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= 042754
(178 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2KS6|A Chain A, Nmr Solution Structure Of Alg13 --- Obtained With
Iterative Cs-Rosetta From Backbone Nmr Data
Length = 201
Score = 85.1 bits (209), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 61/180 (33%), Positives = 88/180 (48%), Gaps = 34/180 (18%)
Query: 11 KRIVFVTVGTTC-FDALVKAVDTLEVKQELTRRGYTHLLIQMGRG--------------- 54
++ +FVT G T F LV V + E QEL + G+ L+IQ GR
Sbjct: 5 EKALFVTCGATVPFPKLVSCVLSDEFCQELIQYGFVRLIIQFGRNYSSEFEHLVQERGGQ 64
Query: 55 ---TYVPTKSLG----------EDGLMAVDYFTFSSSIADHLRSAS-LVISHAGSGSIFE 100
+P G +G + V F FS+ + +R S LVISHAG+GSI +
Sbjct: 65 RESQKIPIDQFGCGDTARQYVLMNGKLKVIGFDFSTKMQSIIRDYSDLVISHAGTGSILD 124
Query: 101 TLRHGKPLIVVVNEDLMDNHQSELAEELAARKHLYCAHPQSLHQVIAGM---DLESLLPY 157
+LR KPLIV VN+ LMDNHQ ++A++ +++ P +IAG+ E L P+
Sbjct: 125 SLRLNKPLIVCVNDSLMDNHQQQIADKFVELGYVWSCAPTETG-LIAGLRASQTEKLKPF 183
>pdb|2JZC|A Chain A, Nmr Solution Structure Of Alg13: The Sugar Donor Subunit
Of A Yeast N-Acetylglucosamine Transferase. Northeast
Structural Genomics Consortium Target Yg1
Length = 224
Score = 84.7 bits (208), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 61/180 (33%), Positives = 88/180 (48%), Gaps = 34/180 (18%)
Query: 11 KRIVFVTVGTTC-FDALVKAVDTLEVKQELTRRGYTHLLIQMGRG--------------- 54
++ +FVT G T F LV V + E QEL + G+ L+IQ GR
Sbjct: 28 EKALFVTCGATVPFPKLVSCVLSDEFCQELIQYGFVRLIIQFGRNYSSEFEHLVQERGGQ 87
Query: 55 ---TYVPTKSLG----------EDGLMAVDYFTFSSSIADHLRSAS-LVISHAGSGSIFE 100
+P G +G + V F FS+ + +R S LVISHAG+GSI +
Sbjct: 88 RESQKIPIDQFGCGDTARQYVLMNGKLKVIGFDFSTKMQSIIRDYSDLVISHAGTGSILD 147
Query: 101 TLRHGKPLIVVVNEDLMDNHQSELAEELAARKHLYCAHPQSLHQVIAGM---DLESLLPY 157
+LR KPLIV VN+ LMDNHQ ++A++ +++ P +IAG+ E L P+
Sbjct: 148 SLRLNKPLIVCVNDSLMDNHQQQIADKFVELGYVWSCAPTETG-LIAGLRASQTEKLKPF 206
>pdb|3RSC|A Chain A, Crystal Structure Of Calg2, Calicheamicin
Glycosyltransferase, Tdp And Calicheamicin T0 Bound Form
pdb|3RSC|B Chain B, Crystal Structure Of Calg2, Calicheamicin
Glycosyltransferase, Tdp And Calicheamicin T0 Bound Form
Length = 415
Score = 32.3 bits (72), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 20/29 (68%)
Query: 83 LRSASLVISHAGSGSIFETLRHGKPLIVV 111
L A++ ++H G G++ E L G+PL+VV
Sbjct: 311 LEQATVCVTHGGXGTLXEALYWGRPLVVV 339
>pdb|3IAA|A Chain A, Crystal Structure Of Calg2, Calicheamicin
Glycosyltransferase, Tdp Bound Form
pdb|3IAA|B Chain B, Crystal Structure Of Calg2, Calicheamicin
Glycosyltransferase, Tdp Bound Form
Length = 416
Score = 32.3 bits (72), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 20/29 (68%)
Query: 83 LRSASLVISHAGSGSIFETLRHGKPLIVV 111
L A++ ++H G G++ E L G+PL+VV
Sbjct: 311 LEQATVCVTHGGXGTLXEALYWGRPLVVV 339
>pdb|2IYF|A Chain A, The Crystal Structure Of Macrolide Glycosyltransferases: A
Blueprint For Antibiotic Engineering
pdb|2IYF|B Chain B, The Crystal Structure Of Macrolide Glycosyltransferases: A
Blueprint For Antibiotic Engineering
Length = 430
Score = 32.0 bits (71), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 34/68 (50%), Gaps = 8/68 (11%)
Query: 46 HLLIQMGRGTYVPTKSLGE--DGLMAVDYFTFSSSIADHLRSASLVISHAGSGSIFETLR 103
HL++Q+GR V LGE D + D+ + LR A L ++HAG+G E L
Sbjct: 264 HLVLQIGR--KVTPAELGELPDNVEVHDWVPQLAI----LRQADLFVTHAGAGGSQEGLA 317
Query: 104 HGKPLIVV 111
P+I V
Sbjct: 318 TATPMIAV 325
>pdb|2IYA|A Chain A, The Crystal Structure Of Macrolide Glycosyltransferases: A
Blueprint For Antibiotic Engineering
pdb|2IYA|B Chain B, The Crystal Structure Of Macrolide Glycosyltransferases: A
Blueprint For Antibiotic Engineering
Length = 424
Score = 30.0 bits (66), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 45/91 (49%), Gaps = 9/91 (9%)
Query: 46 HLLIQMGRGTYVPTKSLGEDGLMAVDYFTFSSSIADHLRSASLVISHAGSGSIFETLRHG 105
H+++ +GR +V LGE V+ + + D L AS I+HAG GS E L +
Sbjct: 286 HVVLSVGR--FVDPADLGE-VPPNVEVHQWVPQL-DILTKASAFITHAGMGSTMEALSNA 341
Query: 106 KPLIVV--VNEDLMDNHQSELAEELAARKHL 134
P++ V + E M+ +E EL +H+
Sbjct: 342 VPMVAVPQIAEQTMN---AERIVELGLGRHI 369
>pdb|3S2U|A Chain A, Crystal Structure Of The Pseudomonas Aeruginosa
Murg:udp-Glcnac Substrate Complex
Length = 365
Score = 30.0 bits (66), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 28/58 (48%)
Query: 71 DYFTFSSSIADHLRSASLVISHAGSGSIFETLRHGKPLIVVVNEDLMDNHQSELAEEL 128
D F S +A A LVI AG+ ++ E G P +V +D+HQ+ AE L
Sbjct: 238 DVAPFISDMAAAYAWADLVICRAGALTVSELTAAGLPAFLVPLPHAIDDHQTRNAEFL 295
>pdb|4H0P|A Chain A, Crystal Structure Of Acetate Kinase From Cryptococcus
Neoformans
pdb|4H0P|B Chain B, Crystal Structure Of Acetate Kinase From Cryptococcus
Neoformans
Length = 438
Score = 29.6 bits (65), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 66 GLMAVDYFTFSSSIADHLRSAS----LVISHAGSGSIFETLRHGKPL 108
G + Y + S+A+HL+ S +V++H GSGS +++GK +
Sbjct: 190 GFHGLSYASIVQSLAEHLKKPSDQINVVVAHLGSGSSSCCIKNGKSI 236
>pdb|2HQM|A Chain A, Crystal Structure Of Glutathione Reductase Glr1 From The
Yeast Saccharomyces Cerevisiae
pdb|2HQM|B Chain B, Crystal Structure Of Glutathione Reductase Glr1 From The
Yeast Saccharomyces Cerevisiae
Length = 479
Score = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 33/71 (46%), Gaps = 5/71 (7%)
Query: 75 FSSSIADHLRSASLVISHAGSGSI----FETL-RHGKPLIVVVNEDLMDNHQSELAEELA 129
F + D+ S++ SH +GSI E + ++GK I V N + + L+E+
Sbjct: 350 FRNDKLDYENVPSVIFSHPEAGSIGISEKEAIEKYGKENIKVYNSKFTAMYYAMLSEKSP 409
Query: 130 ARKHLYCAHPQ 140
R + CA P
Sbjct: 410 TRYKIVCAGPN 420
>pdb|2GA1|A Chain A, Crystal Structure Of A Duf433 Member Protein (Ava_0674)
From Anabaena Variabilis Atcc 29413 At 2.00 A Resolution
pdb|2GA1|B Chain B, Crystal Structure Of A Duf433 Member Protein (Ava_0674)
From Anabaena Variabilis Atcc 29413 At 2.00 A Resolution
Length = 106
Score = 26.6 bits (57), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 24/39 (61%)
Query: 113 NEDLMDNHQSELAEELAARKHLYCAHPQSLHQVIAGMDL 151
+++L+ N+ AE+L+A H Y +P+ + + IA DL
Sbjct: 67 DKELLANYPGLTAEDLSAAWHYYEQNPEQIDREIAQDDL 105
>pdb|4AF0|B Chain B, Crystal Structure Of Cryptococcal Inosine Monophosphate
Dehydrogenase
Length = 556
Score = 26.6 bits (57), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 30/71 (42%), Gaps = 2/71 (2%)
Query: 67 LMAVDYFTFSSSIADHLRSASLVISHAGSGSIFETLRHGKPLIVVVNEDLMDNHQSELAE 126
+M + T SS I L A+ ++ G + +G + +V DL+ N A
Sbjct: 205 VMTTEVVTGSSPIT--LEKANSLLRETKKGKLPIVDSNGHLVSLVARSDLLKNQNYPYAS 262
Query: 127 ELAARKHLYCA 137
++ K LYC
Sbjct: 263 KVPESKQLYCG 273
>pdb|4AF0|A Chain A, Crystal Structure Of Cryptococcal Inosine Monophosphate
Dehydrogenase
Length = 556
Score = 26.6 bits (57), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 30/71 (42%), Gaps = 2/71 (2%)
Query: 67 LMAVDYFTFSSSIADHLRSASLVISHAGSGSIFETLRHGKPLIVVVNEDLMDNHQSELAE 126
+M + T SS I L A+ ++ G + +G + +V DL+ N A
Sbjct: 205 VMTTEVVTGSSPIT--LEKANSLLRETKKGKLPIVDSNGHLVSLVARSDLLKNQNYPYAS 262
Query: 127 ELAARKHLYCA 137
++ K LYC
Sbjct: 263 KVPESKQLYCG 273
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 0.136 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,024,107
Number of Sequences: 62578
Number of extensions: 184843
Number of successful extensions: 447
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 435
Number of HSP's gapped (non-prelim): 19
length of query: 178
length of database: 14,973,337
effective HSP length: 92
effective length of query: 86
effective length of database: 9,216,161
effective search space: 792589846
effective search space used: 792589846
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)