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= 007201
(613 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XUT|A Chain A, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
Family Transporter.
pdb|2XUT|B Chain B, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
Family Transporter.
pdb|2XUT|C Chain C, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
Family Transporter
Length = 524
Score = 104 bits (259), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 110/443 (24%), Positives = 181/443 (40%), Gaps = 55/443 (12%)
Query: 95 VYIFSLLGAFLSDSYWGRYKTCAIFQAIFVIGLVSLSVSSYAFLLKPSGCGDEGNPCGSH 154
VY F LLG +++D ++G+Y T I+ +G L++ ++ +G
Sbjct: 67 VYFFPLLGGWIADRFFGKYNTILWLSLIYCVGHAFLAIFEHSV---------QG------ 111
Query: 155 SSLHMALFYLSIYLTALGNGGYQPNIATFGADQFDEEDPKEGHSKIAFFSYFYLALNLGS 214
FY ++L ALG+GG +P +++F DQFD+ + F FY +N GS
Sbjct: 112 -------FYTGLFLIALGSGGIKPLVSSFMGDQFDQSNKSLAQKA---FDMFYFTINFGS 161
Query: 215 LFSNTILGYFEDEGMWALGFWASAGSATMALILFLIGTPRYRHFKPTGNPLSRICQVVVA 274
F++ + A+ F +A + F +G RY H P V+ +
Sbjct: 162 FFASLSMPLLLKNFGAAVAFGIPGVLMFVATVFFWLGRKRYIHMPPEPKDPHGFLPVIRS 221
Query: 275 ATRKWKVQISDDDHDLLFYERDGIKQTSQNGARNILHTQGFKFLDKAAVITRKSXXXXXX 334
A KV+ + L+ G+ ++ NI T G A++
Sbjct: 222 ALLT-KVE-GKGNIGLVLALIGGV--SAAYALVNI-PTLGIVAGLCCAMVLVMGFVGAGA 276
Query: 335 XXXXENIDMRNPWVLCTVTQVEEVKCILRLLPIWLCTILYSVVFTQMASLFVEQGAAMKT 394
E +P V+ V+ +LR+L ++ + +F Q AS ++ Q M
Sbjct: 277 SLQLERARKSHP-----DAAVDGVRSVLRILVLFALVTPFWSLFDQKASTWILQANDM-- 329
Query: 395 NISTFHIPPASMSSFDILSVAAFIFIYRRVLDPLVERLTRKSGTRGFTELQRMGVGLVIA 454
+ PA M + + L V I VL P +ER+ K T L++MG G+ I
Sbjct: 330 -VKPQWFEPAMMQALNPLLVMLLIPFNNFVLYPAIERMGVK-----LTALRKMGAGIAIT 383
Query: 455 IMAMISAGVVEIFRLKYSIKDCNSCESKASTLSIFWQIPQYVLIGASEVFMYVGQLEFFN 514
++ I G +++ S LSIFWQI Y L+ EV + LEF
Sbjct: 384 GLSWIVVGTIQLMM------------DGGSALSIFWQILPYALLTFGEVLVSATGLEFAY 431
Query: 515 GQAPDGLKSFGSALCMTSISLGN 537
QAP +K + S+++GN
Sbjct: 432 SQAPKAMKGTIMSFWTLSVTVGN 454
>pdb|4APS|A Chain A, Crystal Structure Of A Pot Family Peptide Transporter In
An Inward Open Conformation.
pdb|4APS|B Chain B, Crystal Structure Of A Pot Family Peptide Transporter In
An Inward Open Conformation
Length = 491
Score = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 41/190 (21%), Positives = 83/190 (43%), Gaps = 31/190 (16%)
Query: 80 NNADAANNVSKWTGTVYIFSLLGAFLSDSYWGRYKTCAIFQAIFVIGLVSLSVSSYAFLL 139
A AA+ ++ + VY+ +G F++D G + ++G + L++
Sbjct: 52 TRATAASIMAIYASMVYLSGTIGGFVADRIIGARPAVFWGGVLIMLGHIVLAL------- 104
Query: 140 KPSGCGDEGNPCGSHSSLHMALFYLSIYLTALGNGGYQPNIATFGADQFDEEDPKEGHSK 199
P G+ + + SI L +G G +PN++T +DE D + +
Sbjct: 105 ----------PFGASA------LFGSIILIIIGTGFLKPNVSTLVGTLYDEHDRR----R 144
Query: 200 IAFFSYFYLALNLGSLFSNTILGYFEDEGMWALGFWASAGSATMALILFLIGTPRY---R 256
A FS F +NLG+ + I+G ++ + + F +A + L+++ G +
Sbjct: 145 DAGFSIFVFGINLGAFIAPLIVGAAQEAAGYHVAFSLAAIGMFIGLLVYYFGGKKTLDPH 204
Query: 257 HFKPTGNPLS 266
+ +PT +PL+
Sbjct: 205 YLRPT-DPLA 213
>pdb|1AUT|C Chain C, Human Activated Protein C
Length = 250
Score = 29.6 bits (65), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 35/77 (45%), Gaps = 5/77 (6%)
Query: 3 LSNVCNEVIVKEKIKNDQEEACTLDGAVDRHGRPAIKRRTGTWIAGILILVNQGLATLAF 62
+SN+ +E ++ I D+++AC D G P + GTW L+ +G L
Sbjct: 166 MSNMVSENMLCAGILGDRQDACEGDS-----GGPMVASFHGTWFLVGLVSWGEGCGLLHN 220
Query: 63 FGVGVNLVLFLTRVVGQ 79
+GV + +L + G
Sbjct: 221 YGVYTKVSRYLDWIHGH 237
>pdb|3F6U|H Chain H, Crystal Structure Of Human Activated Protein C (Apc)
Complexed With Ppack
Length = 240
Score = 29.6 bits (65), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 35/77 (45%), Gaps = 5/77 (6%)
Query: 3 LSNVCNEVIVKEKIKNDQEEACTLDGAVDRHGRPAIKRRTGTWIAGILILVNQGLATLAF 62
+SN+ +E ++ I D+++AC D G P + GTW L+ +G L
Sbjct: 166 MSNMVSENMLCAGILGDRQDACEGDS-----GGPMVASFHGTWFLVGLVSWGEGCGLLHN 220
Query: 63 FGVGVNLVLFLTRVVGQ 79
+GV + +L + G
Sbjct: 221 YGVYTKVSRYLDWIHGH 237
>pdb|3IRS|A Chain A, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3IRS|B Chain B, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3IRS|C Chain C, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|A Chain A, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|B Chain B, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|C Chain C, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|D Chain D, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|E Chain E, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|F Chain F, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|G Chain G, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|H Chain H, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|I Chain I, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|J Chain J, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|K Chain K, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|L Chain L, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
Length = 291
Score = 29.3 bits (64), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 38/80 (47%), Gaps = 9/80 (11%)
Query: 375 SVVFTQMASLFVEQGAAMKTNISTFHIPPASMSSFDILSVAAFIFIYRRVLDPL--VERL 432
++F +MA+ +EQG + N S S+S+ D+ +VA Y P+ +E
Sbjct: 50 ELMFEEMAAAGIEQGVCVGRNSSVL----GSVSNADVAAVAK---AYPDKFHPVGSIEAA 102
Query: 433 TRKSGTRGFTELQRMGVGLV 452
TRK E+ +G+ +V
Sbjct: 103 TRKEAMAQMQEILDLGIRIV 122
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 0.139 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,156,637
Number of Sequences: 62578
Number of extensions: 688320
Number of successful extensions: 1257
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1249
Number of HSP's gapped (non-prelim): 9
length of query: 613
length of database: 14,973,337
effective HSP length: 105
effective length of query: 508
effective length of database: 8,402,647
effective search space: 4268544676
effective search space used: 4268544676
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)