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= 045659
(461 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MKT|A Chain A, Structure Of A Cation-Bound Multidrug And Toxin Compound
Extrusion (Mate) Transporter
pdb|3MKT|B Chain B, Structure Of A Cation-Bound Multidrug And Toxin Compound
Extrusion (Mate) Transporter
pdb|3MKU|A Chain A, Structure Of A Cation-Bound Multidrug And Toxin Compound
Extrusion (Mate) Transporter
pdb|3MKU|B Chain B, Structure Of A Cation-Bound Multidrug And Toxin Compound
Extrusion (Mate) Transporter
Length = 460
Score = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 71/316 (22%), Positives = 133/316 (42%), Gaps = 25/316 (7%)
Query: 151 YSLCLIPALFANAILQPITRFMQTQSLICPMLITYFCILCFHIPVCWILVFKL----KLG 206
Y +I A+ A + Q + F SL P ++ F L +IP+ WI V+ +LG
Sbjct: 132 YMHAVIFAVPAYLLFQALRSFTDGMSLTKPAMVIGFIGLLLNIPLNWIFVYGKFGAPELG 191
Query: 207 ILGXXXXFSLSTWLNVVLVSPYVMYSSSCKDTRA--KLSKEAFLAIKQFFAFGLP--SAL 262
+G ++ W+ ++L+ Y++ S + K + + F G P +AL
Sbjct: 192 GVGCGVATAIVYWIMLLLLLFYIVTSKRLAHVKVFETFHKPQPKELIRLFRLGFPVAAAL 251
Query: 263 MLCLRWWSMEMLILSSGFLPNPRLETSGLSICLAITTLHFIIPYGIGAAASTRVSNELGA 322
+ +++ L+++ P + + L ++L F+ P IGAA S RV ++LG
Sbjct: 252 FFEVTLFAVVALLVA----PLGSTVVAAHQVALNFSSLVFMFPMSIGAAVSIRVGHKLGE 307
Query: 323 GNPEAARRAAWSAVFVATLEAVIASTILFSCRFIVGYAYSNDKQVVDFIAAMTPLICLSI 382
+ + A AA + A I + + R + Y+ ++ VV AM L+ +I
Sbjct: 308 QDTKGAAIAANVGLMTGLATACITALLTVLFREQIALLYTENQVVVAL--AMQLLLFAAI 365
Query: 383 I--LDTLHAVFQGVSRGCGWQHIGACIN--FVAFYXXXXXXXXXX-----XXXXXXXXKG 433
+D + V G RG ++ + A + F++++ KG
Sbjct: 366 YQCMDAVQVVAAGSLRG--YKDMTAIFHRTFISYWVLGLPTGYILGMTNWLTEQPLGAKG 423
Query: 434 LWTGIVVGSAVQSTML 449
W G ++G + + ML
Sbjct: 424 FWLGFIIGLSAAALML 439
>pdb|4HUK|A Chain A, Mate Transporter Norm-ng In Complex With Tpp And Monobody
pdb|4HUL|A Chain A, Mate Transporter Norm-ng In Complex With Cs+ And Monobody
pdb|4HUM|A Chain A, Mate Transporter Norm-ng In Complex With Ethidium And
Monobody
pdb|4HUN|A Chain A, Mate Transporter Norm-ng In Complex With R6g And Monobody
Length = 459
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 76/360 (21%), Positives = 136/360 (37%), Gaps = 26/360 (7%)
Query: 25 FVKEFKKLSRIAAPMVGIFLFDYLLQVVSTMMVGHLGQLQLASVAIATSVTNVVXXXXXX 84
F+KE + L+ +A PM+ + + V T+M G G+ LA+VA+ +S V
Sbjct: 9 FLKEIRLLTALALPMLLAQVAQVGIGFVDTVMAGGAGKEDLAAVALGSSAFATVYITFMG 68
Query: 85 XXXXXXETLC-----GQAFGAQQYQRLGIHTNXXXXXXXXXXXXXXXXXXFMNKLLLTLG 139
+ G+ A + R GI F N L L+
Sbjct: 69 IMAALNPMIAQLYGAGKTGEAGETGRQGIWFGLILGIFGMILMWAAITP-FRNWLTLS-- 125
Query: 140 QDPLVSHNAQK--YSLCLIPALFANAILQPITRFMQTQSLICPMLITYFCILCFHIPVCW 197
D + AQ ++ +PA + L + LI ML++ F ++P+ +
Sbjct: 126 -DYVEGTMAQYMLFTSLAMPAAMVHRALHAYASSLNRPRLI--MLVS-FAAFVLNVPLNY 181
Query: 198 ILVFKL----KLGILGXXXXFSLSTWLNVVLVSPYVMYSSSCK--DTRAKLSKEAFLAIK 251
I V+ LG G W + + + Y+ + AK K + K
Sbjct: 182 IFVYGKFGMPALGGAGCGVATMAVFWFSALALWIYIAKEKFFRPFGLTAKFGKPDWAVFK 241
Query: 252 QFFAFGLPSALMLCLRWWSMEMLILSSGFLPNPRLE--TSGLSICLAITTLHFIIPYGIG 309
Q + G P L L + ++ FL P E + + ++++ + ++IP +G
Sbjct: 242 QIWKIGAPIGLSYFLEASAFSFIV----FLIAPFGEDYVAAQQVGISLSGILYMIPQSVG 297
Query: 310 AAASTRVSNELGAGNPEAARRAAWSAVFVATLEAVIASTILFSCRFIVGYAYSNDKQVVD 369
+A + R+ LG AR + ++ + AVI L R + Y++D V+
Sbjct: 298 SAGTVRIGFSLGRREFSRARYISGVSLVSGWVLAVITVLSLVLFRSPLASMYNDDPAVLS 357
>pdb|3DMP|A Chain A, 2.6 A Crystal Structure Of Uracil
Phosphoribosyltransferase From Burkholderia Pseudomallei
pdb|3DMP|B Chain B, 2.6 A Crystal Structure Of Uracil
Phosphoribosyltransferase From Burkholderia Pseudomallei
pdb|3DMP|C Chain C, 2.6 A Crystal Structure Of Uracil
Phosphoribosyltransferase From Burkholderia Pseudomallei
pdb|3DMP|D Chain D, 2.6 A Crystal Structure Of Uracil
Phosphoribosyltransferase From Burkholderia Pseudomallei
Length = 217
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 31/59 (52%)
Query: 3 EIQQSLSTDARTASTRLVLVGEFVKEFKKLSRIAAPMVGIFLFDYLLQVVSTMMVGHLG 61
EI ++L + T LV + V KKL+ + G+ + D LL+++ + VGH+G
Sbjct: 50 EITRNLPITTKRVETPLVEIDAPVIAGKKLAIVPVLRAGVGMSDGLLELIPSARVGHIG 108
>pdb|1YD7|A Chain A, Conserved Hypothetical Protein Pfu-1647980-001 From
Pyrococcus Furiosus
Length = 395
Score = 29.3 bits (64), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 23/47 (48%)
Query: 337 FVATLEAVIASTILFSCRFIVGYAYSNDKQVVDFIAAMTPLICLSII 383
F+ EA+ + IL CRF GY + ++ + A PL+ +I
Sbjct: 22 FIQGDEAIARAAILAGCRFYAGYPITPASEIFEAXALYXPLVDGVVI 68
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
0.329 0.138 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,253,035
Number of Sequences: 62578
Number of extensions: 325772
Number of successful extensions: 656
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 648
Number of HSP's gapped (non-prelim): 7
length of query: 461
length of database: 14,973,337
effective HSP length: 102
effective length of query: 359
effective length of database: 8,590,381
effective search space: 3083946779
effective search space used: 3083946779
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 53 (25.0 bits)