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= psy13464
(515 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3TQO|A Chain A, Structure Of The Cysteinyl-Trna Synthetase (Cyss) From
Coxiella Burnetii
Length = 462
Score = 156 bits (394), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 78/164 (47%), Positives = 97/164 (59%), Gaps = 8/164 (4%)
Query: 308 ESMEKFGVLPPTRATRVSEFIPHIQSFIQTLLDTKQAYIGSDHSVYFDVDSFPHYFKLWG 367
E + VL P + R ++++P I IQ LLD + AY G + V+FDV F Y KL
Sbjct: 101 EDEKALRVLSPDQEPRATQYVPEIIKLIQKLLDNQYAYTGQNGDVFFDVRRFKDYGKLSH 160
Query: 368 RNENITQHAV-------KRSPFDFALWKSAKPGEPWYESAWGKGRPGWHIECSAMASHFF 420
R+ + Q KR P DF LWK AKPGEP ++S WG+GRPGWHIECSA +S
Sbjct: 161 RHLDELQAGARVEVSDSKRDPLDFVLWKKAKPGEPKWDSPWGEGRPGWHIECSAXSSSIL 220
Query: 421 GGQVDLHTGGIDLKFPHHENEEAQSCAFHNQSQWVNYWLHTGHL 464
G D+H GG+DLKFPHHENE AQS A + +V W H G L
Sbjct: 221 GQPFDIHGGGLDLKFPHHENEIAQSEA-GEEKPFVKLWXHAGLL 263
Score = 63.9 bits (154), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 38/103 (36%), Positives = 54/103 (52%), Gaps = 6/103 (5%)
Query: 32 IKIYNPITKTKVPFIIQNKNHLKWYACGPTVYDSPHIGHAVCNVKLDIIRRILEHYFHIH 91
+KI+N +TK K F +K Y CG TVYD HIGH + D + R L +
Sbjct: 5 VKIFNSLTKQKEIFKPIESGKVKLYVCGXTVYDYXHIGHGRSWIIFDXVVRYLRXRGY-E 63
Query: 92 SIVISSVTDIDDKIINKANSLKEDYKTVAKRYFLPLIFKILHQ 134
+ ++TDIDDKII +A KE +A+R+ +ILH+
Sbjct: 64 VTFVRNITDIDDKIIKRAGENKESPAALAERF-----IQILHE 101
Score = 34.7 bits (78), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 34/123 (27%), Positives = 56/123 (45%), Gaps = 16/123 (13%)
Query: 144 GHAVCNVKLDIIRRILEHYFHIHSIVISSVTDIDDKIINKANSLKEDYKTVAKRYFLRLI 203
GH + D + R L + + ++TDIDDKII +A KE +A+R+
Sbjct: 42 GHGRSWIIFDXVVRYLRXRGY-EVTFVRNITDIDDKIIKRAGENKESPAALAERF----- 95
Query: 204 FKILHQKVVRKLAIDLKKAKVDSGPVLTKCDEFRDELLALGVQIKDQKCEATWQFKDGKV 263
+ILH+ D K +V S + ++ E++ L ++ D + T Q +G V
Sbjct: 96 IQILHE--------DEKALRVLSPDQEPRATQYVPEIIKLIQKLLDNQYAYTGQ--NGDV 145
Query: 264 FSD 266
F D
Sbjct: 146 FFD 148
>pdb|1LI5|A Chain A, Crystal Structure Of Cysteinyl-Trna Synthetase
pdb|1LI5|B Chain B, Crystal Structure Of Cysteinyl-Trna Synthetase
pdb|1LI7|A Chain A, Crystal Structure Of Cysteinyl-Trna Synthetase With
Cysteine Substrate Bound
pdb|1LI7|B Chain B, Crystal Structure Of Cysteinyl-Trna Synthetase With
Cysteine Substrate Bound
pdb|1U0B|B Chain B, Crystal Structure Of Cysteinyl-Trna Synthetase Binary
Complex With Trnacys
Length = 461
Score = 137 bits (346), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 69/165 (41%), Positives = 89/165 (53%), Gaps = 8/165 (4%)
Query: 305 EYFESMEKFGVLPPTRATRVSEFIPHIQSFIQTLLDTKQAYIGSDHSVYFDVDSFPHYFK 364
E + + +L P R + I I + L+ AY+ + V FDV + P Y
Sbjct: 95 EMHKDFDALNILRPDMEPRATHHIAEIIELTEQLIAKGHAYVADNGDVMFDVPTDPTYGV 154
Query: 365 LWGRNENITQHAV-------KRSPFDFALWKSAKPGEPWYESAWGKGRPGWHIECSAMAS 417
L ++ + Q KR+P DF LWK +K GEP + S WG GRPGWHIECSAM
Sbjct: 155 LSRQDLDQLQAGARVDVVDDKRNPMDFVLWKMSKEGEPSWPSPWGAGRPGWHIECSAMNC 214
Query: 418 HFFGGQVDLHTGGIDLKFPHHENEEAQSCAFHNQSQWVNYWLHTG 462
G D+H GG DL FPHHENE AQS H+ Q+VNYW+H+G
Sbjct: 215 KQLGNHFDIHGGGSDLMFPHHENEIAQSTCAHD-GQYVNYWMHSG 258
Score = 62.0 bits (149), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 33/96 (34%), Positives = 49/96 (51%), Gaps = 1/96 (1%)
Query: 32 IKIYNPITKTKVPFIIQNKNHLKWYACGPTVYDSPHIGHAVCNVKLDIIRRILEHYFHIH 91
+KI+N +T+ K F + + Y CG TVYD HIGH V D++ R L +
Sbjct: 2 LKIFNTLTRQKEEFKPIHAGEVGMYVCGITVYDLCHIGHGRTFVAFDVVARYL-RFLGYK 60
Query: 92 SIVISSVTDIDDKIINKANSLKEDYKTVAKRYFLPL 127
+ ++TDIDDKII +AN E + + R +
Sbjct: 61 LKYVRNITDIDDKIIKRANENGESFVAMVDRMIAEM 96
Score = 33.9 bits (76), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 1/59 (1%)
Query: 144 GHAVCNVKLDIIRRILEHYFHIHSIVISSVTDIDDKIINKANSLKEDYKTVAKRYFLRL 202
GH V D++ R L + + ++TDIDDKII +AN E + + R +
Sbjct: 39 GHGRTFVAFDVVARYL-RFLGYKLKYVRNITDIDDKIIKRANENGESFVAMVDRMIAEM 96
>pdb|3C8Z|A Chain A, The 1.6 A Crystal Structure Of Mshc: The Rate Limiting
Enzyme In The Mycothiol Biosynthetic Pathway
pdb|3C8Z|B Chain B, The 1.6 A Crystal Structure Of Mshc: The Rate Limiting
Enzyme In The Mycothiol Biosynthetic Pathway
Length = 414
Score = 101 bits (252), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 60/178 (33%), Positives = 90/178 (50%), Gaps = 15/178 (8%)
Query: 306 YFESMEKFGVLPPTRATRVSEFIPHIQSFIQTLLDTKQAYIGSDHS---VYFDVDSFPH- 361
+ E M VLPP ++ I + ++ LL + AYI D VYF D+
Sbjct: 113 FREDMAALRVLPPHDYVAATDAIAEVVEMVEKLLASGAAYIVEDAEYPDVYFRADATAQF 172
Query: 362 -YFKLWGRNENITQHAV---------KRSPFDFALWKSAKPGEPWYESAWGKGRPGWHIE 411
Y + R+ +T A K D LW++ +PGEP + S +G+GRPGWH+E
Sbjct: 173 GYESGYDRDTMLTLFAERGGDPDRPGKSDQLDALLWRAERPGEPSWPSPFGRGRPGWHVE 232
Query: 412 CSAMASHFFGGQVDLHTGGIDLKFPHHENEEAQSCAFHNQSQWVNYWLHTGHLRGTDG 469
CSA+A G +D+ GG DL FPHHE A + + + ++ +++HTG + G DG
Sbjct: 233 CSAIALTRIGTGLDIQGGGSDLIFPHHEYSAAHAESVTGERRFARHYVHTGMI-GWDG 289
Score = 48.5 bits (114), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 28/107 (26%), Positives = 49/107 (45%), Gaps = 8/107 (7%)
Query: 21 KWSLPS-----GYDTGIKIYNPITKTKVPFIIQNKNHLKWYACGPTVYDSPHIGHAVCNV 75
WS P+ G +++++ + P + Y CG T YD+ H+GHA +
Sbjct: 5 SWSAPAIPVVPGRGPALRLFDSADRQVRPVTPGPTATM--YVCGITPYDATHLGHAATYL 62
Query: 76 KLDIIRRILEHYFHIHSIVISSVTDIDDKIINKANSLKEDYKTVAKR 122
D++ R+ H V +VTD+DD + +A D++T+ R
Sbjct: 63 TFDLVHRLWLDAGHTVQYV-QNVTDVDDPLFERAERDGIDWRTLGDR 108
Score = 32.0 bits (71), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 144 GHAVCNVKLDIIRRILEHYFHIHSIVISSVTDIDDKIINKANSLKEDYKTVAKR 197
GHA + D++ R+ H V +VTD+DD + +A D++T+ R
Sbjct: 56 GHAATYLTFDLVHRLWLDAGHTVQYV-QNVTDVDDPLFERAERDGIDWRTLGDR 108
>pdb|3SP1|A Chain A, Crystal Structure Of Cysteinyl-Trna Synthetase (Cyss) From
Borrelia Burgdorferi
pdb|3SP1|B Chain B, Crystal Structure Of Cysteinyl-Trna Synthetase (Cyss) From
Borrelia Burgdorferi
Length = 501
Score = 85.5 bits (210), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 54/170 (31%), Positives = 86/170 (50%), Gaps = 13/170 (7%)
Query: 306 YFESMEKFGVLPPTRATRVSEFIPHIQSFIQTLLDTKQAYIGSDHSVYFDVDSFPHYFKL 365
+F K ++ P + S+ IP + ++ L + K Y S+ +VYFD F Y ++
Sbjct: 126 FFNDCRKLNIVYPDKVLVASKHIPIMIEVVKILEEKKITYF-SNGNVYFDTSCFKSYGEM 184
Query: 366 WGRN---ENITQHAV-----KRSPFDFALW---KSAKPGEPWYESAWGKGRPGWHIECSA 414
G + +++T V KR+ DF LW K E ++S WG G P WH+EC+A
Sbjct: 185 AGIDLIDKDMTLPRVDVDKFKRNKTDFVLWFTNSKFKDQEMKWDSPWGFGYPSWHLECAA 244
Query: 415 MASHFFGGQVDLHTGGIDLKFPHHENEEAQSCAFHNQSQWVNYWLHTGHL 464
M +F +D+H GG+D HH NE A + F N+ +W + ++H L
Sbjct: 245 MNLEYFKDALDIHLGGVDHIGVHHINEIAIAECFLNK-KWCDVFVHGEFL 293
Score = 38.5 bits (88), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/39 (48%), Positives = 27/39 (69%), Gaps = 2/39 (5%)
Query: 32 IKIYNPITKTKVPFIIQNKNHLKWYACGPTVYDSPHIGH 70
+K+YN T+TK + N ++K YACGPTVY+ HIG+
Sbjct: 24 LKLYN--TRTKDFSELTNFENVKVYACGPTVYNYAHIGN 60
>pdb|2CSX|A Chain A, Crystal Structure Of Aquifex Aeolicus Methionyl-Trna
Synthetase Complexed With Trna(Met)
pdb|2CSX|B Chain B, Crystal Structure Of Aquifex Aeolicus Methionyl-Trna
Synthetase Complexed With Trna(Met)
pdb|2CT8|A Chain A, Crystal Structure Of Aquifex Aeolicus Methionyl-Trna
Synthetase Complexed With Trna(Met) And
Methionyl-Adenylate Anologue
pdb|2CT8|B Chain B, Crystal Structure Of Aquifex Aeolicus Methionyl-Trna
Synthetase Complexed With Trna(Met) And
Methionyl-Adenylate Anologue
Length = 497
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 29/64 (45%), Gaps = 9/64 (14%)
Query: 54 KWYACGPTVY--DSPHIGHAVCNVKLDIIRRILEHYFHIHSIVISSVTDIDD---KIINK 108
K+Y P Y D PH+GHA + D I R Y+ + + +T D+ KI K
Sbjct: 6 KFYVTTPIYYVNDVPHLGHAYTTIAADTIAR----YYRLRDYDVFFLTGTDEHGLKIQKK 61
Query: 109 ANSL 112
A L
Sbjct: 62 AEEL 65
>pdb|2FAT|H Chain H, An Anti-Urokinase Plasminogen Activator Receptor (Upar)
Antibody: Crystal Structure And Binding Epitope
pdb|3BT2|H Chain H, Structure Of Urokinase Receptor, Urokinase And Vitronectin
Complex
Length = 214
Score = 29.6 bits (65), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 349 DHSVYFDVDSFPH-YFKLWGRNENITQHAVKRSP 381
D +VYF PH YF +WG+ +T + K +P
Sbjct: 90 DSAVYFCARWGPHWYFDVWGQGTTVTVSSAKTTP 123
>pdb|3GHG|A Chain A, Crystal Structure Of Human Fibrinogen
pdb|3GHG|D Chain D, Crystal Structure Of Human Fibrinogen
pdb|3GHG|G Chain G, Crystal Structure Of Human Fibrinogen
pdb|3GHG|J Chain J, Crystal Structure Of Human Fibrinogen
Length = 562
Score = 29.6 bits (65), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 34/72 (47%), Gaps = 4/72 (5%)
Query: 182 NKANSLKEDYKTVAKRYFLRLIFKILH----QKVVRKLAIDLKKAKVDSGPVLTKCDEFR 237
N N + ED ++ + ++I K+ H QK VR +D+K+ +VD + C
Sbjct: 106 NTYNRVSEDLRSRIEVLKRKVIEKVQHIQLLQKNVRAQLVDMKRLEVDIDIKIRSCRGSC 165
Query: 238 DELLALGVQIKD 249
LA V +KD
Sbjct: 166 SRALAREVDLKD 177
>pdb|2FD6|H Chain H, Structure Of Human Urokinase Plasminogen Activator In
Complex With Urokinase Receptor And An Anti-Upar
Antibody At 1.9 A
Length = 213
Score = 29.6 bits (65), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 349 DHSVYFDVDSFPH-YFKLWGRNENITQHAVKRSP 381
D +VYF PH YF +WG+ +T + K +P
Sbjct: 90 DSAVYFCARWGPHWYFDVWGQGTTVTVSSAKTTP 123
>pdb|1AHW|B Chain B, A Complex Of Extracellular Domain Of Tissue Factor With An
Inhibitory Fab (5g9)
pdb|1AHW|E Chain E, A Complex Of Extracellular Domain Of Tissue Factor With An
Inhibitory Fab (5g9)
pdb|1FGN|H Chain H, Monoclonal Murine Antibody 5g9-Anti-Human Tissue Factor
Length = 214
Score = 29.3 bits (64), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 19/82 (23%), Positives = 33/82 (40%), Gaps = 10/82 (12%)
Query: 308 ESMEKFGVLPPTRATRVSEFIPHIQSFIQTLLDTKQ--AYI------GSDHSVYFDVDSF 359
+ +E G++ P + + P Q DT AY+ D +VY+
Sbjct: 43 QGLEWIGLIDPENGNTI--YDPKFQGKASITADTSSNTAYLQLSSLTSEDTAVYYCARDN 100
Query: 360 PHYFKLWGRNENITQHAVKRSP 381
+YF WG+ +T + K +P
Sbjct: 101 SYYFDYWGQGTTLTVSSAKTTP 122
>pdb|3QZ0|A Chain A, Structure Of Treponema Denticola Factor H Binding Protein
(Fhbb), Selenomethionine Derivative
pdb|3QZ0|B Chain B, Structure Of Treponema Denticola Factor H Binding Protein
(Fhbb), Selenomethionine Derivative
Length = 93
Score = 28.9 bits (63), Expect = 7.4, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 24/47 (51%)
Query: 205 KILHQKVVRKLAIDLKKAKVDSGPVLTKCDEFRDELLALGVQIKDQK 251
K ++K + L +LK + +G V+ E E LAL QI D+K
Sbjct: 23 KAHYEKFINALENELKTRHIPAGAVIDXLAEINTEALALDYQIVDKK 69
>pdb|3R15|A Chain A, Structure Treponema Denticola Factor H Binding Protein
pdb|3R15|B Chain B, Structure Treponema Denticola Factor H Binding Protein
Length = 93
Score = 28.5 bits (62), Expect = 9.0, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 24/47 (51%)
Query: 205 KILHQKVVRKLAIDLKKAKVDSGPVLTKCDEFRDELLALGVQIKDQK 251
K ++K + L +LK + +G V+ E E LAL QI D+K
Sbjct: 23 KAHYEKFINALENELKTRHIPAGAVIDMLAEINTEALALDYQIVDKK 69
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 0.138 0.435
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,267,278
Number of Sequences: 62578
Number of extensions: 702273
Number of successful extensions: 1643
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1619
Number of HSP's gapped (non-prelim): 26
length of query: 515
length of database: 14,973,337
effective HSP length: 103
effective length of query: 412
effective length of database: 8,527,803
effective search space: 3513454836
effective search space used: 3513454836
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (25.4 bits)