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= 001448
(1075 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2YL9|A Chain A, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YL9|B Chain B, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YL9|C Chain C, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YL9|D Chain D, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
Length = 457
Score = 33.5 bits (75), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 33/132 (25%), Positives = 59/132 (44%), Gaps = 12/132 (9%)
Query: 381 FLGKQLQAVDASPFMKIAALRTLSYTLKTLGEV-------PS-EFK-EVLDSTVVAAVSH 431
FL K ++ +PF ++A+ + L T+G + PS E+K E + + A H
Sbjct: 310 FLKKAIENTGKTPFNQLASTKYPEVDLPTVGSMLSIWADRPSAEYKEEEIFELMTAFADH 369
Query: 432 SSQLVRIEAALTLRALAEVDPTCVSGLITYGVTTLNALRENVSFEKGSSLMVELDSLHGQ 491
+ R LA++ PT + G + L+A + +++ + ELD+L
Sbjct: 370 NKDYFRANYNALREELAKI-PTNLEGYSKESLEALDAAKTALNYNLNRNKQAELDTL--V 426
Query: 492 ATVVAALIFISP 503
A + AAL + P
Sbjct: 427 ANLKAALQGLKP 438
>pdb|2YL5|A Chain A, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YL5|B Chain B, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YL5|C Chain C, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YL5|D Chain D, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
Length = 442
Score = 33.5 bits (75), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 33/132 (25%), Positives = 59/132 (44%), Gaps = 12/132 (9%)
Query: 381 FLGKQLQAVDASPFMKIAALRTLSYTLKTLGEV-------PS-EFK-EVLDSTVVAAVSH 431
FL K ++ +PF ++A+ + L T+G + PS E+K E + + A H
Sbjct: 293 FLKKAIENTGKTPFNQLASTKYPEVDLPTVGSMLSIWADRPSAEYKEEEIFELMTAFADH 352
Query: 432 SSQLVRIEAALTLRALAEVDPTCVSGLITYGVTTLNALRENVSFEKGSSLMVELDSLHGQ 491
+ R LA++ PT + G + L+A + +++ + ELD+L
Sbjct: 353 NKDYFRANYNALREELAKI-PTNLEGYSKESLEALDAAKTALNYNLNRNKQAELDTL--V 409
Query: 492 ATVVAALIFISP 503
A + AAL + P
Sbjct: 410 ANLKAALQGLKP 421
>pdb|2YLA|A Chain A, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YLA|B Chain B, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YLA|C Chain C, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YLA|D Chain D, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
Length = 442
Score = 33.5 bits (75), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 33/132 (25%), Positives = 59/132 (44%), Gaps = 12/132 (9%)
Query: 381 FLGKQLQAVDASPFMKIAALRTLSYTLKTLGEV-------PS-EFK-EVLDSTVVAAVSH 431
FL K ++ +PF ++A+ + L T+G + PS E+K E + + A H
Sbjct: 293 FLKKAIENTGKTPFNQLASTKYPEVDLPTVGSMLSIWADRPSAEYKEEEIFELMTAFADH 352
Query: 432 SSQLVRIEAALTLRALAEVDPTCVSGLITYGVTTLNALRENVSFEKGSSLMVELDSLHGQ 491
+ R LA++ PT + G + L+A + +++ + ELD+L
Sbjct: 353 NKDYFRANYNALREELAKI-PTNLEGYSKESLEALDAAKTALNYNLNRNKQAELDTL--V 409
Query: 492 ATVVAALIFISP 503
A + AAL + P
Sbjct: 410 ANLKAALQGLKP 421
>pdb|2RO1|A Chain A, Nmr Solution Structures Of Human Kap1 Phd
Finger-Bromodomain
Length = 189
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 29/104 (27%), Positives = 46/104 (44%), Gaps = 7/104 (6%)
Query: 62 QRKCEDALYSLLILGARRPVRHLASVAMGRIISKGDNISVYSRVSSLQGFLSDGKKSEPQ 121
QRKCE L +L RP+ LA+ + + G + + + LQ LS S PQ
Sbjct: 78 QRKCERVLLALFCHEPCRPLHQLATDSTFSLDQPGGTLDLTLIRARLQEKLS-PPYSSPQ 136
Query: 122 KVAGAAQCLGELYRQFGRRITSGLLETTIIAAKLM---KFNEEF 162
+ AQ +G +++QF + +II + + NE F
Sbjct: 137 EF---AQDVGRMFKQFNKLTEDKADVQSIIGLQRFFETRMNEAF 177
>pdb|1YKD|A Chain A, Crystal Structure Of The Tandem Gaf Domains From A
Cyanobacterial Adenylyl Cyclase: Novel Modes Of
Ligand-Binding And Dimerization
pdb|1YKD|B Chain B, Crystal Structure Of The Tandem Gaf Domains From A
Cyanobacterial Adenylyl Cyclase: Novel Modes Of
Ligand-Binding And Dimerization
Length = 398
Score = 30.0 bits (66), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 21/40 (52%)
Query: 1024 PDSVIEERIEGNLFHMLDEETDSEYVKSYTLCLAYFSSFY 1063
PD+++ ERI+ F DE+ E+ S L L SFY
Sbjct: 150 PDALLAERIDNQGFTSADEQLFQEFAPSIRLILESSRSFY 189
>pdb|2QK2|A Chain A, Structural Basis Of Microtubule Plus End Tracking By
Xmap215 And Eb1
Length = 242
Score = 29.6 bits (65), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 19/25 (76%)
Query: 238 VKAIEDPIASVRDAFAEALGSLLAL 262
VK + +P +VRD+ AEALG+L+ L
Sbjct: 182 VKTLNEPDPTVRDSSAEALGTLIKL 206
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
0.322 0.135 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 27,523,414
Number of Sequences: 62578
Number of extensions: 1012846
Number of successful extensions: 1912
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1910
Number of HSP's gapped (non-prelim): 6
length of query: 1075
length of database: 14,973,337
effective HSP length: 109
effective length of query: 966
effective length of database: 8,152,335
effective search space: 7875155610
effective search space used: 7875155610
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: 57 (26.6 bits)