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= psy2927
(123 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4A9A|A Chain A, Structure Of Rbg1 In Complex With Tma46 Dfrp Domain
pdb|4A9A|B Chain B, Structure Of Rbg1 In Complex With Tma46 Dfrp Domain
Length = 376
Score = 163 bits (413), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 69/117 (58%), Positives = 95/117 (81%)
Query: 6 DQISIEELDIIYKIPHCVPLSAHHKWNFDDLLEKMWEYLKLTRIYTKPKGQLPDYQSPVV 65
D +SIEEL+++Y+IP+ VP+S+ WN D+LL+ MW+ L L RIYTKPKGQ+PD+ PVV
Sbjct: 260 DSLSIEELELLYRIPNAVPISSGQDWNLDELLQVMWDRLNLVRIYTKPKGQIPDFTDPVV 319
Query: 66 LHTDRRSIEDFCNKLHRTIAKEFKYALVWGSSVKHQPQKVGKEHVLNDEDVVQIVKK 122
L +DR S++DFCN++H+++ +F+ ALV+GSSVKHQPQ VG H+L DEDVV I+KK
Sbjct: 320 LRSDRCSVKDFCNQIHKSLVDDFRNALVYGSSVKHQPQYVGLSHILEDEDVVTILKK 376
>pdb|2EKI|A Chain A, Solution Structures Of The Tgs Domain Of Human
Developmentally-Regulated Gtp-Binding Protein 1
Length = 93
Score = 129 bits (324), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 60/80 (75%), Positives = 67/80 (83%)
Query: 43 YLKLTRIYTKPKGQLPDYQSPVVLHTDRRSIEDFCNKLHRTIAKEFKYALVWGSSVKHQP 102
YLKL RIYTKPKGQLPDY SPVVL R ++EDFC K+H+ + KEFKYALVWG SVKH P
Sbjct: 8 YLKLVRIYTKPKGQLPDYTSPVVLPYSRTTVEDFCMKIHKNLIKEFKYALVWGLSVKHNP 67
Query: 103 QKVGKEHVLNDEDVVQIVKK 122
QKVGK+H L DEDV+QIVKK
Sbjct: 68 QKVGKDHTLEDEDVIQIVKK 87
>pdb|1W6J|A Chain A, Structure Of Human Osc In Complex With Ro 48-8071
Length = 732
Score = 31.6 bits (70), Expect = 0.11, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 4/48 (8%)
Query: 14 DIIYKIPHCVPLSAHHKWNFDDLLEKMWEYLKLTRIYTKPKGQLPDYQ 61
D + I + HH+ F L+K E+L+L+++ P PDYQ
Sbjct: 388 DTAFAIQALLEAGGHHRPEFSSCLQKAHEFLRLSQVPDNP----PDYQ 431
>pdb|1W6K|A Chain A, Structure Of Human Osc In Complex With Lanosterol
Length = 732
Score = 31.6 bits (70), Expect = 0.11, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 4/48 (8%)
Query: 14 DIIYKIPHCVPLSAHHKWNFDDLLEKMWEYLKLTRIYTKPKGQLPDYQ 61
D + I + HH+ F L+K E+L+L+++ P PDYQ
Sbjct: 388 DTAFAIQALLEAGGHHRPEFSSCLQKAHEFLRLSQVPDNP----PDYQ 431
>pdb|3SJZ|A Chain A, The Structure Of Aif2gamma Subunit Delta 41-45 From
Archaeon Sulfolobus Solfataricus Complexed With Gdp And
Gdpnp
Length = 409
Score = 30.4 bits (67), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 17/23 (73%)
Query: 23 VPLSAHHKWNFDDLLEKMWEYLK 45
+P+SA HK N D L+E + EY+K
Sbjct: 175 IPVSALHKINIDSLIEGIEEYIK 197
>pdb|2PMD|A Chain A, The Structures Of Aif2gamma Subunit From The Archaeon
Sulfolobus Solfataricus In The Gdp-Bound Form.
pdb|2PMD|B Chain B, The Structures Of Aif2gamma Subunit From The Archaeon
Sulfolobus Solfataricus In The Gdp-Bound Form.
pdb|3CW2|A Chain A, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3CW2|B Chain B, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3CW2|E Chain E, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3CW2|F Chain F, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3I1F|A Chain A, Gamma-Subunit Of The Translation Initiation Factor 2 From
S. Solfataricus In Complex With Gpp(Ch2)p
pdb|3I1F|B Chain B, Gamma-Subunit Of The Translation Initiation Factor 2 From
S. Solfataricus In Complex With Gpp(Ch2)p
pdb|3P3M|A Chain A, Gamma-Subunit Of The Translation Initiation Factor 2 From
S. Solfataricus Complexed With Gtp
pdb|3P3M|B Chain B, Gamma-Subunit Of The Translation Initiation Factor 2 From
S. Solfataricus Complexed With Gtp
pdb|3P3M|C Chain C, Gamma-Subunit Of The Translation Initiation Factor 2 From
S. Solfataricus Complexed With Gtp
pdb|3P3M|D Chain D, Gamma-Subunit Of The Translation Initiation Factor 2 From
S. Solfataricus Complexed With Gtp
pdb|3P3M|E Chain E, Gamma-Subunit Of The Translation Initiation Factor 2 From
S. Solfataricus Complexed With Gtp
pdb|3P3M|F Chain F, Gamma-Subunit Of The Translation Initiation Factor 2 From
S. Solfataricus Complexed With Gtp
pdb|3QSY|A Chain A, Recognition Of The Methionylated Initiator Trna By The
Translation Initiation Factor 2 In Archaea
Length = 415
Score = 30.4 bits (67), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 17/23 (73%)
Query: 23 VPLSAHHKWNFDDLLEKMWEYLK 45
+P+SA HK N D L+E + EY+K
Sbjct: 181 IPVSALHKINIDSLIEGIEEYIK 203
>pdb|2AHO|A Chain A, Structure Of The Archaeal Initiation Factor Eif2 Alpha-
Gamma Heterodimer From Sulfolobus Solfataricus Complexed
With Gdpnp
pdb|2PLF|A Chain A, The Structure Of Aif2gamma Subunit From The Archaeon
Sulfolobus Solfataricus In The Nucleotide-Free Form.
pdb|2QMU|A Chain A, Structure Of An Archaeal Heterotrimeric Initiation Factor
2 Reveals A Nucleotide State Between The Gtp And The Gdp
States
pdb|2QN6|A Chain A, Structure Of An Archaeal Heterotrimeric Initiation Factor
2 Reveals A Nucleotide State Between The Gtp And The Gdp
States
pdb|3V11|A Chain A, Structure Of The Ternary Initiation Complex
Aif2:gdpnp:methionylated Initiator Trna
Length = 414
Score = 30.4 bits (67), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 17/23 (73%)
Query: 23 VPLSAHHKWNFDDLLEKMWEYLK 45
+P+SA HK N D L+E + EY+K
Sbjct: 180 IPVSALHKINIDSLIEGIEEYIK 202
>pdb|2R4G|A Chain A, The High Resolution Structure Of The Rna-Binding Domain Of
Telomerase
Length = 267
Score = 29.6 bits (65), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 19 IPHCVPLSAHHKWNFDDLLEKMWEYLKLTRI 49
I +CVP K NF LEK++E++++ R
Sbjct: 132 IQNCVPNQLLGKKNFKVFLEKLYEFVQMKRF 162
>pdb|3PEN|A Chain A, Structure Of Archaeal Initiation Factor Aif2gamma Subunit
Delta 37-47 From Sulfolobus Solfataricus In The
Gdp-Bound Form.
pdb|3SJY|A Chain A, The Structure Of Initiation Factor Aif2 Gamma Subunit
Delta 37-47 From Archaeon Sulfolobus Solfataricus
Complexed With Gdpcp
Length = 403
Score = 29.6 bits (65), Expect = 0.49, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 17/23 (73%)
Query: 23 VPLSAHHKWNFDDLLEKMWEYLK 45
+P+SA HK N D L+E + EY+K
Sbjct: 169 IPVSALHKINIDSLIEGIEEYIK 191
>pdb|1S0U|A Chain A, Eif2gamma Apo
Length = 408
Score = 26.9 bits (58), Expect = 2.6, Method: Composition-based stats.
Identities = 9/22 (40%), Positives = 17/22 (77%)
Query: 23 VPLSAHHKWNFDDLLEKMWEYL 44
+P+SAHH+ N D LL+ + +++
Sbjct: 175 IPISAHHEANIDVLLKAIQDFI 196
>pdb|1U8V|A Chain A, Crystal Structure Of 4-Hydroxybutyryl-Coa Dehydratase From
Clostridium Aminobutyricum: Radical Catalysis Involving
A [4fe-4s] Cluster And Flavin
pdb|1U8V|B Chain B, Crystal Structure Of 4-Hydroxybutyryl-Coa Dehydratase From
Clostridium Aminobutyricum: Radical Catalysis Involving
A [4fe-4s] Cluster And Flavin
pdb|1U8V|C Chain C, Crystal Structure Of 4-Hydroxybutyryl-Coa Dehydratase From
Clostridium Aminobutyricum: Radical Catalysis Involving
A [4fe-4s] Cluster And Flavin
pdb|1U8V|D Chain D, Crystal Structure Of 4-Hydroxybutyryl-Coa Dehydratase From
Clostridium Aminobutyricum: Radical Catalysis Involving
A [4fe-4s] Cluster And Flavin
Length = 490
Score = 26.2 bits (56), Expect = 4.3, Method: Composition-based stats.
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 59 DYQSPVVLHTDRRSIEDFCNKL 80
D++S V+ D +I DFCNK
Sbjct: 400 DFKSETVVGRDGETIGDFCNKF 421
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 0.419
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,058,504
Number of Sequences: 62578
Number of extensions: 161604
Number of successful extensions: 304
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 293
Number of HSP's gapped (non-prelim): 13
length of query: 123
length of database: 14,973,337
effective HSP length: 85
effective length of query: 38
effective length of database: 9,654,207
effective search space: 366859866
effective search space used: 366859866
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: 45 (21.9 bits)