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= 027389
(224 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3AJE|A Chain A, Crystal Structure Of S. Tokodaii Sua5 Complexed With
L-Threonine And Amppnp
Length = 352
Score = 30.4 bits (67), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 35/65 (53%), Gaps = 7/65 (10%)
Query: 87 ILQDLTQEFYRLRSSLKAKQEHA-----SLLEDFREFDRTRLDLEDGVGSPEQALLKEHA 141
I ++L++EF L+ + E+ +L + FRE D+ +DL +G PE+ + A
Sbjct: 269 IPKELSKEFEGLQQIILGSDENLYEVARNLFDSFRELDKLNVDLGIMIGFPERGI--GFA 326
Query: 142 SINRS 146
+NR+
Sbjct: 327 IMNRA 331
>pdb|2EQA|A Chain A, Crystal Structure Of The Hypothetical Sua5 Protein From
Sulfolobus Tokodaii
pdb|4E1B|A Chain A, Re-Refinement Of Pdb Entry 2eqa - Sua5 Protein From
Sulfolobus Tokodaii With Bound
Threonylcarbamoyladenylate
Length = 352
Score = 30.0 bits (66), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 30/55 (54%), Gaps = 5/55 (9%)
Query: 87 ILQDLTQEFYRLRSSLKAKQEHA-----SLLEDFREFDRTRLDLEDGVGSPEQAL 136
I ++L++EF L+ + E+ +L + FRE D+ +DL +G PE+ +
Sbjct: 269 IPKELSKEFEGLQQIILGSDENLYEVARNLFDSFRELDKLNVDLGIXIGFPERGI 323
>pdb|2BEZ|C Chain C, Structure Of A Proteolitically Resistant Core From The
Severe Acute Respiratory Syndrome Coronavirus S2 Fusion
Protein
Length = 77
Score = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 25/42 (59%), Gaps = 1/42 (2%)
Query: 148 GQMDSVISQAQATLGALVFQ-RSTFGGINSKLSNVSSRLPSV 188
G++ V++Q L LV Q S FG I+S L+++ SRL V
Sbjct: 33 GKLQDVVNQNAQALNTLVKQLSSNFGAISSVLNDILSRLDKV 74
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 27.7 bits (60), Expect = 4.6, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 29/52 (55%), Gaps = 6/52 (11%)
Query: 78 SHTLTRHQEI---LQDLTQEFYRLRSSLKAKQEHASLLEDFREFDRTRLDLE 126
SH +TR +++ +Q++ QE + L+A+ LLE R RTR DLE
Sbjct: 272 SHFVTREEKMRLAIQNIEQELEERLAELRAQ---GKLLEAQRLEQRTRYDLE 320
>pdb|1WYY|A Chain A, Post-Fusion Hairpin Conformation Of The Sars Coronavirus
Spike Glycoprotein
pdb|1WYY|B Chain B, Post-Fusion Hairpin Conformation Of The Sars Coronavirus
Spike Glycoprotein
Length = 149
Score = 27.7 bits (60), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 25/42 (59%), Gaps = 1/42 (2%)
Query: 148 GQMDSVISQAQATLGALVFQ-RSTFGGINSKLSNVSSRLPSV 188
G++ V++Q L LV Q S FG I+S L+++ SRL V
Sbjct: 46 GKLQDVVNQNAQALNTLVKQLSSNFGAISSVLNDILSRLDKV 87
>pdb|4GBM|A Chain A, Sulfotransferase Domain From The Curacin Biosynthetic
Pathway
Length = 323
Score = 27.3 bits (59), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 31/53 (58%)
Query: 155 SQAQATLGALVFQRSTFGGINSKLSNVSSRLPSVNQILSSIKRKKSMDTIILA 207
S A T + +S+ G +++ ++VSSRLP + ILSS + ++ ++LA
Sbjct: 1 SNASPTSLEIFATKSSPSGNSARPASVSSRLPGIIFILSSPRSGSTLLRVMLA 53
>pdb|3V4R|A Chain A, Crystal Structure Of A Uvrb Dimer-Dna Complex
pdb|3V4R|B Chain B, Crystal Structure Of A Uvrb Dimer-Dna Complex
Length = 667
Score = 26.9 bits (58), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 6/52 (11%)
Query: 78 SHTLTRHQEI---LQDLTQEFYRLRSSLKAKQEHASLLEDFREFDRTRLDLE 126
SH +TR +++ +Q++ +E L LK E+ LLE R RTR DLE
Sbjct: 253 SHFVTRAEKMEKAIQNIEKE---LEEQLKVMHENGKLLEAQRLEQRTRYDLE 301
>pdb|2D7D|A Chain A, Structural Insights Into The Cryptic Dna Dependent Atp-Ase
Activity Of Uvrb
pdb|2NMV|A Chain A, Damage Detection By The Uvrabc Pathway: Crystal Structure
Of Uvrb Bound To Fluorescein-Adducted Dna
Length = 661
Score = 26.9 bits (58), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 6/52 (11%)
Query: 78 SHTLTRHQEI---LQDLTQEFYRLRSSLKAKQEHASLLEDFREFDRTRLDLE 126
SH +TR +++ +Q++ +E L LK E+ LLE R RTR DLE
Sbjct: 247 SHFVTRAEKMEKAIQNIEKE---LEEQLKVMHENGKLLEAQRLEQRTRYDLE 295
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
0.315 0.128 0.352
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,701,773
Number of Sequences: 62578
Number of extensions: 199667
Number of successful extensions: 558
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 547
Number of HSP's gapped (non-prelim): 22
length of query: 224
length of database: 14,973,337
effective HSP length: 95
effective length of query: 129
effective length of database: 9,028,427
effective search space: 1164667083
effective search space used: 1164667083
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 49 (23.5 bits)