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= 011008
(496 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2OGH|A Chain A, Solution Structure Of Yeast Eif1
Length = 108
Score = 39.3 bits (90), Expect = 0.006, Method: Composition-based stats.
Identities = 24/83 (28%), Positives = 47/83 (56%), Gaps = 4/83 (4%)
Query: 408 IQIVTERRQGNKKMTKLSGL-ETFLMDPEALASELQKKFACSTTVAELPGKKGQEVLIQG 466
I I ++R G K +T + G+ E + D + + L+K FAC+ + + P + G+ + +QG
Sbjct: 26 IHIRIQQRNGRKTLTTVQGVPEEY--DLKRILKVLKKDFACNGNIVKDP-EMGEIIQLQG 82
Query: 467 GVIADVAKHLVEQFGIPKRYIEV 489
A V + ++ Q G+ K+ I++
Sbjct: 83 DQRAKVCEFMISQLGLQKKNIKI 105
>pdb|3D79|A Chain A, Crystal Structure Of Hypothetical Protein Ph0734.1 From
Hyperthermophilic Archaea Pyrococcus Horikoshii Ot3
Length = 179
Score = 33.9 bits (76), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 31 PIAVGSTTMSSTEALKAGLRGKALRITHYYRDLLW 65
P+A+G MS + +K RGKA+++ H+ RD +W
Sbjct: 141 PLAIGIALMSG-KVMKEKNRGKAVKVIHHARDKIW 174
>pdb|1V32|A Chain A, Solution Structure Of The SwibMDM2 DOMAIN OF THE
Hypothetical Protein At5g08430 From Arabidopsis Thaliana
Length = 101
Score = 32.7 bits (73), Expect = 0.46, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 23/43 (53%)
Query: 312 SVGADTGRLYTFSEACDVVFNYIEKENLVKPTAKSIVVLDPTL 354
S+G DT + + + D + YI KE L+ P+ K VV D L
Sbjct: 26 SLGKDTSEMISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRL 68
>pdb|3M6Y|A Chain A, Structure Of 4-Hydroxy-2-Oxoglutarate Aldolase From
Bacillus Cereus At 1.45 A Resolution.
pdb|3M6Y|B Chain B, Structure Of 4-Hydroxy-2-Oxoglutarate Aldolase From
Bacillus Cereus At 1.45 A Resolution.
pdb|3M6Y|C Chain C, Structure Of 4-Hydroxy-2-Oxoglutarate Aldolase From
Bacillus Cereus At 1.45 A Resolution.
pdb|3M6Y|D Chain D, Structure Of 4-Hydroxy-2-Oxoglutarate Aldolase From
Bacillus Cereus At 1.45 A Resolution
Length = 275
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 284 ASDNIQPAKILEVTEVYKPSVHVNPIFASVGADTGRL 320
A DN Q A + E+ + Y P H+N +F SVGA L
Sbjct: 96 AGDNRQAAVVAEIAKHY-PGSHINQVFPSVGATRANL 131
>pdb|3N73|A Chain A, Crystal Structure Of A Putative 4-Hydroxy-2-Oxoglutarate
Ald Bacillus Cereus
pdb|3N73|B Chain B, Crystal Structure Of A Putative 4-Hydroxy-2-Oxoglutarate
Ald Bacillus Cereus
Length = 251
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 284 ASDNIQPAKILEVTEVYKPSVHVNPIFASVGADTGRL 320
A DN Q A + E+ + Y P H+N +F SVGA L
Sbjct: 72 AGDNRQAAVVAEIAKHY-PGSHINQVFPSVGATRANL 107
>pdb|2IF1|A Chain A, Human Translation Initiation Factor Eif1, Nmr, 29
Structures
Length = 126
Score = 30.4 bits (67), Expect = 2.2, Method: Composition-based stats.
Identities = 25/76 (32%), Positives = 40/76 (52%), Gaps = 2/76 (2%)
Query: 403 GALKTIQIVTERRQGNKKMTKLSGLETFLMDPEALASELQKKFACSTTVAELPGKKGQEV 462
G I I ++R G K +T + G+ D + L +KKFAC+ TV E P + G+ +
Sbjct: 39 GTEDYIHIRIQQRNGRKTLTTVQGIADD-YDKKKLVKAFKKKFACNGTVIEHP-EYGEVI 96
Query: 463 LIQGGVIADVAKHLVE 478
+QG ++ + LVE
Sbjct: 97 QLQGDQRKNICQFLVE 112
>pdb|3MUX|A Chain A, The Crystal Structure Of A Putative
4-Hydroxy-2-Oxoglutarate From Bacillus Anthracis To
1.45a
pdb|3MUX|B Chain B, The Crystal Structure Of A Putative
4-Hydroxy-2-Oxoglutarate From Bacillus Anthracis To
1.45a
Length = 251
Score = 30.0 bits (66), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 284 ASDNIQPAKILEVTEVYKPSVHVNPIFASVGADTGRL 320
A DN Q A + E+ + Y S H+N +F SVGA L
Sbjct: 72 AGDNRQAAVVAEIAKHYSGS-HINQVFPSVGATRANL 107
>pdb|2LEA|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm
pdb|2LEB|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uccagu-3'
pdb|2LEC|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uggagu-3'
Length = 135
Score = 29.6 bits (65), Expect = 4.0, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 30/66 (45%), Gaps = 8/66 (12%)
Query: 221 KSSHKKLTKWLQAKSSAGLISVKEDKYKKESMLFSVNRGHPDYLSFKPEKRPAEKASQAV 280
++S L + + G + + D+Y KES F+ R H +KR AE A A+
Sbjct: 58 RTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFH--------DKRDAEDAMDAM 109
Query: 281 DHAASD 286
D A D
Sbjct: 110 DGAVLD 115
>pdb|1VDE|A Chain A, Pi-Scei, A Homing Endonuclease With Protein Splicing
Activity
pdb|1VDE|B Chain B, Pi-Scei, A Homing Endonuclease With Protein Splicing
Activity
pdb|1DFA|A Chain A, Crystal Structure Of Pi-Scei In C2 Space Group
Length = 454
Score = 29.3 bits (64), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 27/111 (24%), Positives = 49/111 (44%), Gaps = 16/111 (14%)
Query: 49 LRGKALRITHYYRDLLWGSVEGHSVPNAGFLEDVVVEDPAFLSTSQVSDSCEGAADSSND 108
+RG +R + LW ++ G GFL+D V P+FLST D+
Sbjct: 271 VRGNGIRNNLNTENPLWDAIVG-----LGFLKDGVKNIPSFLST-----------DNIGT 314
Query: 109 QKNGEEGIIDADNANSEPNSTSATQDDFDGNIVEQVAADVGDLKLTENVDA 159
++ G+ID+D ++ + AT ++ + + + L L +V+A
Sbjct: 315 RETFLAGLIDSDGYVTDEHGIKATIKTIHTSVRDGLVSLARSLGLVVSVNA 365
>pdb|1EF0|A Chain A, Crystal Structure Of Pi-Scei Miniprecursor
pdb|1EF0|B Chain B, Crystal Structure Of Pi-Scei Miniprecursor
Length = 462
Score = 29.3 bits (64), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 27/111 (24%), Positives = 49/111 (44%), Gaps = 16/111 (14%)
Query: 49 LRGKALRITHYYRDLLWGSVEGHSVPNAGFLEDVVVEDPAFLSTSQVSDSCEGAADSSND 108
+RG +R + LW ++ G GFL+D V P+FLST D+
Sbjct: 275 VRGNGIRNNLNTENPLWDAIVG-----LGFLKDGVKNIPSFLST-----------DNIGT 318
Query: 109 QKNGEEGIIDADNANSEPNSTSATQDDFDGNIVEQVAADVGDLKLTENVDA 159
++ G+ID+D ++ + AT ++ + + + L L +V+A
Sbjct: 319 RETFLAGLIDSDGYVTDEHGIKATIKTIHTSVRDGLVSLARSLGLVVSVNA 369
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 29.3 bits (64), Expect = 5.3, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 30/66 (45%), Gaps = 8/66 (12%)
Query: 221 KSSHKKLTKWLQAKSSAGLISVKEDKYKKESMLFSVNRGHPDYLSFKPEKRPAEKASQAV 280
++S L + + G + + D+Y KES F+ R H +KR AE A A+
Sbjct: 81 RTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFH--------DKRDAEDAMDAM 132
Query: 281 DHAASD 286
D A D
Sbjct: 133 DGAVLD 138
>pdb|1UM2|A Chain A, Crystal Structure Of The Vma1-Derived Endonuclease With
The Ligated Extein Segment
pdb|1UM2|B Chain B, Crystal Structure Of The Vma1-Derived Endonuclease With
The Ligated Extein Segment
Length = 454
Score = 29.3 bits (64), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 27/111 (24%), Positives = 49/111 (44%), Gaps = 16/111 (14%)
Query: 49 LRGKALRITHYYRDLLWGSVEGHSVPNAGFLEDVVVEDPAFLSTSQVSDSCEGAADSSND 108
+RG +R + LW ++ G GFL+D V P+FLST D+
Sbjct: 271 VRGNGIRNNLNTENPLWDAIVG-----LGFLKDGVKNIPSFLST-----------DNIGT 314
Query: 109 QKNGEEGIIDADNANSEPNSTSATQDDFDGNIVEQVAADVGDLKLTENVDA 159
++ G+ID+D ++ + AT ++ + + + L L +V+A
Sbjct: 315 RETFLAGLIDSDGYVTDEHGIKATIKTIHTSVRDGLVSLARSLGLVVSVNA 365
>pdb|1LWS|A Chain A, Crystal Structure Of The Intein Homing Endonuclease
Pi-Scei Bound To Its Recognition Sequence
pdb|1LWT|A Chain A, Crystal Structure Of The Intein Homing Endonuclease
Pi-Scei Bound To Its Substrate Dna (Ca2+ Free)
Length = 454
Score = 28.9 bits (63), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 27/111 (24%), Positives = 49/111 (44%), Gaps = 16/111 (14%)
Query: 49 LRGKALRITHYYRDLLWGSVEGHSVPNAGFLEDVVVEDPAFLSTSQVSDSCEGAADSSND 108
+RG +R + LW ++ G GFL+D V P+FLST D+
Sbjct: 271 VRGNGIRNNLNTENPLWDAIVG-----LGFLKDGVKNIPSFLST-----------DNIGT 314
Query: 109 QKNGEEGIIDADNANSEPNSTSATQDDFDGNIVEQVAADVGDLKLTENVDA 159
++ G+ID+D ++ + AT ++ + + + L L +V+A
Sbjct: 315 RETFLAGLIDSDGYVTDEHGIKATIKTIHTSVRDGLVSLARSLGLVVSVNA 365
>pdb|1JVA|A Chain A, Crystal Structure Of The Vma1-Derived Endonuclease Bearing
The N And C Extein Propeptides
pdb|1JVA|B Chain B, Crystal Structure Of The Vma1-Derived Endonuclease Bearing
The N And C Extein Propeptides
Length = 475
Score = 28.9 bits (63), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 27/111 (24%), Positives = 49/111 (44%), Gaps = 16/111 (14%)
Query: 49 LRGKALRITHYYRDLLWGSVEGHSVPNAGFLEDVVVEDPAFLSTSQVSDSCEGAADSSND 108
+RG +R + LW ++ G GFL+D V P+FLST D+
Sbjct: 282 VRGNGIRNNLNTENPLWDAIVG-----LGFLKDGVKNIPSFLST-----------DNIGT 325
Query: 109 QKNGEEGIIDADNANSEPNSTSATQDDFDGNIVEQVAADVGDLKLTENVDA 159
++ G+ID+D ++ + AT ++ + + + L L +V+A
Sbjct: 326 RETFLAGLIDSDGYVTDEHGIKATIKTIHTSVRDGLVSLARSLGLVVSVNA 376
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
0.312 0.130 0.370
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,164,342
Number of Sequences: 62578
Number of extensions: 634831
Number of successful extensions: 1120
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 1114
Number of HSP's gapped (non-prelim): 22
length of query: 496
length of database: 14,973,337
effective HSP length: 103
effective length of query: 393
effective length of database: 8,527,803
effective search space: 3351426579
effective search space used: 3351426579
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (25.0 bits)