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= 032440
(140 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1OGQ|A Chain A, The Crystal Structure Of Pgip (Polygalacturonase
Inhibiting Protein), A Leucine Rich Repeat Protein
Involved In Plant Defense
Length = 313
Score = 33.5 bits (75), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 35/122 (28%), Positives = 55/122 (45%), Gaps = 14/122 (11%)
Query: 25 EGCLEQERSALLQLKHFFNDDHRLQNWVDDENYSDCCQ--WERVECNNTTG--RVIKLDL 80
E C Q++ ALLQ+K + L +W+ +DCC W V C+ T RV LDL
Sbjct: 1 ELCNPQDKQALLQIKKDLGNPTTLSSWLPT---TDCCNRTWLGVLCDTDTQTYRVNNLDL 57
Query: 81 TQTRKWESAEWYMNASLFTPFQQLESLDLIG-NNIAGCVENEGLERLSR--WSFITQTLI 137
+ + Y S L L + G NN+ G + + +L++ + +IT T +
Sbjct: 58 S---GLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIP-PAIAKLTQLHYLYITHTNV 113
Query: 138 IG 139
G
Sbjct: 114 SG 115
>pdb|2AHO|B Chain B, Structure Of The Archaeal Initiation Factor Eif2 Alpha-
Gamma Heterodimer From Sulfolobus Solfataricus Complexed
With Gdpnp
pdb|3CW2|C Chain C, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3CW2|D Chain D, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3CW2|G Chain G, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3CW2|H Chain H, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3V11|B Chain B, Structure Of The Ternary Initiation Complex
Aif2:gdpnp:methionylated Initiator Trna
Length = 266
Score = 30.8 bits (68), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 33/80 (41%), Gaps = 5/80 (6%)
Query: 45 DHRLQNWVDDENYSDCCQWERVECNNTTGRVI--KLDLTQTRKWESAEWYMNASLFTPFQ 102
D L+ DDE QW++++ + ++ KL L++ WE W + A P
Sbjct: 79 DVSLKKVTDDERRKKNLQWKKIQRLDKILELVSQKLKLSEKDAWEQVAWKLEAKYGDPIT 138
Query: 103 QLESLDLIGNNI---AGCVE 119
+E G I AG E
Sbjct: 139 AIEKAVKEGEKILIDAGVPE 158
>pdb|3CIG|A Chain A, Crystal Structure Of Mouse Tlr3 Ectodomain
pdb|3CIY|A Chain A, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
Double-Stranded Rna
pdb|3CIY|B Chain B, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
Double-Stranded Rna
Length = 697
Score = 29.3 bits (64), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 93 MNASLFTPFQQLESLDLIGNNIAGCVEN--EGLERLSRWSF 131
++ S F P + L LDL NNIA E+ EGLE L F
Sbjct: 471 ISPSPFRPLRNLTILDLSNNNIANINEDLLEGLENLEILDF 511
>pdb|3BPN|C Chain C, Crystal Structure Of The Il4-Il4r-Il13ra Ternary Complex
pdb|3BPO|C Chain C, Crystal Structure Of The Il13-Il4r-Il13ra Ternary Complex
Length = 314
Score = 26.6 bits (57), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 41 FFNDDHRLQNWVDDENYSDCCQWERVECNNTTGRVIKLDLTQTRKWESAEWYMNA 95
F NDD +Q W + +N+ C + VE NN+ + Q K E+ E+ N
Sbjct: 210 FHNDDLYVQ-WENPQNFISRCLFYEVEVNNSQTETHNVFYVQEAKCENPEFERNV 263
>pdb|2WK1|A Chain A, Structure Of The O-Methyltransferase Novp
Length = 282
Score = 26.6 bits (57), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 31/72 (43%), Gaps = 12/72 (16%)
Query: 57 YSDCCQWERVECNNTTGRVIKLDLTQTRKWESAEWYMNASLFTPFQQLESL-----DLIG 111
Y D E ++T R + + E +W NA ++LE++ D+IG
Sbjct: 51 YEDPAHRENFSHRDSTYR-------EEVRNEGRDWPANAHTMIGIKRLENIRQCVEDVIG 103
Query: 112 NNIAGCVENEGL 123
NN+ G + G+
Sbjct: 104 NNVPGDLVETGV 115
>pdb|4HWB|A Chain A, Crystal Structure Of Ectodomain 3 Of The Il-13 Receptor
Alpha 1 In Complex With A Human Neutralizing Monoclonal
Antibody Fragment
Length = 122
Score = 26.2 bits (56), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 41 FFNDDHRLQNWVDDENYSDCCQWERVECNNTTGRVIKLDLTQTRKWESAEWYMNA 95
F NDD +Q W + +N+ C + VE NN+ + Q K E+ E+ N
Sbjct: 16 FHNDDLYVQ-WENPQNFISRCLFYEVEVNNSQTETHNVFYVQEAKCENPEFERNV 69
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
0.323 0.136 0.469
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,431,272
Number of Sequences: 62578
Number of extensions: 164317
Number of successful extensions: 356
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 351
Number of HSP's gapped (non-prelim): 13
length of query: 140
length of database: 14,973,337
effective HSP length: 89
effective length of query: 51
effective length of database: 9,403,895
effective search space: 479598645
effective search space used: 479598645
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 46 (22.3 bits)