L Chain L, Crystal Structure Of The Mad2 Dimer
Length = 207
Score = 32.3 bits (72), Expect = 0.90, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 25/43 (58%)
Query: 383 SETKWKLGRSCGDEVRRVMRQRAESVRLLPEVEQACVDDLGMY 425
S + K ++ DE+R V+RQ +V LP +E +C DL +Y
Sbjct: 116 SAPREKSQKAIQDEIRSVIRQITATVTFLPLLEVSCSFDLLIY 158
>pdb|1KLQ|A Chain A, The Mad2 Spindle Checkpoint Protein Undergoes Similar
Major Conformational Changes Upon Binding To Either Mad1
Or Cdc20
Length = 197
Score = 32.3 bits (72), Expect = 0.90, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 25/43 (58%)
Query: 383 SETKWKLGRSCGDEVRRVMRQRAESVRLLPEVEQACVDDLGMY 425
S + K ++ DE+R V+RQ +V LP +E +C DL +Y
Sbjct: 106 SAPREKSQKAIQDEIRSVIRQITATVTFLPLLEVSCSFDLLIY 148
>pdb|2WI8|A Chain A, Crystal Structure Of The Triscatecholate Siderophore
Binding Protein Feua From Bacillus Subtilis
pdb|2WHY|A Chain A, Crystal Structure Of The Triscatecholate Siderophore
Binding Protein Feua From Bacillus Subtilis Complexed
With Ferri-Bacillibactin
pdb|2XUZ|A Chain A, Crystal Structure Of The Triscatecholate Siderophore
Binding Protein Feua From Bacillus Subtilis Complexed
With Ferri-Enterobactin
pdb|2XV1|A Chain A, Crystal Structure Of The Triscatecholate Siderophore
Binding Protein Feua From Bacillus Subtilis Complexed
With Ferric Mecam
Length = 311
Score = 32.0 bits (71), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 32/71 (45%), Gaps = 6/71 (8%)
Query: 384 ETKWKLGRSCGDEVRRVMRQRAESVRLLPE---VEQACVDDLGMYCPE--RTGPGQEMDC 438
ETK K+ D V+R R ++ + PE DLG+ P + QE+
Sbjct: 160 ETKTKINDKAKDSKALVIRIRQGNIYIYPEQVYFNSTLYGDLGLKAPNEVKAAKAQELIS 219
Query: 439 LQERLPELKPD 449
L E+L E+ PD
Sbjct: 220 L-EKLSEMNPD 229
>pdb|1DUJ|A Chain A, Solution Structure Of The Spindle Assembly Checkpoint
Protein Human Mad2
Length = 187
Score = 32.0 bits (71), Expect = 0.96, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 25/43 (58%)
Query: 383 SETKWKLGRSCGDEVRRVMRQRAESVRLLPEVEQACVDDLGMY 425
S + K ++ DE+R V+RQ +V LP +E +C DL +Y
Sbjct: 106 SAPREKSQKAIQDEIRSVIRQITATVTFLPLLEVSCSFDLLIY 148
>pdb|2QYF|A Chain A, Crystal Structure Of The Mad2P31(COMET)MAD2-Binding
Peptide Ternary Complex
pdb|2QYF|C Chain C, Crystal Structure Of The Mad2P31(COMET)MAD2-Binding
Peptide Ternary Complex
Length = 206
Score = 32.0 bits (71), Expect = 0.96, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 25/43 (58%)
Query: 383 SETKWKLGRSCGDEVRRVMRQRAESVRLLPEVEQACVDDLGMY 425
S + K ++ DE+R V+RQ +V LP +E +C DL +Y
Sbjct: 115 SAPREKSQKAIQDEIRSVIRQITATVTFLPLLEVSCSFDLLIY 157
>pdb|2V64|D Chain D, Crystallographic Structure Of The Conformational Dimer Of
The Spindle Assembly Checkpoint Protein Mad2.
pdb|2V64|E Chain E, Crystallographic Structure Of The Conformational Dimer Of
The Spindle Assembly Checkpoint Protein Mad2.
pdb|2V64|H Chain H, Crystallographic Structure Of The Conformational Dimer Of
The Spindle Assembly Checkpoint Protein Mad2
Length = 207
Score = 32.0 bits (71), Expect = 1.1, Method: Composition-based stats.
Identities = 15/38 (39%), Positives = 23/38 (60%)
Query: 388 KLGRSCGDEVRRVMRQRAESVRLLPEVEQACVDDLGMY 425
K ++ DE+R V+RQ +V LP +E +C DL +Y
Sbjct: 121 KSQKAIQDEIRSVIRQITATVTFLPLLEVSCSFDLLIY 158
>pdb|3A7E|A Chain A, Crystal Structure Of Human Comt Complexed With Sam And
3,5- Dinitrocatechol
Length = 216
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 27/104 (25%), Positives = 40/104 (38%), Gaps = 22/104 (21%)
Query: 365 EPNNGPLVLPCLYRYLYHSETKWKLGRSCGDEVRRVMRQRAESVRLLPEVEQACVDDLGM 424
EP N VL + Y E +G G V V+++ SV L +LG
Sbjct: 20 EPGNAQSVLEAIDTYCEQKEWAMNVGDKKGKIVDAVIQEHQPSVLL----------ELGA 69
Query: 425 YCPERT-------GPGQEMDCLQERLPELKPDCAALVESLIKTA 461
YC PG + + E+ PDCAA+ + ++ A
Sbjct: 70 YCGYSAVRMARLLSPGARLITI-----EINPDCAAITQRMVDFA 108
>pdb|3BWM|A Chain A, Crystal Structure Of Human Catechol O-Methyltransferase
With Bound Sam And Dnc
Length = 214
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 27/104 (25%), Positives = 40/104 (38%), Gaps = 22/104 (21%)
Query: 365 EPNNGPLVLPCLYRYLYHSETKWKLGRSCGDEVRRVMRQRAESVRLLPEVEQACVDDLGM 424
EP N VL + Y E +G G V V+++ SV L +LG
Sbjct: 17 EPGNAQSVLEAIDTYCEQKEWAMNVGDKKGKIVDAVIQEHQPSVLL----------ELGA 66
Query: 425 YCPERT-------GPGQEMDCLQERLPELKPDCAALVESLIKTA 461
YC PG + + E+ PDCAA+ + ++ A
Sbjct: 67 YCGYSAVRMARLLSPGARLITI-----EINPDCAAITQRMVDFA 105
>pdb|3BWY|A Chain A, Crystal Structure Of Human 108m Catechol O-
Methyltransferase Bound With S-Adenosylmethionine And
Inhibitor Dinitrocatechol
Length = 214
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 27/104 (25%), Positives = 40/104 (38%), Gaps = 22/104 (21%)
Query: 365 EPNNGPLVLPCLYRYLYHSETKWKLGRSCGDEVRRVMRQRAESVRLLPEVEQACVDDLGM 424
EP N VL + Y E +G G V V+++ SV L +LG
Sbjct: 17 EPGNAQSVLEAIDTYCEQKEWAMNVGDKKGKIVDAVIQEHQPSVLL----------ELGA 66
Query: 425 YCPERT-------GPGQEMDCLQERLPELKPDCAALVESLIKTA 461
YC PG + + E+ PDCAA+ + ++ A
Sbjct: 67 YCGYSAVRMARLLSPGARLITI-----EINPDCAAITQRMVDFA 105
>pdb|3KBG|A Chain A, Crystal Structure Of The 30s Ribosomal Protein S4e From
Thermoplasma Acidophilum. Northeast Structural Genomics
Consortium Target Tar28
Length = 213
Score = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 16/78 (20%), Positives = 39/78 (50%), Gaps = 5/78 (6%)
Query: 102 DVPQGSGQIYKCLMDHTGDKLMSDKCREQLLRRQMLIASDYQVSKRLARACKEDIRTHKC 161
DV + +G+ Y+ + + G ++ + +E+ + + + S K +A + + TH
Sbjct: 54 DVIEINGESYRVVYNDQGALVLXKETKERASXKLLKVRS-----KVIAPGNRIQLGTHDG 108
Query: 162 RRLVSDDREIRLAQILVC 179
R ++DD+ I++ +L
Sbjct: 109 RTFITDDKSIKVGDVLAV 126
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
0.323 0.138 0.432
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,913,542
Number of Sequences: 62578
Number of extensions: 787492
Number of successful extensions: 1460
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1453
Number of HSP's gapped (non-prelim): 15
length of query: 629
length of database: 14,973,337
effective HSP length: 105
effective length of query: 524
effective length of database: 8,402,647
effective search space: 4402987028
effective search space used: 4402987028
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (25.4 bits)