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= 005234
(707 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ALB|A Chain A, Nmr Structure Of The N-Terminal Domain A Of The
Glycoprotein Chaperone Erp57
Length = 113
Score = 36.2 bits (82), Expect = 0.062, Method: Composition-based stats.
Identities = 27/82 (32%), Positives = 36/82 (43%), Gaps = 12/82 (14%)
Query: 51 LKEFFPRWVGTCGCPVLRMGFSYNKRKNIVELAVLRDCTVKPDSRTPVLSSNTDSENRDG 110
L EFF W G C + + K IV LA + DCT +NT++ N+ G
Sbjct: 25 LVEFFAPWCGHCKRLAPEYEAAATRLKGIVPLAKV-DCT-----------ANTNTCNKYG 72
Query: 111 DIGWPGMMSIRVHELDGMYDHP 132
G+P + R E G YD P
Sbjct: 73 VSGYPTLKIFRDGEEAGAYDGP 94
>pdb|2PVP|A Chain A, Crystal Structure Of D-Alanine-D-Alanine Ligase From
Helicobacter Pylori
pdb|2PVP|B Chain B, Crystal Structure Of D-Alanine-D-Alanine Ligase From
Helicobacter Pylori
Length = 367
Score = 34.7 bits (78), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 31/57 (54%), Gaps = 4/57 (7%)
Query: 480 GQVKLGIHAMRICQIKGGSDSNHEVDTVTLVALLNLLESRIAFNNVFL--RHHLFGI 534
G V G H M C + GG+ HE+ V+ +AL +L+ RI + +FL HH + I
Sbjct: 13 GLVPRGSH-MEFCVLFGGASFEHEISIVSAIALKGVLKDRIKY-FIFLDENHHFYLI 67
>pdb|3F8U|A Chain A, TapasinERP57 HETERODIMER
pdb|3F8U|C Chain C, TapasinERP57 HETERODIMER
Length = 481
Score = 33.9 bits (76), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 35/82 (42%), Gaps = 12/82 (14%)
Query: 51 LKEFFPRWVGTCGCPVLRMGFSYNKRKNIVELAVLRDCTVKPDSRTPVLSSNTDSENRDG 110
L EFF W G + + K IV LA + DCT +NT++ N+ G
Sbjct: 25 LVEFFAPWCGHAKRLAPEYEAAATRLKGIVPLAKV-DCT-----------ANTNTCNKYG 72
Query: 111 DIGWPGMMSIRVHELDGMYDHP 132
G+P + R E G YD P
Sbjct: 73 VSGYPTLKIFRDGEEAGAYDGP 94
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 27/56 (48%), Gaps = 2/56 (3%)
Query: 555 LLGDGETSEQKNVFASFVTE--MRRAEPPMDVPNLSQDNLAVRDASKEVDCVANGH 608
LG E E + + FV E R EPP+ P L++ + + K++ CV N H
Sbjct: 847 FLGSFEPEEIVALLSVFVYEGKTREEEPPIVTPRLAKGKQRIEEIYKKMLCVFNTH 902
>pdb|3AU2|A Chain A, Dna Polymerase X From Thermus Thermophilus Hb8 Complexed
With Ca-Dgtp
pdb|3AU6|A Chain A, Dna Polymerase X From Thermus Thermophilus Hb8 Ternary
Complex With PrimerTEMPLATE DNA AND DDGTP
pdb|3AUO|A Chain A, Dna Polymerase X From Thermus Thermophilus Hb8 Ternary
Complex With 1- Nt Gapped Dna And Ddgtp
pdb|3AUO|B Chain B, Dna Polymerase X From Thermus Thermophilus Hb8 Ternary
Complex With 1- Nt Gapped Dna And Ddgtp
Length = 575
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 311 YFVLEAIPHAVAMVRAADNKSPREAVEFVLQLLKYNDNNGNPY 353
Y L H+ A VR A SP EA++ V ++ ++N+ +G PY
Sbjct: 366 YRYLAVTDHSPA-VRVAGGPSPEEALKRVGEIRRFNETHGPPY 407
>pdb|3B0Y|A Chain A, K263d Mutant Of Polx From Thermus Thermophilus Hb8
Complexed With Ca- Dgtp
Length = 575
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 311 YFVLEAIPHAVAMVRAADNKSPREAVEFVLQLLKYNDNNGNPY 353
Y L H+ A VR A SP EA++ V ++ ++N+ +G PY
Sbjct: 366 YRYLAVTDHSPA-VRVAGGPSPEEALKRVGEIRRFNETHGPPY 407
>pdb|3B0X|A Chain A, K263a Mutant Of Polx From Thermus Thermophilus Hb8
Complexed With Ca- Dgtp
Length = 575
Score = 31.6 bits (70), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 311 YFVLEAIPHAVAMVRAADNKSPREAVEFVLQLLKYNDNNGNPY 353
Y L H+ A VR A SP EA++ V ++ ++N+ +G PY
Sbjct: 366 YRYLAVTDHSPA-VRVAGGPSPEEALKRVGEIRRFNETHGPPY 407
>pdb|2JTZ|A Chain A, Solution Structure And Chemical Shift Assignments Of The
F104-To-5-Flurotryptophan Mutant Of Cardiac Troponin C
Length = 161
Score = 30.4 bits (67), Expect = 3.4, Method: Composition-based stats.
Identities = 18/62 (29%), Positives = 31/62 (50%), Gaps = 8/62 (12%)
Query: 307 DFSEYFVLEAIPHAVAMVRAADNKSPREAVEFVLQLLKYNDNNGNPYSDVFWLAALVQSV 366
DF E+ V+ MVR+ + S ++ E + L + D N + Y D+ L ++Q+
Sbjct: 73 DFDEFLVM--------MVRSMKDDSKGKSEEELSDLFRMXDKNADGYIDLDELKIMLQAT 124
Query: 367 GE 368
GE
Sbjct: 125 GE 126
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
0.322 0.137 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,332,410
Number of Sequences: 62578
Number of extensions: 745294
Number of successful extensions: 1809
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1803
Number of HSP's gapped (non-prelim): 13
length of query: 707
length of database: 14,973,337
effective HSP length: 106
effective length of query: 601
effective length of database: 8,340,069
effective search space: 5012381469
effective search space used: 5012381469
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: 55 (25.8 bits)