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= psy5876
(143 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1GJU|A Chain A, Maltosyltransferase From Thermotoga Maritima
pdb|1GJW|A Chain A, Thermotoga Maritima Maltosyltransferase Complex With
Maltose
Length = 637
Score = 28.5 bits (62), Expect = 1.5, Method: Composition-based stats.
Identities = 20/45 (44%), Positives = 28/45 (62%), Gaps = 5/45 (11%)
Query: 98 LSKEQVDKIKKSLKKYTPAF----EAKDRQRMNKASKYADLLVVL 138
L KE +D I K++K+Y PAF E D ++ +KASK A V+L
Sbjct: 390 LPKELLDLIIKNVKEYDPAFVMIAEELDMEK-DKASKEAGYDVIL 433
>pdb|2ZME|C Chain C, Integrated Structural And Functional Model Of The Human
Escrt-Ii Complex
pdb|2ZME|D Chain D, Integrated Structural And Functional Model Of The Human
Escrt-Ii Complex
Length = 102
Score = 28.1 bits (61), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 2 KLRMRGTHIVLAELRDTGSLEFVDTGDFSVM 32
KL + IVL ELR G+LE++D S +
Sbjct: 68 KLPVESIQIVLEELRKKGNLEWLDKSKSSFL 98
>pdb|3CUQ|C Chain C, Integrated Structural And Functional Model Of The Human
Escrt-Ii Complex
pdb|3CUQ|D Chain D, Integrated Structural And Functional Model Of The Human
Escrt-Ii Complex
Length = 176
Score = 26.9 bits (58), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 2 KLRMRGTHIVLAELRDTGSLEFVDTGDFSVM 32
KL + IVL ELR G+LE++D S +
Sbjct: 68 KLPVESIQIVLEELRKKGNLEWLDKSKSSFL 98
>pdb|3SOM|A Chain A, Crystal Structure Of Human Mmachc
pdb|3SOM|B Chain B, Crystal Structure Of Human Mmachc
pdb|3SOM|C Chain C, Crystal Structure Of Human Mmachc
pdb|3SOM|D Chain D, Crystal Structure Of Human Mmachc
pdb|3SOM|E Chain E, Crystal Structure Of Human Mmachc
pdb|3SOM|F Chain F, Crystal Structure Of Human Mmachc
pdb|3SOM|G Chain G, Crystal Structure Of Human Mmachc
pdb|3SOM|H Chain H, Crystal Structure Of Human Mmachc
pdb|3SOM|I Chain I, Crystal Structure Of Human Mmachc
pdb|3SOM|J Chain J, Crystal Structure Of Human Mmachc
pdb|3SOM|K Chain K, Crystal Structure Of Human Mmachc
pdb|3SOM|L Chain L, Crystal Structure Of Human Mmachc
pdb|3SOM|M Chain M, Crystal Structure Of Human Mmachc
pdb|3SOM|N Chain N, Crystal Structure Of Human Mmachc
pdb|3SOM|O Chain O, Crystal Structure Of Human Mmachc
pdb|3SOM|P Chain P, Crystal Structure Of Human Mmachc
Length = 286
Score = 26.6 bits (57), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 31 VMNAAEHHQATDVEWDPTGRYVMSGVSL 58
V AA ++Q DVE DP G +SGV +
Sbjct: 127 VAGAAYYYQRQDVEADPWGNQRISGVCI 154
>pdb|1COL|A Chain A, Refined Structure Of The Pore-Forming Domain Of Colicin A
At 2.4 Angstroms Resolution
pdb|1COL|B Chain B, Refined Structure Of The Pore-Forming Domain Of Colicin A
At 2.4 Angstroms Resolution
Length = 204
Score = 26.6 bits (57), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 30/66 (45%)
Query: 71 SFQGKIIKRFNSPTFCQLRWRPRPASLLSKEQVDKIKKSLKKYTPAFEAKDRQRMNKASK 130
+FQGK I+ F+ + PA ++K D + + K A ++KA K
Sbjct: 47 NFQGKTIRSFDDAMASLNKITANPAMKINKADRDALVNAWKHVDAQDMANKLGNLSKAFK 106
Query: 131 YADLLV 136
AD+++
Sbjct: 107 VADVVM 112
>pdb|3SBY|A Chain A, Crystal Structure Of Semet-Substituted Apo-Mmachc (1-244),
A Human B12 Processing Enzyme
pdb|3SBY|B Chain B, Crystal Structure Of Semet-Substituted Apo-Mmachc (1-244),
A Human B12 Processing Enzyme
Length = 252
Score = 26.6 bits (57), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 31 VMNAAEHHQATDVEWDPTGRYVMSGVSL 58
V AA ++Q DVE DP G +SGV +
Sbjct: 123 VAGAAYYYQRQDVEADPWGNQRISGVCI 150
>pdb|3SC0|A Chain A, Crystal Structure Of Mmachc (1-238), A Human B12
Processing Enzyme, Complexed With Methylcobalamin
Length = 241
Score = 26.6 bits (57), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 31 VMNAAEHHQATDVEWDPTGRYVMSGVSL 58
V AA ++Q DVE DP G +SGV +
Sbjct: 126 VAGAAYYYQRQDVEADPWGNQRISGVCI 153
>pdb|3SBZ|A Chain A, Crystal Structure Of Apo-Mmachc (1-244), A Human B12
Processing Enzyme
Length = 252
Score = 26.6 bits (57), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 31 VMNAAEHHQATDVEWDPTGRYVMSGVSL 58
V AA ++Q DVE DP G +SGV +
Sbjct: 123 VAGAAYYYQRQDVEADPWGNQRISGVCI 150
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 0.132 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,447,995
Number of Sequences: 62578
Number of extensions: 176501
Number of successful extensions: 395
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 388
Number of HSP's gapped (non-prelim): 8
length of query: 143
length of database: 14,973,337
effective HSP length: 89
effective length of query: 54
effective length of database: 9,403,895
effective search space: 507810330
effective search space used: 507810330
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 46 (22.3 bits)