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= 041050
(408 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4HXT|A Chain A, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or329
Length = 252
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 45/200 (22%), Positives = 85/200 (42%), Gaps = 18/200 (9%)
Query: 113 FTGLDKHSQ------FRDSGNGQKAPITKLFEQVGLHKILSLLESEDANVRIHAVKVVAN 166
T D +Q + +G + I + + G+ ++ LL S D+ V+ A + +AN
Sbjct: 11 LTSTDSETQKEAARDLAEIASGPASAIKAIVDAGGVEVLVKLLTSTDSEVQKEAARALAN 70
Query: 167 LAA--EEANQEKIVEAGGXXXXXXXXXXFEDETIRRVXXXXXXXXXXXXXXXQELIMAQG 224
+A+ +EA + IV+AGG + E + + ++ A G
Sbjct: 71 IASGPDEAIK-AIVDAGGVEVLVKLLTSTDSEVQKEAARALANIASGPDEAIKAIVDAGG 129
Query: 225 G---ISLLSTTAADAEDPQTLRMVAGAIANLC-GNDKLQMKLRSEGGIRALLGMVRCGHP 280
+ LL++T D + + A A+AN+ G D+ + GG+ L+ ++
Sbjct: 130 VEVLVKLLTST-----DSEVQKEAARALANIASGPDEAIKAIVDAGGVEVLVKLLTSTDS 184
Query: 281 DVLSQVARGIANFAKCESRA 300
+V + AR +AN A + A
Sbjct: 185 EVQKEAARALANIASGPTSA 204
>pdb|3QBD|A Chain A, 3-Dehydroquinate Synthase (Arob) From Mycobacterium
Tuberculosis In Complex With Nad
pdb|3QBD|B Chain B, 3-Dehydroquinate Synthase (Arob) From Mycobacterium
Tuberculosis In Complex With Nad
pdb|3QBE|A Chain A, Crystal Structure Of The 3-Dehydroquinate Synthase (Arob)
From Mycobacterium Tuberculosis
Length = 368
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 45/91 (49%), Gaps = 6/91 (6%)
Query: 15 SAAEDIAEIRKLLQNEIHMRKTAEEELNKLKSRLGQYTESGSCRDAEMSKLHKTLEDETL 74
+A E +E+R++L N H A E + + R G G AE+++L L+D T
Sbjct: 239 AADEKESELREIL-NYGHTLGHAIERRERYRWRHGAAVSVGLVFAAELARLAGRLDDATA 297
Query: 75 QKRKLEEEIVILRSQLLQLTFEADQMQKCLE 105
Q+ + IL S L ++++ D + + LE
Sbjct: 298 QRHR-----TILSSLGLPVSYDPDALPQLLE 323
>pdb|3IZR|Q Chain Q, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 304
Score = 32.0 bits (71), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 33/70 (47%), Gaps = 6/70 (8%)
Query: 32 HMRKTAEEELNKLKSRLGQYTESGSCRDAEMSKLHKTLE-----DETLQKRKLEEEIVIL 86
+MR AEEE K ++ +Y + G D M L+K + D T+ K +E
Sbjct: 207 YMRSMAEEEPEKFQAHFSEYLKKGIDADG-MESLYKKVHAAIRADPTMAKSTKKEPATHK 265
Query: 87 RSQLLQLTFE 96
R L +LT+E
Sbjct: 266 RYNLKKLTYE 275
>pdb|3P4E|A Chain A, Phosphoribosylformylglycinamidine Cyclo-Ligase From Vibrio
Cholerae
Length = 349
Score = 32.0 bits (71), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 21/32 (65%)
Query: 339 APIRRHIELALCHLAQHEVNAREMISGGALWE 370
AP + +I+ L +A+H+++A I+GG WE
Sbjct: 227 APTKIYIKSGLKLIAEHDIHAISHITGGGFWE 258
>pdb|3NOW|A Chain A, Unc-45 From Drosophila Melanogaster
Length = 810
Score = 31.6 bits (70), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 30/55 (54%)
Query: 220 IMAQGGISLLSTTAADAEDPQTLRMVAGAIANLCGNDKLQMKLRSEGGIRALLGM 274
++A GI+ A E + ++A + +CG +L+ K+ EGG++ALL M
Sbjct: 490 VLANEGITTALCALAKTESHNSQELIARVLNAVCGLKELRGKVVQEGGVKALLRM 544
>pdb|3NWY|A Chain A, Structure And Allosteric Regulation Of The Uridine
Monophosphate Kinase From Mycobacterium Tuberculosis
pdb|3NWY|B Chain B, Structure And Allosteric Regulation Of The Uridine
Monophosphate Kinase From Mycobacterium Tuberculosis
pdb|3NWY|C Chain C, Structure And Allosteric Regulation Of The Uridine
Monophosphate Kinase From Mycobacterium Tuberculosis
pdb|3NWY|D Chain D, Structure And Allosteric Regulation Of The Uridine
Monophosphate Kinase From Mycobacterium Tuberculosis
pdb|3NWY|E Chain E, Structure And Allosteric Regulation Of The Uridine
Monophosphate Kinase From Mycobacterium Tuberculosis
pdb|3NWY|F Chain F, Structure And Allosteric Regulation Of The Uridine
Monophosphate Kinase From Mycobacterium Tuberculosis
Length = 281
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 6/64 (9%)
Query: 233 AADAEDPQTLRMVAGAIANLCGNDKLQMKLRSEGGIRALLGMVRCG-HPDVLSQVARGIA 291
A A P+ A + A L G ++ +KL E + G + G PDV++QVAR IA
Sbjct: 28 GAPASKPEPASTGAASAAQLSGYSRVLLKLGGE-----MFGGGQVGLDPDVVAQVARQIA 82
Query: 292 NFAK 295
+ +
Sbjct: 83 DVVR 86
>pdb|4B8J|A Chain A, Rimp_alpha1a
Length = 528
Score = 28.5 bits (62), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 35/167 (20%), Positives = 73/167 (43%), Gaps = 21/167 (12%)
Query: 217 QELIMAQGGISLLSTTAADAEDPQTLRMVAGAIANLCGNDKLQMKLRSEGGIRALLGMVR 276
+E + AQ + + T D + M+ G ++ ++ LQ++ ++ R LL + R
Sbjct: 52 REGLQAQAPVPASAATGVDKKLESLPAMIGGVYSD---DNNLQLEATTQ--FRKLLSIER 106
Query: 277 CGHPDVLSQVARGIA----------NFAKCESRAATQVRFIRCTATGVKSGRSLLIEDGA 326
P + + G+ +F + + AA + I A+G ++I+ GA
Sbjct: 107 --SPPIEEVIQSGVVPRFVQFLTREDFPQLQFEAAWALTNI---ASGTSENTKVVIDHGA 161
Query: 327 LPWIVQNANNEAAPIRRHIELALCHLAQHEVNAREMI-SGGALWELV 372
+P V+ + + +R AL ++A R+++ + GAL L+
Sbjct: 162 VPIFVKLLGSSSDDVREQAVWALGNVAGDSPKCRDLVLANGALLPLL 208
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
0.318 0.132 0.370
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,888,332
Number of Sequences: 62578
Number of extensions: 347489
Number of successful extensions: 1062
Number of sequences better than 100.0: 36
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 30
Number of HSP's that attempted gapping in prelim test: 1036
Number of HSP's gapped (non-prelim): 42
length of query: 408
length of database: 14,973,337
effective HSP length: 101
effective length of query: 307
effective length of database: 8,652,959
effective search space: 2656458413
effective search space used: 2656458413
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: 53 (25.0 bits)