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= 010900
(498 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 = 103 bits (257), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 103/438 (23%), Positives = 196/438 (44%), Gaps = 23/438 (5%)
Query: 36 KNFRERIWNESKKIWEIAGPVILASGSEFSITFVTAAFVGHLGEVEFAAVSVVQNV-IEG 94
+N R E+ + ++A PV++AS ++ + FV G + ++ AAVS+ ++ +
Sbjct: 1 ENSVHRYKKEASNLIKLATPVLIASVAQTGMGFVDTIMAGGVSAIDMAAVSIAASIWLPS 60
Query: 95 FVYGIMLGMGSALETLSGQAVGAGRFDMLGIYLQRSFIVTGATALCLMPFYIFATPFL-K 153
++G+ G+ AL + Q GAGR + + + I+ ++ ++ +F T F+ +
Sbjct: 61 ILFGV--GLLMALVPVVAQLNGAGRQHKIPFEVHQGLILALLVSVPIIAV-LFQTQFIIR 117
Query: 154 LLSQDKEISELAGKYSKWIVPQLFAYAINSPIQKFLQSQSRVWVMTMISMAALIFHVFLN 213
+ ++ ++ Y ++ + AY + ++ F S +I L+ ++ LN
Sbjct: 118 FMDVEEAMATKTVGYMHAVIFAVPAYLLFQALRSFTDGMSLTKPAMVIGFIGLLLNIPLN 177
Query: 214 WILV----AKLNYGIVGAAIAGDISLWLMVVGLVVYVTSG---CFPDAWTGFSLRAFKSL 266
WI V G VG +A I W+M++ L+ Y+ + + F K L
Sbjct: 178 WIFVYGKFGAPELGGVGCGVATAIVYWIMLLLLLFYIVTSKRLAHVKVFETFHKPQPKEL 237
Query: 267 ASFVKLSLASAVMLCLELWYYTAVILMVGWLNNPEIAVDAISICMNLQQWTLMISLGFHT 326
+L A L E+ + V L+V L + +A A + +N M +
Sbjct: 238 IRLFRLGFPVAAALFFEVTLFAVVALLVAPLGSTVVA--AHQVALNFSSLVFMFPMSIGA 295
Query: 327 AISVRVSNELGAGHPKAAKFSIAVSVITSAAFGILFTLLVLAFENQFPKLFTDKPILIRE 386
A+S+RV ++LG K A + V ++T A + LL + F Q L+T+ +++
Sbjct: 296 AVSIRVGHKLGEQDTKGAAIAANVGLMTGLATACITALLTVLFREQIALLYTENQVVVAL 355
Query: 387 TSKLAYFLAATIFLNSIQAVLLGVAVGAGWQFLVALI--SIACYYVFGLPAGALLGYGF- 443
+L F A ++++Q V G G++ + A+ + Y+V GLP G +LG
Sbjct: 356 AMQLLLFAAIYQCMDAVQVVAAGSL--RGYKDMTAIFHRTFISYWVLGLPTGYILGMTNW 413
Query: 444 ----KLGINGIWSGLLLG 457
LG G W G ++G
Sbjct: 414 LTEQPLGAKGFWLGFIIG 431
>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 = 66.6 bits (161), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 92/433 (21%), Positives = 180/433 (41%), Gaps = 15/433 (3%)
Query: 44 NESKKIWEIAGPVILASGSEFSITFVTAAFVGHLGEVEFAAVSVVQNVIEGFVYGIMLGM 103
E + + +A P++LA ++ I FV G G+ + AAV++ + VY +G+
Sbjct: 11 KEIRLLTALALPMLLAQVAQVGIGFVDTVMAGGAGKEDLAAVALGSSAFAT-VYITFMGI 69
Query: 104 GSALETLSGQAVGAGRFDMLGIYLQRSF---IVTGATALCLMPFYIFATPFLKLLSQDKE 160
+AL + Q GAG+ G ++ ++ G + LM + TPF L+
Sbjct: 70 MAALNPMIAQLYGAGKTGEAGETGRQGIWFGLILGIFGMILM--WAAITPFRNWLTLSDY 127
Query: 161 ISELAGKYSKWIVPQLFAYAINSPIQKFLQSQSRVWVMTMISMAALIFHVFLNWILV-AK 219
+ +Y + + A ++ + + S +R ++ ++S AA + +V LN+I V K
Sbjct: 128 VEGTMAQYMLFTSLAMPAAMVHRALHAYASSLNRPRLIMLVSFAAFVLNVPLNYIFVYGK 187
Query: 220 LNYGIVGAAIAGDISL---WLMVVGLVVYVTSGCF--PDAWTG-FSLRAFKSLASFVKLS 273
+G A G ++ W + L +Y+ F P T F + K+
Sbjct: 188 FGMPALGGAGCGVATMAVFWFSALALWIYIAKEKFFRPFGLTAKFGKPDWAVFKQIWKIG 247
Query: 274 LASAVMLCLELWYYTAVILMVGWLNNPEIAVDAISICMNLQQWTLMISLGFHTAISVRVS 333
+ LE ++ ++ ++ +A + I ++ + + S+G +A +VR+
Sbjct: 248 APIGLSYFLEASAFSFIVFLIAPFGEDYVAAQQVGISLSGILYMIPQSVG--SAGTVRIG 305
Query: 334 NELGAGHPKAAKFSIAVSVITSAAFGILFTLLVLAFENQFPKLFTDKPILIRETSKLAYF 393
LG A++ VS+++ ++ L ++ F + ++ D P ++ S + F
Sbjct: 306 FSLGRREFSRARYISGVSLVSGWVLAVITVLSLVLFRSPLASMYNDDPAVLSIASTVLLF 365
Query: 394 LAATIFLNSIQAVLLGVAVGAGWQFLVALISIACYYVFGLPAGALLGYGFKLGINGIWSG 453
+ Q + G + I A ++ GL G LL Y F +GI G W+
Sbjct: 366 AGLFQPADFTQCIASYALRGYKVTKVPMFIHAAAFWGCGLLPGYLLAYRFDMGIYGFWTA 425
Query: 454 LLLGCLFQTTVLV 466
L+ LV
Sbjct: 426 LIASLTIAAVALV 438
Score = 33.1 bits (74), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 38/142 (26%), Positives = 63/142 (44%), Gaps = 16/142 (11%)
Query: 32 LGSHKNFRERIWNESKKIWEIAGPVILA---SGSEFS-ITFVTAAFVGHLGEVEFAAVSV 87
G F + W K+IW+I P+ L+ S FS I F+ A F GE ++ A
Sbjct: 226 FGLTAKFGKPDWAVFKQIWKIGAPIGLSYFLEASAFSFIVFLIAPF----GE-DYVAAQQ 280
Query: 88 VQNVIEGFVYGIMLGMGSALETLSGQAVGAGRFD----MLGIYLQRSFIVTGATALCLMP 143
V + G +Y I +GSA G ++G F + G+ L +++ T L L+
Sbjct: 281 VGISLSGILYMIPQSVGSAGTVRIGFSLGRREFSRARYISGVSLVSGWVLAVITVLSLV- 339
Query: 144 FYIFATPFLKLLSQDKEISELA 165
+F +P + + D + +A
Sbjct: 340 --LFRSPLASMYNDDPAVLSIA 359
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 0.139 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,263,465
Number of Sequences: 62578
Number of extensions: 492632
Number of successful extensions: 1278
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1271
Number of HSP's gapped (non-prelim): 4
length of query: 498
length of database: 14,973,337
effective HSP length: 103
effective length of query: 395
effective length of database: 8,527,803
effective search space: 3368482185
effective search space used: 3368482185
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: 53 (25.0 bits)