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= psy8288
(177 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1SD7|A Chain A, Crystal Structure Of A Semet Derivative Of Meci At 2.65 A
pdb|1SD7|B Chain B, Crystal Structure Of A Semet Derivative Of Meci At 2.65 A
pdb|2D45|A Chain A, Crystal Structure Of The Meci-Meca Repressor-Operator
Complex
pdb|2D45|B Chain B, Crystal Structure Of The Meci-Meca Repressor-Operator
Complex
pdb|2D45|C Chain C, Crystal Structure Of The Meci-Meca Repressor-Operator
Complex
pdb|2D45|D Chain D, Crystal Structure Of The Meci-Meca Repressor-Operator
Complex
Length = 123
Score = 31.6 bits (70), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 41/85 (48%), Gaps = 5/85 (5%)
Query: 62 LMFSSKFTTTTVLYGVIKKAADCFSQRKIDTLLAKKKDLMKK-FRDMLGDNGVFLFPTFI 120
+++ K+ + + I+ D +S + I TL+ + L KK F D DN +F + + +
Sbjct: 18 IIWXKKYASANNIIEEIQXQKD-WSPKTIRTLITR---LYKKGFIDRKKDNKIFQYYSLV 73
Query: 121 NSAHYHYQIHYKFLNYGYVGLFNLL 145
+ Y+ F+N Y G FN L
Sbjct: 74 EESDIKYKTSKNFINKVYKGGFNSL 98
>pdb|1SD6|A Chain A, Crystal Structure Of Native Meci At 2.65 A
pdb|1SD6|B Chain B, Crystal Structure Of Native Meci At 2.65 A
Length = 123
Score = 30.4 bits (67), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 41/85 (48%), Gaps = 5/85 (5%)
Query: 62 LMFSSKFTTTTVLYGVIKKAADCFSQRKIDTLLAKKKDLMKK-FRDMLGDNGVFLFPTFI 120
+++ K+ + + I+ D +S + I TL+ + L KK F D DN +F + + +
Sbjct: 18 IIWMKKYASANNIIEEIQMQKD-WSPKTIRTLITR---LYKKGFIDRKKDNKIFQYYSLV 73
Query: 121 NSAHYHYQIHYKFLNYGYVGLFNLL 145
+ Y+ F+N Y G FN L
Sbjct: 74 EESDIKYKTSKNFINKVYKGGFNSL 98
>pdb|1OKR|A Chain A, Three-Dimensional Structure Of S.Aureus
Methicillin-Resistance Regulating Transcriptional
Repressor Meci.
pdb|1OKR|B Chain B, Three-Dimensional Structure Of S.Aureus
Methicillin-Resistance Regulating Transcriptional
Repressor Meci.
pdb|1SAX|A Chain A, Three-Dimensional Structure Of S.Aureus
Methicillin-Resistance Regulating Transcriptional
Repressor Meci In Complex With 25-Bp Ds- Dna
pdb|1SAX|B Chain B, Three-Dimensional Structure Of S.Aureus
Methicillin-Resistance Regulating Transcriptional
Repressor Meci In Complex With 25-Bp Ds- Dna
Length = 123
Score = 30.0 bits (66), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 41/85 (48%), Gaps = 5/85 (5%)
Query: 62 LMFSSKFTTTTVLYGVIKKAADCFSQRKIDTLLAKKKDLMKK-FRDMLGDNGVFLFPTFI 120
+++ K+ + + I+ D +S + I TL+ + L KK F D DN +F + + +
Sbjct: 18 IIWMKKYASANNIIEEIQMQKD-WSPKTIRTLITR---LYKKGFIDRKKDNKIFQYYSLV 73
Query: 121 NSAHYHYQIHYKFLNYGYVGLFNLL 145
+ Y+ F+N Y G FN L
Sbjct: 74 EESDIKYKTSKNFINKVYKGGFNSL 98
>pdb|2EC6|A Chain A, Placopecten Striated Muscle Myosin Ii
Length = 838
Score = 26.9 bits (58), Expect = 6.1, Method: Composition-based stats.
Identities = 36/158 (22%), Positives = 62/158 (39%), Gaps = 18/158 (11%)
Query: 17 FSLDWFRALLAGVFDMELKRLFIYRMLTLCFQVWSHSVTKEVLKWLMFSSKFTTTTVLYG 76
F + F L + L++ F + M F + KE ++W +
Sbjct: 469 FDFNSFEQLCINYTNERLQQFFNHHM----FVLEQEEYKKEGIQWEFIDFGMDLQMCI-D 523
Query: 77 VIKKAADCFSQRKIDTLLAKKKDLMKKFRDM-----LGDNGVFLFP---TFINSAHYHYQ 128
+I+K S + + + K D K F+D +G N +F P T N H H++
Sbjct: 524 LIEKPMGILSILEEECMFPKADD--KSFQDYSYQNHIGKNRMFTKPGKPTRPNQGHAHFE 581
Query: 129 IHYKFLN--YGYVGLFNLLEMPVT-NVTVGLGSNKLPV 163
+H+ N Y G + + P+ NV L +K P+
Sbjct: 582 LHHYAGNVPYSIAGWLDKNKDPINENVVSLLAVSKEPL 619
>pdb|2OS8|A Chain A, Rigor-Like Structures Of Muscle Myosins Reveal Key
Mechanical Elements In The Transduction Pathways Of This
Allosteric Motor
pdb|2OTG|A Chain A, Rigor-Like Structures Of Muscle Myosins Reveal Key
Mechanical Elements In The Transduction Pathways Of This
Allosteric Motor
Length = 840
Score = 26.9 bits (58), Expect = 6.1, Method: Composition-based stats.
Identities = 36/158 (22%), Positives = 62/158 (39%), Gaps = 18/158 (11%)
Query: 17 FSLDWFRALLAGVFDMELKRLFIYRMLTLCFQVWSHSVTKEVLKWLMFSSKFTTTTVLYG 76
F + F L + L++ F + M F + KE ++W +
Sbjct: 468 FDFNSFEQLCINYTNERLQQFFNHHM----FVLEQEEYKKEGIQWEFIDFGMDLQMCI-D 522
Query: 77 VIKKAADCFSQRKIDTLLAKKKDLMKKFRDM-----LGDNGVFLFP---TFINSAHYHYQ 128
+I+K S + + + K D K F+D +G N +F P T N H H++
Sbjct: 523 LIEKPMGILSILEEECMFPKADD--KSFQDYSYQNHIGKNRMFTKPGKPTRPNQGHAHFE 580
Query: 129 IHYKFLN--YGYVGLFNLLEMPVT-NVTVGLGSNKLPV 163
+H+ N Y G + + P+ NV L +K P+
Sbjct: 581 LHHYAGNVPYSIAGWLDKNKDPINENVVSLLAVSKEPL 618
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
0.329 0.140 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,676,689
Number of Sequences: 62578
Number of extensions: 175245
Number of successful extensions: 521
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 518
Number of HSP's gapped (non-prelim): 13
length of query: 177
length of database: 14,973,337
effective HSP length: 92
effective length of query: 85
effective length of database: 9,216,161
effective search space: 783373685
effective search space used: 783373685
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 48 (23.1 bits)