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= 033134
(126 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1T11|A Chain A, Trigger Factor
pdb|1T11|B Chain B, Trigger Factor
Length = 392
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 18/37 (48%)
Query: 85 GLSAGYEEYIDYLFPEESQTTNLKILEAAYKWKKQKI 121
G + G E ID FPE+ NLK A + K K+
Sbjct: 207 GKTKGMEFVIDVTFPEDYHAENLKGKAAKFAIKVNKV 243
>pdb|1W26|A Chain A, Trigger Factor In Complex With The Ribosome Forms A
Molecular Cradle For Nascent Proteins
pdb|1W26|B Chain B, Trigger Factor In Complex With The Ribosome Forms A
Molecular Cradle For Nascent Proteins
pdb|2VRH|A Chain A, Structure Of The E. Coli Trigger Factor Bound To A
Translating Ribosome
Length = 432
Score = 26.9 bits (58), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 18/37 (48%)
Query: 85 GLSAGYEEYIDYLFPEESQTTNLKILEAAYKWKKQKI 121
G AG E ID FPEE NLK A + +K+
Sbjct: 204 GHKAGEEFTIDVTFPEEYHAENLKGKAAKFAINLKKV 240
>pdb|1L1P|A Chain A, Solution Structure Of The Ppiase Domain From E. Coli
Trigger Factor
Length = 106
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 18/37 (48%)
Query: 85 GLSAGYEEYIDYLFPEESQTTNLKILEAAYKWKKQKI 121
G AG E ID FPEE NLK A + +K+
Sbjct: 61 GHKAGEEFTIDVTFPEEYHAENLKGKAAKFAINLKKV 97
>pdb|2JGA|A Chain A, Crystal Structure Of Human Cytosolic 5'-Nucleotidase Iii
In Complex With Phosphate And Magnesium
Length = 292
Score = 25.8 bits (55), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 17/33 (51%)
Query: 65 LVQAKLPKKLKKRRQTQSDDGLSAGYEEYIDYL 97
LVQ LPK K +SD L GYE + D L
Sbjct: 116 LVQQALPKAKLKEIVAESDVMLKEGYENFFDKL 148
>pdb|2CN1|A Chain A, Crystal Structure Of Human Cytosolic 5'-Nucleotidase Iii (
Nt5c3)(Casp Target)
pdb|2VKQ|A Chain A, Crystal Structure Of Human Cytosolic 5'-Nucleotidase Iii (
Cn-Iii, Nt5c3) In Complex With Beryllium Trifluoride
Length = 292
Score = 25.8 bits (55), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 17/33 (51%)
Query: 65 LVQAKLPKKLKKRRQTQSDDGLSAGYEEYIDYL 97
LVQ LPK K +SD L GYE + D L
Sbjct: 116 LVQQALPKAKLKEIVAESDVMLKEGYENFFDKL 148
>pdb|3GRR|A Chain A, Crystal Structure Of The Complex Between S-Adenosyl
Homocysteine And Methanocaldococcus Jannaschi Dim1.
pdb|3GRU|A Chain A, Crystal Structure Of The Complex Between Amp And
Methanocaldococcus Jannaschi Dim1
pdb|3GRV|A Chain A, Crystal Structure Of The Complex Between Adenosine And
Methanocaldococcus Jannaschi Dim1
pdb|3GRY|A Chain A, Crystal Structure Of The Complex Between S-Adenosyl
Methionine And Methanocaldococcus Jannaschi Dim1
Length = 295
Score = 25.4 bits (54), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 28/57 (49%), Gaps = 7/57 (12%)
Query: 4 DDFQEHLYEQKKQCIQRARRVFEKAINYYRTSAPELKEERAMLLEEWLNMESSFGEL 60
DDF +++ + + +++A K +NY K+E +LE++LN S L
Sbjct: 216 DDFLRAIFQHRNKSVRKALIDSSKELNYN-------KDEMKKILEDFLNTNSEIKNL 265
>pdb|3FYC|A Chain A, Crystal Structure Of Dim1 From The Thermophilic Archeon,
Methanocaldococcus Jannaschi
pdb|3FYC|B Chain B, Crystal Structure Of Dim1 From The Thermophilic Archeon,
Methanocaldococcus Jannaschi
Length = 265
Score = 25.4 bits (54), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 28/57 (49%), Gaps = 7/57 (12%)
Query: 4 DDFQEHLYEQKKQCIQRARRVFEKAINYYRTSAPELKEERAMLLEEWLNMESSFGEL 60
DDF +++ + + +++A K +NY K+E +LE++LN S L
Sbjct: 189 DDFLRAIFQHRNKSVRKALIDSSKELNYN-------KDEMKKILEDFLNTNSEIKNL 238
>pdb|3FYD|A Chain A, Crystal Structure Of Dim1 From The Thermophilic Archeon,
Methanocaldococcus Jannaschi
Length = 263
Score = 25.4 bits (54), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 28/57 (49%), Gaps = 7/57 (12%)
Query: 4 DDFQEHLYEQKKQCIQRARRVFEKAINYYRTSAPELKEERAMLLEEWLNMESSFGEL 60
DDF +++ + + +++A K +NY K+E +LE++LN S L
Sbjct: 187 DDFLRAIFQHRNKSVRKALIDSSKELNYN-------KDEMKKILEDFLNTNSEIKNL 236
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
0.313 0.130 0.363
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,727,817
Number of Sequences: 62578
Number of extensions: 132865
Number of successful extensions: 292
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 282
Number of HSP's gapped (non-prelim): 17
length of query: 126
length of database: 14,973,337
effective HSP length: 87
effective length of query: 39
effective length of database: 9,529,051
effective search space: 371632989
effective search space used: 371632989
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: 45 (21.9 bits)