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= 009276
(538 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2JLN|A Chain A, Structure Of Mhp1, A Nucleobase-Cation-Symport-1 Family
Transporter
pdb|2JLO|A Chain A, Structure Of Mhp1, A Nucleobase-Cation-Symport-1 Family
Transporter, In A Closed Conformation With
Benzylhydantoin
Length = 501
Score = 90.5 bits (223), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 96/386 (24%), Positives = 164/386 (42%), Gaps = 59/386 (15%)
Query: 102 WQGIATVVAANVILLVPLVLTGHPGTKYGIPFPVLARSSFGIKGAHIPTLLRALVGCGWY 161
WQ I + A I ++ L T ++GI F V AR FGI+G+ IP L+AL+ W+
Sbjct: 59 WQVIVAIAAGCTIAVILLFFTQSAAIRWGINFTVAARMPFGIRGSLIPITLKALLSLFWF 118
Query: 162 GIETWIGGEAVFLLLPKFIKQSSILSQSLPWLGTSPLEFACFIAFWLAQLAIVWKGIEGI 221
G +TW+G A+ +++ L PL F A Q+ + GI I
Sbjct: 119 GFQTWLGALAL-----------DEITRLLTGFTNLPLWIVIFGAI---QVVTTFYGITFI 164
Query: 222 RELEKYSAPILIILTSSFLFWAYVNAGGFGHMXXXXXXXXXXXXXXXXXXXXTANISFWA 281
R + +++P+L+ + ++ Y+ G + W
Sbjct: 165 RWMNVFASPVLLAMG---VYMVYLMLDGADVSLGEVMSMGGENPGMPFSTAIMIFVGGWI 221
Query: 282 TVALNI----------PDFTRYAKSQND------QILGQAGLPI---FMGAFTFVGLA-- 320
V ++I P+ +R +++ D Q LG I F+GA + V +
Sbjct: 222 AVVVSIHDIVKECKVDPNASREGQTKADARYATAQWLGMVPASIIFGFIGAASMVLVGEW 281
Query: 321 --ITCSTQVIFGRVISSPIQLLDQXXXXXXXXXXXXXXSLATITTNIXXXXXXXXXXXXX 378
+ T+V+ G +S P+ +L Q LAT +TN
Sbjct: 282 NPVIAITEVVGG--VSIPMAILFQVFVL-----------LATWSTNPAANLLSPAYTLCS 328
Query: 379 XRPSIFTFRKGAILTALLGIAFQPWRLLKSSESFVYTWLVGYSALLGPIGGIILADYYLI 438
P +FTF+ G I++A++G+ PW+ + T+L ++ LGP+ GI+++DY+L+
Sbjct: 329 TFPRVFTFKTGVIVSAVVGLLMMPWQF----AGVLNTFLNLLASALGPLAGIMISDYFLV 384
Query: 439 QGAKLSIKYLYSLNPNGAYYYSGGYN 464
+ ++S+ LY G Y Y G N
Sbjct: 385 RRRRISLHDLY--RTKGIYTYWRGVN 408
>pdb|2X79|A Chain A, Inward Facing Conformation Of Mhp1
Length = 501
Score = 84.7 bits (208), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 99/389 (25%), Positives = 162/389 (41%), Gaps = 65/389 (16%)
Query: 102 WQGIATVVAANVILLVPLVLTGHPGTKYGIPFPVLARSSFGIKGAHIPTLLRALVGCGWY 161
WQ I + A I ++ L T ++GI F V AR FGI+G+ IP L+AL+ W+
Sbjct: 59 WQVIVAIAAGCTIAVILLFFTQSAAIRWGINFTVAARXPFGIRGSLIPITLKALLSLFWF 118
Query: 162 GIETWIGGEAVFLLLPKFIKQSSILSQSLPWLGTSPLEFACFIAFWLAQLAIVWKGIEGI 221
G +TW+G A+ +++ L PL F A Q+ + GI I
Sbjct: 119 GFQTWLGALAL-----------DEITRLLTGFTNLPLWIVIFGAI---QVVTTFYGITFI 164
Query: 222 RELEKYSAPILIILTSSFLFWAYVNAGGFGHMXXXXXXXXXXXXXXXXXXXXTANISFWA 281
R +++P+L+ + ++ Y+ G + W
Sbjct: 165 RWXNVFASPVLL---AXGVYXVYLXLDGADVSLGEVXSXGGENPGXPFSTAIXIFVGGWI 221
Query: 282 TVALNI----------PDFTRYAKSQND------QILGQAGLPIFMGAFTFVGLA----- 320
V ++I P+ +R +++ D Q LG I G F+G A
Sbjct: 222 AVVVSIHDIVKECKVDPNASREGQTKADARYATAQWLGXVPASIIFG---FIGAASXVLV 278
Query: 321 -----ITCSTQVIFGRVISSPIQLLDQXXXXXXXXXXXXXXSLATITTNIXXXXXXXXXX 375
+ T+V+ G +S P +L Q LAT +TN
Sbjct: 279 GEWNPVIAITEVVGG--VSIPXAILFQVFVL-----------LATWSTNPAANLLSPAYT 325
Query: 376 XXXXRPSIFTFRKGAILTALLGIAFQPWRLLKSSESFVYTWLVGYSALLGPIGGIILADY 435
P +FTF+ G I++A++G+ PW+ + T+L ++ LGP+ GI ++DY
Sbjct: 326 LCSTFPRVFTFKTGVIVSAVVGLLXXPWQF----AGVLNTFLNLLASALGPLAGIXISDY 381
Query: 436 YLIQGAKLSIKYLYSLNPNGAYYYSGGYN 464
+L++ ++S+ LY G Y Y G N
Sbjct: 382 FLVRRRRISLHDLY--RTKGIYTYWRGVN 408
>pdb|3PDD|A Chain A, Structures Of Clostridium Thermocellum Cbha
Fibronectin(Iii)-Like Modules
Length = 190
Score = 29.3 bits (64), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 6/51 (11%)
Query: 461 GGYNLVAIMALSIG------ILPVIPGFLQKVGLVVTIPNSFVVIYNNAWF 505
G YNL A+ LS G + PV+ + K + +T P S VV Y N +
Sbjct: 61 GAYNLKAVAVLSDGRRIESPVTPVLVKVIVKPTVKLTAPKSNVVAYGNEFL 111
>pdb|3DIN|C Chain C, Crystal Structure Of The Protein-Translocation Complex
Formed By The Secy Channel And The Seca Atpase
pdb|3DIN|F Chain F, Crystal Structure Of The Protein-Translocation Complex
Formed By The Secy Channel And The Seca Atpase
Length = 431
Score = 28.9 bits (63), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 38/83 (45%), Gaps = 6/83 (7%)
Query: 437 LIQGAKLSIKYLYSLNPNGAYYYSGGYNLVAIMALSIGILPVIPGFLQKVGLVVTIPNSF 496
L+Q A+ I Y+ G Y G + I G++P+I +V+IP++
Sbjct: 232 LVQQAERRITIQYARRVTGRRVYGGASTYLPIKVNQGGVIPIIFA-----SAIVSIPSAI 286
Query: 497 VVIYNNAWFFSFFLA-GFVYWVL 518
I NN + F A GF+Y ++
Sbjct: 287 ASITNNETLKNLFRAGGFLYLLI 309
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 0.141 0.445
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,525,240
Number of Sequences: 62578
Number of extensions: 557049
Number of successful extensions: 1191
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1184
Number of HSP's gapped (non-prelim): 7
length of query: 538
length of database: 14,973,337
effective HSP length: 103
effective length of query: 435
effective length of database: 8,527,803
effective search space: 3709594305
effective search space used: 3709594305
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: 54 (25.4 bits)