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= psy17313
(197 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2OHF|A Chain A, Crystal Structure Of Human Ola1 In Complex With Amppcp
Length = 396
Score = 239 bits (611), Expect = 6e-64, Method: Compositional matrix adjust.
Identities = 120/188 (63%), Positives = 138/188 (73%), Gaps = 2/188 (1%)
Query: 9 IEHLNKLNLLTAKTQIYLVNLSAKDYIXXXXXXXXXXXEWVDANDPGATIIPFSGVFEHQ 68
IE LNK LT+K +YLVNLS KDYI EWVD DPGA +IPFSG E +
Sbjct: 211 IEVLNKHLFLTSKPMVYLVNLSEKDYIRKKNKWLIKIKEWVDKYDPGALVIPFSGALELK 270
Query: 69 LVDMPDDERQRYLDEQKATSVLDKIITQGYKSLQLQYFFTAGQDEVKAWTIQKGTKAPQA 128
L ++ +ERQ+YL+ S L KII G+ +LQL+YFFTAG DEV+AWTI+KGTKAPQA
Sbjct: 271 LQELSAEERQKYLEANMTQSALPKIIKAGFAALQLEYFFTAGPDEVRAWTIRKGTKAPQA 330
Query: 129 AGRIHTDFEKGFIMAEVMHFDDFKEHGSEAACRAAGKYRQQGRAYTVEDGDIIFFKFNAG 188
AG+IHTDFEKGFIMAEVM ++DFKE GSE A +AAGKYRQQGR Y VEDGDIIFFKFN
Sbjct: 331 AGKIHTDFEKGFIMAEVMKYEDFKEEGSENAVKAAGKYRQQGRNYIVEDGDIIFFKFNTP 390
Query: 189 AGLNPKKK 196
PKKK
Sbjct: 391 Q--QPKKK 396
>pdb|1NI3|A Chain A, Structure Of The Schizosaccharomyces Pombe Ychf Gtpase
Length = 392
Score = 174 bits (440), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 83/176 (47%), Positives = 112/176 (63%)
Query: 9 IEHLNKLNLLTAKTQIYLVNLSAKDYIXXXXXXXXXXXEWVDANDPGATIIPFSGVFEHQ 68
+E +N L LLTAK IYLVN S +D++ +W+D N PG T+IP S FE +
Sbjct: 213 VEIINSLYLLTAKPVIYLVNXSERDFLRQKNKYLPKIKKWIDENSPGDTLIPXSVAFEER 272
Query: 69 LVDMPDDERQRYLDEQKATSVLDKIITQGYKSLQLQYFFTAGQDEVKAWTIQKGTKAPQA 128
L + ++E + S L KII GY +L L +FT G+DEV++WTI+KGTKAPQA
Sbjct: 273 LTNFTEEEAIEECKKLNTKSXLPKIIVTGYNALNLINYFTCGEDEVRSWTIRKGTKAPQA 332
Query: 129 AGRIHTDFEKGFIMAEVMHFDDFKEHGSEAACRAAGKYRQQGRAYTVEDGDIIFFK 184
AG IHTDFEK F++ E+ H+ D ++ +E ACRAAGKY +G+ Y E GDI +K
Sbjct: 333 AGVIHTDFEKAFVVGEIXHYQDLFDYKTENACRAAGKYLTKGKEYVXESGDIAHWK 388
>pdb|1JAL|A Chain A, Ychf Protein (Hi0393)
pdb|1JAL|B Chain B, Ychf Protein (Hi0393)
Length = 363
Score = 128 bits (321), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 66/184 (35%), Positives = 104/184 (56%), Gaps = 15/184 (8%)
Query: 9 IEHLNKLNLLTAKTQIYLVNLSAKDYIXXXXXXXXXXXEWVD-----ANDPGATIIPFSG 63
++ + N LT K +Y+ N++ + ++D A GA ++P
Sbjct: 188 LQAIKSYNFLTLKPTMYIANVNEDGF---------ENNPYLDRVREIAAKEGAVVVPVCA 238
Query: 64 VFEHQLVDMPDDERQRYL-DEQKATSVLDKIITQGYKSLQLQYFFTAGQDEVKAWTIQKG 122
E ++ ++ D+E+ +L D L+++I GY L LQ +FTAG EV+AWT+ G
Sbjct: 239 AIESEIAELDDEEKVEFLQDLGIEEPGLNRVIRAGYALLNLQTYFTAGVKEVRAWTVSVG 298
Query: 123 TKAPQAAGRIHTDFEKGFIMAEVMHFDDFKEHGSEAACRAAGKYRQQGRAYTVEDGDIIF 182
AP+AA IHTDFEKGFI AEV+ ++DF + E + AGK+R +G+ Y V+DGD++
Sbjct: 299 ATAPKAAAVIHTDFEKGFIRAEVIAYEDFIQFNGENGAKEAGKWRLEGKDYIVQDGDVMH 358
Query: 183 FKFN 186
F+FN
Sbjct: 359 FRFN 362
>pdb|2DWQ|A Chain A, Thermus Thermophilus Ychf Gtp-Binding Protein
pdb|2DWQ|B Chain B, Thermus Thermophilus Ychf Gtp-Binding Protein
Length = 368
Score = 123 bits (308), Expect = 8e-29, Method: Compositional matrix adjust.
Identities = 68/177 (38%), Positives = 101/177 (57%), Gaps = 2/177 (1%)
Query: 12 LNKLNLLTAKTQIYLVNLSAKDYIXXXXXXXXXXXEWVDANDPGATIIPFSGVFEHQLVD 71
L + LLTAK IY+ N++ +D A + GA ++ S E +L +
Sbjct: 193 LKETPLLTAKPVIYVANVAEEDLPDGRGNPQVEAVRR-KALEEGAEVVVVSARLEAELAE 251
Query: 72 MPDDERQRYLDEQKA-TSVLDKIITQGYKSLQLQYFFTAGQDEVKAWTIQKGTKAPQAAG 130
+ +E + L S L ++ GY++L L FFTAG+ EV+AWT+++GTKAP+AAG
Sbjct: 252 LSGEEARELLAAYGLQESGLQRLARAGYRALDLLTFFTAGEKEVRAWTVRRGTKAPRAAG 311
Query: 131 RIHTDFEKGFIMAEVMHFDDFKEHGSEAACRAAGKYRQQGRAYTVEDGDIIFFKFNA 187
IH+D E+GFI AEV+ +D E G A + G R +G+ Y V+DGD+I+ FNA
Sbjct: 312 EIHSDMERGFIRAEVIPWDKLVEAGGWARAKERGWVRLEGKDYEVQDGDVIYVLFNA 368
>pdb|2DBY|A Chain A, Crystal Structure Of The Gtp-Binding Protein Ychf In
Complexed With Gdp
Length = 368
Score = 122 bits (305), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 68/177 (38%), Positives = 101/177 (57%), Gaps = 2/177 (1%)
Query: 12 LNKLNLLTAKTQIYLVNLSAKDYIXXXXXXXXXXXEWVDANDPGATIIPFSGVFEHQLVD 71
L + LLTAK IY+ N++ +D A + GA ++ S E +L +
Sbjct: 193 LKETPLLTAKPVIYVANVAEEDLPDGRGNPQVEAVRR-KALEEGAEVVVVSARLEAELAE 251
Query: 72 MPDDERQRYLDEQKA-TSVLDKIITQGYKSLQLQYFFTAGQDEVKAWTIQKGTKAPQAAG 130
+ +E + L S L ++ GY++L L FFTAG+ EV+AWT+++GTKAP+AAG
Sbjct: 252 LSGEEARELLAAYGLQESGLQRLARAGYRALDLLTFFTAGEKEVRAWTVRRGTKAPRAAG 311
Query: 131 RIHTDFEKGFIMAEVMHFDDFKEHGSEAACRAAGKYRQQGRAYTVEDGDIIFFKFNA 187
IH+D E+GFI AEV+ +D E G A + G R +G+ Y V+DGD+I+ FNA
Sbjct: 312 EIHSDXERGFIRAEVIPWDKLVEAGGWARAKERGWVRLEGKDYEVQDGDVIYVLFNA 368
>pdb|3ZF7|W Chain W, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 139
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 20/27 (74%)
Query: 168 QQGRAYTVEDGDIIFFKFNAGAGLNPK 194
+Q +++ +DG +I+F+ NAG +NPK
Sbjct: 82 RQRKSWRRKDGTVIYFEDNAGVIVNPK 108
>pdb|3NIP|A Chain A, Crystal Structure Of Pseudomonas Aeruginosa
Guanidinopropionase Complexed With 1,6-Diaminohexane
pdb|3NIP|B Chain B, Crystal Structure Of Pseudomonas Aeruginosa
Guanidinopropionase Complexed With 1,6-Diaminohexane
pdb|3NIP|C Chain C, Crystal Structure Of Pseudomonas Aeruginosa
Guanidinopropionase Complexed With 1,6-Diaminohexane
pdb|3NIP|D Chain D, Crystal Structure Of Pseudomonas Aeruginosa
Guanidinopropionase Complexed With 1,6-Diaminohexane
pdb|3NIP|E Chain E, Crystal Structure Of Pseudomonas Aeruginosa
Guanidinopropionase Complexed With 1,6-Diaminohexane
pdb|3NIP|F Chain F, Crystal Structure Of Pseudomonas Aeruginosa
Guanidinopropionase Complexed With 1,6-Diaminohexane
pdb|3NIQ|A Chain A, Crystal Structure Of Pseudomonas Aeruginosa
Guanidinopropionase
pdb|3NIQ|B Chain B, Crystal Structure Of Pseudomonas Aeruginosa
Guanidinopropionase
Length = 326
Score = 27.3 bits (59), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 21/47 (44%)
Query: 144 EVMHFDDFKEHGSEAACRAAGKYRQQGRAYTVEDGDIIFFKFNAGAG 190
V+H ++F E G EA A + G Y D D++ F G G
Sbjct: 207 RVIHMEEFVELGVEATLAEARRVVGAGPTYVSFDVDVLDPAFAPGTG 253
>pdb|2ELB|A Chain A, Crystal Structure Of The Bar-Ph Domain Of Human Appl1
Length = 396
Score = 26.9 bits (58), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 24/98 (24%), Positives = 34/98 (34%), Gaps = 6/98 (6%)
Query: 63 GVFEHQLVDMPDDERQ------RYLDEQKATSVLDKIITQGYKSLQLQYFFTAGQDEVKA 116
GVFE + + Q R D Q S + ++ K + Q F G DEV +
Sbjct: 44 GVFEEDATAISNYXNQLYQAXHRIYDAQNELSAATHLTSKLLKEYEKQRFPLGGDDEVXS 103
Query: 117 WTIQKGTKAPQAAGRIHTDFEKGFIMAEVMHFDDFKEH 154
T+Q+ +K H A FKE
Sbjct: 104 STLQQFSKVIDELSSCHAVLSTQLADAXXFPITQFKER 141
>pdb|2Z0O|A Chain A, Crystal Structure Of Appl1-Bar-Ph Domain
Length = 387
Score = 26.9 bits (58), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 24/98 (24%), Positives = 34/98 (34%), Gaps = 6/98 (6%)
Query: 63 GVFEHQLVDMPDDERQ------RYLDEQKATSVLDKIITQGYKSLQLQYFFTAGQDEVKA 116
GVFE + + Q R D Q S + ++ K + Q F G DEV +
Sbjct: 26 GVFEEDATAISNYXNQLYQAXHRIYDAQNELSAATHLTSKLLKEYEKQRFPLGGDDEVXS 85
Query: 117 WTIQKGTKAPQAAGRIHTDFEKGFIMAEVMHFDDFKEH 154
T+Q+ +K H A FKE
Sbjct: 86 STLQQFSKVIDELSSCHAVLSTQLADAXXFPITQFKER 123
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
0.320 0.136 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,957,487
Number of Sequences: 62578
Number of extensions: 225224
Number of successful extensions: 559
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 543
Number of HSP's gapped (non-prelim): 13
length of query: 197
length of database: 14,973,337
effective HSP length: 94
effective length of query: 103
effective length of database: 9,091,005
effective search space: 936373515
effective search space used: 936373515
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)