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= 010721
(503 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 = 131 bits (329), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 122/471 (25%), Positives = 206/471 (43%), Gaps = 71/471 (15%)
Query: 86 FPHVLIASMSNFLFGYHIGVMNGPIVSI------AKELGFEGNPILEGLVVSIFIAGAFV 139
F L+A++ LFGY V++G + S+ + L L G V+ + G +
Sbjct: 11 FSITLVATLGGLLFGYDTAVISGTVESLNTVFVAPQNLSESAANSLLGFCVASALIGCII 70
Query: 140 GSISSGSLADKLGCRRTFQIDTIPLILGAIISAQ------------------AHSLDEML 181
G G +++ G R + +I + + + SA A + E +
Sbjct: 71 GGALGGYCSNRFGRRDSLKIAAVLFFISGVGSAWPELGFTSINPDNTVPVYLAGYVPEFV 130
Query: 182 WGRFLVGLGIGVNTVLVPIYISEVAPTKYRGSLGTLCQVGTCLG--IITSLFLGIPAEDD 239
R + G+G+G+ ++L P+YI+E+AP RG L + Q G ++ + I D
Sbjct: 131 IYRIIGGIGVGLASMLSPMYIAELAPAHIRGKLVSFNQFAIIFGQLLVYCVNYFIARSGD 190
Query: 240 PHW-----WRTMLYIASLPGFILALGMQFTVESPRWLCKGGMLNDAKAVIANLWGESEIN 294
W WR M +P + + + ESPRWL G A+ ++ + G +
Sbjct: 191 ASWLNTDGWRYMFASECIPALLFLMLLYTVPESPRWLMSRGKQEQAEGILRKIMGNTLAT 250
Query: 295 KAIEEFQLVI---KKDGSDLD-------------SQWSELL----------EEPHSRVAF 328
+A++E + + +K G L S + + + E + A
Sbjct: 251 QAVQEIKHSLDHGRKTGGRLLMFGVGVIVIGVMLSIFQQFVGINVVLYYAPEVFKTLGAS 310
Query: 329 IGDGALASLLVGVTNFAGALCASYLMDKEGRQKLLIGSYLGMAISMLLVVGA--TSLPLD 386
L +++VGV N + A +DK GR+ L I LGMAI M + A T P
Sbjct: 311 TDIALLQTIIVGVINLTFTVLAIMTVDKFGRKPLQIIGALGMAIGMFSLGTAFYTQAP-- 368
Query: 387 EDFSHNLSILGTLFYIFTFAIGAGPVTGLVIPELSSNRTRGKIMGFSFSVHWVCNFLVGL 446
+++L LFY+ FA+ GPV +++ E+ N RGK + + + W+ N+ V
Sbjct: 369 ----GIVALLSMLFYVAAFAMSWGPVCWVLLSEIFPNAIRGKALAIAVAAQWLANYFVSW 424
Query: 447 FF--LD----LVETFGVAPVYAGFGGVSLLSALFAYYFIVETKGRSLEEIE 491
F +D LV F Y +G + +L+ALF + F+ ETKG++LEE+E
Sbjct: 425 TFPMMDKNSWLVAHFHNGFSYWIYGCMGVLAALFMWKFVPETKGKTLEELE 475
>pdb|4DEX|A Chain A, Crystal Structure Of The Voltage Dependent Calcium Channel
Beta-2 Subunit In Complex With The Cav2.2 I-Ii Linker
Length = 339
Score = 33.1 bits (74), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 21/32 (65%)
Query: 22 FTPSPAKMKTLRFSFSHRSTKFKVLAAKKQLP 53
F PSP K++ +R R+ +FK+ + +K++P
Sbjct: 96 FIPSPVKLENMRLQHEQRAKEFKLHSKEKRMP 127
>pdb|4DEY|A Chain A, Crystal Structure Of The Voltage Dependent Calcium Channel
Beta-2 Subunit In Complex With The Cav1.2 I-Ii Linker
Length = 337
Score = 32.7 bits (73), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 21/32 (65%)
Query: 22 FTPSPAKMKTLRFSFSHRSTKFKVLAAKKQLP 53
F PSP K++ +R R+ +FK+ + +K++P
Sbjct: 94 FIPSPVKLENMRLQHEQRAKEFKLHSKEKRMP 125
>pdb|2WW8|A Chain A, Structure Of The Pilus Adhesin (Rrga) From Streptococcus
Pneumoniae
Length = 893
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 42/86 (48%), Gaps = 5/86 (5%)
Query: 262 QFTVE---SPRWLCKGGMLNDAKAVIANLWGESEINKAIEEFQLVIKKDGSDLDSQWSEL 318
Q+TVE + R +G + + + +++ + ++ ++ +IK DGS+ + Q L
Sbjct: 116 QWTVEVEKNGRTTVQGEQVENREEALSDQYPQTGTYPDVQTPYQIIKVDGSEKNGQHKAL 175
Query: 319 LEEPHSRVAFIGDGALASLLVGVTNF 344
P+ RV I +G L+ + V N
Sbjct: 176 NPNPYERV--IPEGTLSKRIYQVNNL 199
>pdb|1NIJ|A Chain A, Yjia Protein
pdb|4IXM|A Chain A, Crystal Structure Of Zn(ii)-bound Yjia Gtpase From E. Coli
pdb|4IXM|B Chain B, Crystal Structure Of Zn(ii)-bound Yjia Gtpase From E. Coli
Length = 318
Score = 29.3 bits (64), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 25/44 (56%), Gaps = 4/44 (9%)
Query: 287 LWGESEINKAIEEFQLVIKKDGSDLDSQWSELLEEPHSRVAFIG 330
LW + E N+ + FQ V + +D D W + E+PHS + FIG
Sbjct: 262 LWIDGEPNRLL--FQGVQRLYSADWDRPWGD--EKPHSTMVFIG 301
>pdb|4IXN|A Chain A, Crystal Structure Of Zn(ii)-bound E37a,c66a,c67a Triple
Mutant Yjia Gtpase
pdb|4IXN|B Chain B, Crystal Structure Of Zn(ii)-bound E37a,c66a,c67a Triple
Mutant Yjia Gtpase
Length = 318
Score = 28.9 bits (63), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 25/44 (56%), Gaps = 4/44 (9%)
Query: 287 LWGESEINKAIEEFQLVIKKDGSDLDSQWSELLEEPHSRVAFIG 330
LW + E N+ + FQ V + +D D W + E+PHS + FIG
Sbjct: 262 LWIDGEPNRLL--FQGVQRLYSADWDRPWGD--EKPHSTMVFIG 301
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
0.323 0.140 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,524,543
Number of Sequences: 62578
Number of extensions: 604244
Number of successful extensions: 1187
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 1178
Number of HSP's gapped (non-prelim): 17
length of query: 503
length of database: 14,973,337
effective HSP length: 103
effective length of query: 400
effective length of database: 8,527,803
effective search space: 3411121200
effective search space used: 3411121200
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)