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= 010185
(516 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4GBY|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
Proton:xylose Symporter Xyle Bound To D-Xylose
pdb|4GBZ|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
Proton:xylose Symporter Xyle Bound To D-Glucose
pdb|4GC0|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
Proton:xylose Symporter Xyle Bound To
6-Bromo-6-Deoxy-D-Glucose
Length = 491
Score = 167 bits (422), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 135/501 (26%), Positives = 224/501 (44%), Gaps = 59/501 (11%)
Query: 20 TSFVLVTCLVAAMGGLLFGYDLG-ISGGVTSMDQFLKDFFPKVYRKQLNKGHESAYCKFD 78
+S++ LVA +GGLLFGYD ISG V S++ V+ N +A
Sbjct: 7 SSYIFSITLVATLGGLLFGYDTAVISGTVESLN--------TVFVAPQNLSESAA----- 53
Query: 79 SQLLTLFTXXXXXXXXXXXXXXXXXTRMYGRKMSMTVGGISFLXX--------------- 123
+ LL + +GR+ S+ + + F
Sbjct: 54 NSLLGFCVASALIGCIIGGALGGYCSNRFGRRDSLKIAAVLFFISGVGSAWPELGFTSIN 113
Query: 124 ---XXXXXXXXXXXMLIIGRLMLGVGVGFANQVVPVYLSEMAPAKVRGALNIGFQMAITI 180
+I R++ G+GVG A+ + P+Y++E+APA +RG L Q AI
Sbjct: 114 PDNTVPVYLAGYVPEFVIYRIIGGIGVGLASMLSPMYIAELAPAHIRGKLVSFNQFAIIF 173
Query: 181 GILIANLVNYGTAKI-SGGW----GWRVSLALAAVPAILMTVGSFFLPDTPNSILERGHV 235
G L+ VNY A+ W GWR A +PA+L + + +P++P ++ RG
Sbjct: 174 GQLLVYCVNYFIARSGDASWLNTDGWRYMFASECIPALLFLMLLYTVPESPRWLMSRGKQ 233
Query: 236 DEAKKMLQKIRGTPNVDEEFQDLYDASEAAKQVHHPWTNILRGRYRPQLTMCTLIPFFQQ 295
++A+ +L+KI G + Q++ + + ++ G + + ++ FQQ
Sbjct: 234 EQAEGILRKIMGNTLATQAVQEIKHSLDHGRKTGGRLLMFGVGV----IVIGVMLSIFQQ 289
Query: 296 FTGINVIMFYAPVLFKTIGFGAEASLMSAVITGVVNVVATLVSVFSVDKFGRRVLFLEGG 355
F GINV+++YAP +FKT+G + +L+ +I GV+N+ T++++ +VDKFGR+ L + G
Sbjct: 290 FVGINVVLYYAPEVFKTLGASTDIALLQTIIVGVINLTFTVLAIMTVDKFGRKPLQIIGA 349
Query: 356 VQMFICQCLVGIMLALKFGLRGEGTLTKFDADFVLFLICAYVAAFAWSWGPLGWLVPSEV 415
+ M I M +L G T+ L + YVAAFA SWGP+ W++ SE+
Sbjct: 350 LGMAIG------MFSL-----GTAFYTQAPGIVALLSMLFYVAAFAMSWGPVCWVLLSEI 398
Query: 416 CALEIRSAGQAINVSTNMIFTFVVGQVFLSM------LCHXXXXXXXXXXXXXXXXXXXX 469
IR AI V+ + + V F M + H
Sbjct: 399 FPNAIRGKALAIAVAAQWLANYFVSWTFPMMDKNSWLVAHFHNGFSYWIYGCMGVLAALF 458
Query: 470 XY-MVPETRNVPIEEMNRMWK 489
+ VPET+ +EE+ +W+
Sbjct: 459 MWKFVPETKGKTLEELEALWE 479
>pdb|1MC4|A Chain A, Crystal Structure Of Aspartate-Semialdehyde Dehydrogenase
From Vibrio Cholerae El Tor
pdb|3PZR|A Chain A, Crystals Structure Of Aspartate Beta-Semialdehyde
Dehydrogenase From Vibrio Cholerae With Nadp And Product
Of S-Carbamoyl-L-Cysteine
pdb|3PZR|B Chain B, Crystals Structure Of Aspartate Beta-Semialdehyde
Dehydrogenase From Vibrio Cholerae With Nadp And Product
Of S-Carbamoyl-L-Cysteine
pdb|3Q0E|A Chain A, Crystals Structure Of Aspartate Beta-Semialdehyde
Dehydrogenase From Vibrio Cholerae With Product Of
S-Allyl-L-Cysteine Sulfoxide
pdb|3Q0E|B Chain B, Crystals Structure Of Aspartate Beta-Semialdehyde
Dehydrogenase From Vibrio Cholerae With Product Of
S-Allyl-L-Cysteine Sulfoxide
pdb|1MB4|A Chain A, Crystal Structure Of Aspartate Semialdehyde Dehydrogenase
From Vibrio Cholerae With Nadp And S-methyl-l-cysteine
Sulfoxide
pdb|1MB4|B Chain B, Crystal Structure Of Aspartate Semialdehyde Dehydrogenase
From Vibrio Cholerae With Nadp And S-methyl-l-cysteine
Sulfoxide
Length = 370
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 23/38 (60%), Gaps = 1/38 (2%)
Query: 477 RNVPIEEMNRMWKAHWFWGKYIPDEAVIGSSNEIQPNK 514
+N+P++E+ M H W K IP+E I ++ E+ P K
Sbjct: 284 QNIPLDEIEEMIATHNDWVKVIPNERDI-TARELTPAK 320
>pdb|3B8C|A Chain A, Crystal Structure Of A Plasma Membrane Proton Pump
pdb|3B8C|B Chain B, Crystal Structure Of A Plasma Membrane Proton Pump
Length = 885
Score = 28.9 bits (63), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 17/33 (51%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 170 LNIGFQMAITIGILIANLVNYGTAKISG-GWGW 201
L I F +A I LIA N+ AKI G GWGW
Sbjct: 787 LMIAFLIAQLIATLIAVYANWEFAKIRGIGWGW 819
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
0.326 0.140 0.434
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,653,022
Number of Sequences: 62578
Number of extensions: 464683
Number of successful extensions: 1430
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1424
Number of HSP's gapped (non-prelim): 5
length of query: 516
length of database: 14,973,337
effective HSP length: 103
effective length of query: 413
effective length of database: 8,527,803
effective search space: 3521982639
effective search space used: 3521982639
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 54 (25.4 bits)