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= 045324
(394 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2WML|A Chain A, Crystal Structure Of A Mammalian Sialyltransferase
Length = 298
Score = 77.0 bits (188), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 63/235 (26%), Positives = 104/235 (44%), Gaps = 29/235 (12%)
Query: 123 YRYWLDFRRNLNDWARKKKFQSDVMNDLVRLVKHSIDK--HNGLIGSDKKYESCAVVGNS 180
Y++WL +R +K +D + +L ++V ++D L+ + CAVVGNS
Sbjct: 56 YKWWLRLQRE-----KKPNNLNDTIRELFQVVPGNVDPLLEKRLVSCRR----CAVVGNS 106
Query: 181 GILLNSNYGDLIDSHEMVIRLNNARIERYEQHVGSKTSLSFVNSNILHLCARREGCFCHP 240
G L S YG IDSH+ V+R N A E +E VGSKT+ FV A+ P
Sbjct: 107 GNLKESYYGPQIDSHDFVLRXNKAPTEGFEADVGSKTTHHFVYPESFRELAQEVSXILVP 166
Query: 241 YGENVPMIMYICQPMHFLDYTRCNGSHKAPLLITDPRFDMLCSRIVKYYSLKGFVEETGK 300
+ + ++ G + + + +I+ Y+ F++
Sbjct: 167 FK---------TTDLEWVISATTTGRISHTYVPVPAKIKVKKEKILIYHP--AFIKYV-- 213
Query: 301 SLEEWGSAHEGSLFHYSSGMQAVMLSLGICDKVSIFGFGKSAAAK-HHYHTNQKA 354
+ W H + S+G+ +V+ SL ICD+V ++GFG + HHY N +
Sbjct: 214 -FDRWLQGHGR---YPSTGILSVIFSLHICDEVDLYGFGADSKGNWHHYWENNPS 264
>pdb|2WNB|A Chain A, Crystal Structure Of A Mammalian Sialyltransferase In
Complex With Disaccharide And Cmp
pdb|2WNF|A Chain A, Crystal Structure Of A Mammalian Sialyltransferase In
Complex With Gal-Beta-1-3galnac-Ortho-Nitrophenol
Length = 298
Score = 75.9 bits (185), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 62/235 (26%), Positives = 104/235 (44%), Gaps = 29/235 (12%)
Query: 123 YRYWLDFRRNLNDWARKKKFQSDVMNDLVRLVKHSIDK--HNGLIGSDKKYESCAVVGNS 180
Y++WL +R ++ +D + +L ++V ++D L+ + CAVVGNS
Sbjct: 56 YKWWLRLQRE-----KQPNNLNDTIRELFQVVPGNVDPLLEKRLVSCRR----CAVVGNS 106
Query: 181 GILLNSNYGDLIDSHEMVIRLNNARIERYEQHVGSKTSLSFVNSNILHLCARREGCFCHP 240
G L S YG IDSH+ V+R N A E +E VGSKT+ FV A+ P
Sbjct: 107 GNLKESYYGPQIDSHDFVLRXNKAPTEGFEADVGSKTTHHFVYPESFRELAQEVSXILVP 166
Query: 241 YGENVPMIMYICQPMHFLDYTRCNGSHKAPLLITDPRFDMLCSRIVKYYSLKGFVEETGK 300
+ + ++ G + + + +I+ Y+ F++
Sbjct: 167 FK---------TTDLEWVISATTTGRISHTYVPVPAKIKVKKEKILIYHP--AFIKYV-- 213
Query: 301 SLEEWGSAHEGSLFHYSSGMQAVMLSLGICDKVSIFGFGKSAAAK-HHYHTNQKA 354
+ W H + S+G+ +V+ SL ICD+V ++GFG + HHY N +
Sbjct: 214 -FDRWLQGHGR---YPSTGILSVIFSLHICDEVDLYGFGADSKGNWHHYWENNPS 264
>pdb|1OJL|A Chain A, Crystal Structure Of A Sigma54-activator Suggests The
Mechanism For The Conformational Switch Necessary For
Sigma54 Binding
pdb|1OJL|B Chain B, Crystal Structure Of A Sigma54-activator Suggests The
Mechanism For The Conformational Switch Necessary For
Sigma54 Binding
pdb|1OJL|C Chain C, Crystal Structure Of A Sigma54-activator Suggests The
Mechanism For The Conformational Switch Necessary For
Sigma54 Binding
pdb|1OJL|D Chain D, Crystal Structure Of A Sigma54-activator Suggests The
Mechanism For The Conformational Switch Necessary For
Sigma54 Binding
pdb|1OJL|E Chain E, Crystal Structure Of A Sigma54-activator Suggests The
Mechanism For The Conformational Switch Necessary For
Sigma54 Binding
pdb|1OJL|F Chain F, Crystal Structure Of A Sigma54-activator Suggests The
Mechanism For The Conformational Switch Necessary For
Sigma54 Binding
Length = 304
Score = 31.6 bits (70), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 28/56 (50%), Gaps = 2/56 (3%)
Query: 166 GSDKKYESCAVVGNSGILLNSNYGDLIDSHEMVIRLNNARIERYEQHVGSKTSLSF 221
G+DK+ E V + G L GD+ S M +RL A ER Q VGS ++S
Sbjct: 83 GADKRREGRFVEADGGTLFLDEIGDI--SPLMQVRLLRAIQEREVQRVGSNQTISV 136
>pdb|3VDG|A Chain A, Crystal Structure Of Enolase Msmeg_6132 (Target
Efi-502282) From Mycobacterium Smegmatis Str. Mc2 155
Complexed With Formate And Acetate
pdb|3VFC|A Chain A, Crystal Structure Of Enolase Msmeg_6132 (Target
Efi-502282) From Mycobacterium Smegmatis Str. Mc2 155
Complexed With Tartrate
Length = 445
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 35/82 (42%), Gaps = 11/82 (13%)
Query: 315 HYSSGMQAVMLSLGICDKVSIFGFGKSAAAKHHYHTNQKAELHL--------HDYNAEYV 366
HY G+Q L GICD FG G S + H + A +HL + + +
Sbjct: 318 HYWGGLQRSRLLAGICDT---FGLGLSMHSNSHLGISLAAMVHLAAATPNLTYACDTHWP 374
Query: 367 FYHDLVKNQRAVPFISDKFKIP 388
+ H+ V A+ F + ++P
Sbjct: 375 WRHEDVVAPGALNFCDGEVQVP 396
>pdb|2I75|A Chain A, Crystal Structure Of Human Protein Tyrosine Phosphatase N4
(Ptpn4)
Length = 320
Score = 28.1 bits (61), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 253 QPMHFLDYTRCNGSHKAPLLITDPRFDMLCSRIVKYYSLKGFVEETGKS 301
QP++ LD R +A ++ T ++ +C I+K Y +GFV+ S
Sbjct: 268 QPVYPLDIVRTMRDQRAMMIQTPSQYRFVCEAILKVYE-EGFVKPLTTS 315
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
0.324 0.139 0.433
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,510,212
Number of Sequences: 62578
Number of extensions: 453815
Number of successful extensions: 1293
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1288
Number of HSP's gapped (non-prelim): 11
length of query: 394
length of database: 14,973,337
effective HSP length: 101
effective length of query: 293
effective length of database: 8,652,959
effective search space: 2535316987
effective search space used: 2535316987
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 52 (24.6 bits)