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= 016431
(389 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 = 157 bits (396), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 133/433 (30%), Positives = 210/433 (48%), Gaps = 74/433 (17%)
Query: 1 MVGAIASGQIAEYIGRKGSLMIAAVPNII-----GWLIISFSK---DSSF---------- 42
++G G + GR+ SL IAAV I W + F+ D++
Sbjct: 69 IIGGALGGYCSNRFGRRDSLKIAAVLFFISGVGSAWPELGFTSINPDNTVPVYLAGYVPE 128
Query: 43 LFMGRLLEGFGVGVISYTVPVYIAEIAPQNMRGSLGSVNQLSVTIGIMLAYLLGLFV--- 99
+ R++ G GVG+ S P+YIAE+AP ++RG L S NQ ++ G +L Y + F+
Sbjct: 129 FVIYRIIGGIGVGLASMLSPMYIAELAPAHIRGKLVSFNQFAIIFGQLLVYCVNYFIARS 188
Query: 100 ---------NWRVLAVLGVLPCTLLIPGLFFIPESPRWLAKMGMTEDFESSLQVLRGFDT 150
WR + +P L + L+ +PESPRWL G E E L+ + G +T
Sbjct: 189 GDASWLNTDGWRYMFASECIPALLFLMLLYTVPESPRWLMSRGKQEQAEGILRKIMG-NT 247
Query: 151 DISIEVNEIKRSVASSSRRTAIRFAELKRKRYWFPLMIGIGLLVL-------QQLSGING 203
+ V EIK S+ R+T R LM G+G++V+ QQ GIN
Sbjct: 248 LATQAVQEIKHSL-DHGRKTGGRL-----------LMFGVGVIVIGVMLSIFQQFVGINV 295
Query: 204 VLFYSSNIFANAGISSSNVA---TFGLGVVQVVATGVNTWLMDKAGRRXXXXXXXXGMXX 260
VL+Y+ +F G +S+++A T +GV+ + T + +DK GR+ GM
Sbjct: 296 VLYYAPEVFKTLG-ASTDIALLQTIIVGVINLTFTVLAIMTVDKFGRKPLQIIGALGMAI 354
Query: 261 XXXXXXXXXXXEGFVSEDSRFYS-ILGILSLVGLVTVVISFSLGVGAIPWVIMSEILPVN 319
G S + FY+ GI++L+ ++ V +F++ G + WV++SEI P
Sbjct: 355 ------------GMFSLGTAFYTQAPGIVALLSMLFYVAAFAMSWGPVCWVLLSEIFPNA 402
Query: 320 I--KSLAGSVAT--LANWLVSWIVTMTAN---FLLDWSSGGTFLIYGIVCAFTVAFVSLW 372
I K+LA +VA LAN+ VSW M + + +G ++ IYG + F+ +
Sbjct: 403 IRGKALAIAVAAQWLANYFVSWTFPMMDKNSWLVAHFHNGFSYWIYGCMGVLAALFMWKF 462
Query: 373 VPETKGRSLEEIQ 385
VPETKG++LEE++
Sbjct: 463 VPETKGKTLEELE 475
>pdb|2D6F|A Chain A, Crystal Structure Of Glu-Trna(Gln) Amidotransferase In The
Complex With Trna(Gln)
pdb|2D6F|B Chain B, Crystal Structure Of Glu-Trna(Gln) Amidotransferase In The
Complex With Trna(Gln)
Length = 435
Score = 36.2 bits (82), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 33/139 (23%), Positives = 63/139 (45%), Gaps = 33/139 (23%)
Query: 26 PNIIGWLIISFSKDSSFLFMGRLLEGFGVGVISYT-VPVYIAEIAPQNMRGSLGSVNQLS 84
P+II W + + G ++EG G+G T +PV +G + +
Sbjct: 315 PDIIKWHLDEG-------YRGIVIEGTGLGHCPDTLIPV-------------IGEAHDMG 354
Query: 85 VTIGIMLAYLLG-----LFVNWRVLAVLGVLPCTLLIPGLFFIPESPRWLAKMGMTEDFE 139
V + + L G ++ R L GV+PC ++P + ++ W+ +G T+D E
Sbjct: 355 VPVAMTSQCLNGRVNMNVYSTGRRLLQAGVIPCDDMLPEVAYVKMC--WV--LGQTDDPE 410
Query: 140 SSLQVLRGFDTDISIEVNE 158
+ +++R +I+ E+NE
Sbjct: 411 MAREMMR---ENIAGEINE 426
>pdb|2CLY|B Chain B, Subcomplex Of The Stator Of Bovine Mitochondrial Atp
Synthase
pdb|2CLY|E Chain E, Subcomplex Of The Stator Of Bovine Mitochondrial Atp
Synthase
Length = 160
Score = 35.0 bits (79), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 35/76 (46%), Gaps = 2/76 (2%)
Query: 301 SLGVGAIPWVIMSEILPVNIKSLAGSVATLANWLVSWIVTMTAN-FLLDWS-SGGTFLIY 358
L + I WV EI+P N K++A S+ + L S + T+ +DW+
Sbjct: 4 KLALKTIDWVAFGEIIPRNQKAVANSLKSWNETLTSRLATLPEKPPAIDWAYYKANVAKA 63
Query: 359 GIVCAFTVAFVSLWVP 374
G+V F F +L VP
Sbjct: 64 GLVDDFEKKFNALKVP 79
>pdb|4B2Q|U Chain U, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
pdb|4B2Q|UU Chain u, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
Length = 120
Score = 31.2 bits (69), Expect = 1.1, Method: Composition-based stats.
Identities = 23/75 (30%), Positives = 35/75 (46%), Gaps = 2/75 (2%)
Query: 302 LGVGAIPWVIMSEILPVNIKSLAGSVATLANWLVSWIVTMTAN-FLLDWS-SGGTFLIYG 359
L + I WV EI+P N K++A S+ + L S + T+ +DW+ G
Sbjct: 2 LALKTIDWVAFGEIIPRNQKAVANSLKSWNETLTSRLATLPEKPPAIDWAYYKANVAKAG 61
Query: 360 IVCAFTVAFVSLWVP 374
+V F F +L VP
Sbjct: 62 LVDDFEKKFNALKVP 76
>pdb|2WSS|U Chain U, The Structure Of The Membrane Extrinsic Region Of Bovine
Atp Synthase
Length = 118
Score = 31.2 bits (69), Expect = 1.1, Method: Composition-based stats.
Identities = 23/75 (30%), Positives = 35/75 (46%), Gaps = 2/75 (2%)
Query: 302 LGVGAIPWVIMSEILPVNIKSLAGSVATLANWLVSWIVTMTAN-FLLDWS-SGGTFLIYG 359
L + I WV EI+P N K++A S+ + L S + T+ +DW+ G
Sbjct: 5 LALKTIDWVAFGEIIPRNQKAVANSLKSWNETLTSRLATLPEKPPAIDWAYYKANVAKAG 64
Query: 360 IVCAFTVAFVSLWVP 374
+V F F +L VP
Sbjct: 65 LVDDFEKKFNALKVP 79
>pdb|1VSW|A Chain A, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|B Chain B, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|C Chain C, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|D Chain D, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|E Chain E, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|F Chain F, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|G Chain G, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|H Chain H, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|I Chain I, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|J Chain J, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|K Chain K, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|L Chain L, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|M Chain M, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|N Chain N, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|O Chain O, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|P Chain P, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|Q Chain Q, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|R Chain R, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|S Chain S, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|T Chain T, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|U Chain U, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|V Chain V, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|W Chain W, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|X Chain X, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|Y Chain Y, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|Z Chain Z, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|1 Chain 1, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|2 Chain 2, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|3 Chain 3, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSW|4 Chain 4, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|A Chain A, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|B Chain B, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|C Chain C, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|D Chain D, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|E Chain E, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|F Chain F, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|G Chain G, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|H Chain H, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|I Chain I, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|J Chain J, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|K Chain K, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|L Chain L, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|M Chain M, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|N Chain N, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|O Chain O, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|P Chain P, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|Q Chain Q, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|R Chain R, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|S Chain S, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|T Chain T, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|U Chain U, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|V Chain V, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|W Chain W, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|X Chain X, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|Y Chain Y, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|Z Chain Z, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|1 Chain 1, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|2 Chain 2, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|3 Chain 3, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|1VSX|4 Chain 4, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|A Chain A, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|B Chain B, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|C Chain C, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|D Chain D, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|E Chain E, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|F Chain F, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|G Chain G, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|H Chain H, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|I Chain I, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|J Chain J, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|K Chain K, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|L Chain L, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|M Chain M, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|N Chain N, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|O Chain O, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|P Chain P, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|Q Chain Q, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|R Chain R, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|S Chain S, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|T Chain T, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|U Chain U, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|V Chain V, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|W Chain W, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|X Chain X, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|Y Chain Y, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|Z Chain Z, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|1 Chain 1, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|2 Chain 2, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|3 Chain 3, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
pdb|3JV8|4 Chain 4, Crystal Structure Of Lumazine Synthase From Bacillus
Anthracis
Length = 153
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 28/57 (49%)
Query: 116 IPGLFFIPESPRWLAKMGMTEDFESSLQVLRGFDTDISIEVNEIKRSVASSSRRTAI 172
+PG F IP + +A G + + V+RG T NE+ + VAS S +T I
Sbjct: 52 VPGAFEIPLIAKKMANSGKYDAVITLGTVIRGATTHYDYVCNEVAKGVASLSLQTDI 108
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
0.325 0.140 0.419
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,934,518
Number of Sequences: 62578
Number of extensions: 372678
Number of successful extensions: 1054
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1042
Number of HSP's gapped (non-prelim): 9
length of query: 389
length of database: 14,973,337
effective HSP length: 101
effective length of query: 288
effective length of database: 8,652,959
effective search space: 2492052192
effective search space used: 2492052192
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.6 bits)