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= psy5052
(172 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1TV7|A Chain A, Structure Of The S-adenosylmethionine Dependent Enzyme
Moaa
pdb|1TV7|B Chain B, Structure Of The S-adenosylmethionine Dependent Enzyme
Moaa
pdb|1TV8|A Chain A, Structure Of Moaa In Complex With S-Adenosylmethionine
pdb|1TV8|B Chain B, Structure Of Moaa In Complex With S-Adenosylmethionine
pdb|2FB3|A Chain A, Structure Of Moaa In Complex With 5'-Gtp
pdb|2FB3|B Chain B, Structure Of Moaa In Complex With 5'-Gtp
Length = 340
Score = 104 bits (259), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 63/169 (37%), Positives = 96/169 (56%), Gaps = 5/169 (2%)
Query: 4 AGLDSINISLDTLKPDKYEFITRRK-GWSRVLAGIDLAVQLGYDNLKVNVVVMKNFNDDE 62
AGL IN+SLD + ++ I R + +L ID A +G N+KVNVV+ K NDD+
Sbjct: 118 AGLRRINVSLDAIDDTLFQSINNRNIKATTILEQIDYATSIGL-NVKVNVVIQKGINDDQ 176
Query: 63 ILDFVLLTRDRPIDVRFIEYMPFSG-NQWNNTKIMPFSEMLTKIKEAHPDLLTLE-NAPN 120
I+ + +D+ I++RFIE+M N W+ +K++ EMLT I E H ++ +E
Sbjct: 177 IIPMLEYFKDKHIEIRFIEFMDVGNDNGWDFSKVVTKDEMLTMI-EQHFEIDPVEPKYFG 235
Query: 121 DTSKAYKVPEFKGQVGFITSMTEHFCGTCNRLRLMADGSLKVCLFGNTE 169
+ +K Y+ + Q G ITS+++ FC TC R RL +DG CLF +
Sbjct: 236 EVAKYYRHKDNGVQFGLITSVSQSFCSTCTRARLSSDGKFYGCLFATVD 284
>pdb|2FB2|A Chain A, Structure Of The Moaa Arg17266268ALA TRIPLE MUTANT
pdb|2FB2|B Chain B, Structure Of The Moaa Arg17266268ALA TRIPLE MUTANT
Length = 340
Score = 99.0 bits (245), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 61/169 (36%), Positives = 94/169 (55%), Gaps = 5/169 (2%)
Query: 4 AGLDSINISLDTLKPDKYEFITRRK-GWSRVLAGIDLAVQLGYDNLKVNVVVMKNFNDDE 62
AGL IN+SLD + ++ I R + +L ID A +G N+KVNVV+ K NDD+
Sbjct: 118 AGLRRINVSLDAIDDTLFQSINNRNIKATTILEQIDYATSIGL-NVKVNVVIQKGINDDQ 176
Query: 63 ILDFVLLTRDRPIDVRFIEYMPFSG-NQWNNTKIMPFSEMLTKIKEAHPDLLTLE-NAPN 120
I+ + +D+ I++RFIE+M N W+ +K++ EMLT I E H ++ +E
Sbjct: 177 IIPMLEYFKDKHIEIRFIEFMDVGNDNGWDFSKVVTKDEMLTMI-EQHFEIDPVEPKYFG 235
Query: 121 DTSKAYKVPEFKGQVGFITSMTEHFCGTCNRLRLMADGSLKVCLFGNTE 169
+ +K Y+ + Q G ITS+++ FC TC L +DG CLF +
Sbjct: 236 EVAKYYRHKDNGVQFGLITSVSQSFCSTCTAAALSSDGKFYGCLFATVD 284
>pdb|2VNU|D Chain D, Crystal Structure Of Sc Rrp44
Length = 760
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 26/102 (25%), Positives = 44/102 (43%), Gaps = 17/102 (16%)
Query: 73 RPIDVRFIEYMPFSGNQW------NNTKIMPFSEMLTKIKEAHPDLLTLENAP-----ND 121
RP + +E +P G+ W ++ + + +LTK K+ L+ + P ND
Sbjct: 252 RPFSKKVLECLPAEGHDWKAPTKLDDPEAVSKDPLLTKRKDLRDKLICSIDPPGCVDIND 311
Query: 122 TSKAYKVPEFKGQVGFITSMTEHFC--GTCNRLRLMADGSLK 161
A K+P +VG + HF GT L A+G+ +
Sbjct: 312 ALHAKKLPNGNWEVGVHIADVTHFVKPGTA----LDAEGAAR 349
>pdb|2WP8|J Chain J, Yeast Rrp44 Nuclease
Length = 977
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 36/84 (42%), Gaps = 11/84 (13%)
Query: 73 RPIDVRFIEYMPFSGNQW------NNTKIMPFSEMLTKIKEAHPDLLTLENAP-----ND 121
RP + +E +P G+ W ++ + + +LTK K+ L+ + P ND
Sbjct: 469 RPFSKKVLECLPAEGHDWKAPTKLDDPEAVSKDPLLTKRKDLRDKLICSIDPPGCVDIND 528
Query: 122 TSKAYKVPEFKGQVGFITSMTEHF 145
A K+P +VG + HF
Sbjct: 529 ALHAKKLPNGNWEVGVHIADVTHF 552
>pdb|4IFD|J Chain J, Crystal Structure Of An 11-subunit Eukaryotic Exosome
Complex Bound To Rna
Length = 1003
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 36/84 (42%), Gaps = 11/84 (13%)
Query: 73 RPIDVRFIEYMPFSGNQW------NNTKIMPFSEMLTKIKEAHPDLLTLENAP-----ND 121
RP + +E +P G+ W ++ + + +LTK K+ L+ + P ND
Sbjct: 495 RPFSKKVLECLPAEGHDWKAPTKLDDPEAVSKDPLLTKRKDLRDKLICSIDPPGCVDIND 554
Query: 122 TSKAYKVPEFKGQVGFITSMTEHF 145
A K+P +VG + HF
Sbjct: 555 ALHAKKLPNGNWEVGVHIADVTHF 578
>pdb|1FEH|A Chain A, Fe-Only Hydrogenase From Clostridium Pasteurianum
pdb|1C4A|A Chain A, Binding Of Exogenously Added Carbon Monoxide At The Active
Site Of The Fe-Only Hydrogenase (Cpi) From Clostridium
Pasteurianum
pdb|1C4C|A Chain A, Binding Of Exogenously Added Carbon Monoxide At The Active
Site Of The Fe-Only Hydrogenase (Cpi) From Clostridium
Pasteurianum
pdb|3C8Y|A Chain A, 1.39 Angstrom Crystal Structure Of Fe-Only Hydrogenase
Length = 574
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 37/94 (39%), Gaps = 1/94 (1%)
Query: 58 FNDDEILDFVLLTRDRPIDVRFIEYMPFSGNQWNNTKIMPFSEMLTKIKEAHPDLLTLEN 117
FN DE + RD ID+ + ++ N N +I T + A L+
Sbjct: 11 FNTDEDTTILKFARDNNIDISALCFLNNCNNDINKCEICTVEVEGTGLVTACDTLIEDGM 70
Query: 118 APNDTSKAYKVPEFKGQVGFITSMTEHFCGTCNR 151
N S A + K ++ + + E CG CNR
Sbjct: 71 IINTNSDAVN-EKIKSRISQLLDIHEFKCGPCNR 103
>pdb|3H7U|A Chain A, Crystal Structure Of The Plant Stress-Response Enzyme
Akr4c9
Length = 335
Score = 27.3 bits (59), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 28/59 (47%), Gaps = 5/59 (8%)
Query: 40 AVQLGYDNLKVNVVVMKNFNDDEILDFVLLTRDRPIDVRFIEYMPFSGNQWNNTKIMPF 98
A++ YD+ K + + NF+ ++ D + L R P V +E P W TK+ F
Sbjct: 162 AMEALYDSGKARAIGVSNFSTKKLADLLELARVPPA-VNQVECHP----SWRQTKLQEF 215
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
0.321 0.139 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,188,237
Number of Sequences: 62578
Number of extensions: 206152
Number of successful extensions: 529
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 517
Number of HSP's gapped (non-prelim): 13
length of query: 172
length of database: 14,973,337
effective HSP length: 92
effective length of query: 80
effective length of database: 9,216,161
effective search space: 737292880
effective search space used: 737292880
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 48 (23.1 bits)