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= 038471
(167 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4F3T|A Chain A, Human Argonaute-2 - Mir-20a Complex
Length = 861
Score = 75.5 bits (184), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 37/63 (58%), Positives = 49/63 (77%), Gaps = 4/63 (6%)
Query: 65 KGTSRPVHYHVLFDENKFTADNLQKLTNNLCYTLTSKFCFQS-AVP-PAYYAHLAAFRAR 122
+GTSRP HYHVL+D+N+F++D LQ LT LC+T C +S ++P PAYYAHL AFRAR
Sbjct: 759 QGTSRPSHYHVLWDDNRFSSDELQILTYQLCHTYVR--CTRSVSIPAPAYYAHLVAFRAR 816
Query: 123 YYI 125
Y++
Sbjct: 817 YHL 819
Score = 46.6 bits (109), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 30/66 (45%), Positives = 36/66 (54%), Gaps = 8/66 (12%)
Query: 9 YRGLVSAQQHREEIIQDLFTVQQD-------PTR-GPVNAGMIRDGVSEGQFSHVLLSEM 60
Y V QQHR+EIIQDL + ++ TR P RDGVSEGQF VL E+
Sbjct: 627 YCATVRVQQHRQEIIQDLAAMVRELLIQFYKSTRFKPTRIIFYRDGVSEGQFQQVLHHEL 686
Query: 61 DAIRKG 66
AIR+
Sbjct: 687 LAIREA 692
>pdb|4EI1|A Chain A, Crystal Structure Of Human Argonaute2
pdb|4EI3|A Chain A, Crystal Structure Of Human Argonaute2
Length = 859
Score = 75.5 bits (184), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 37/63 (58%), Positives = 49/63 (77%), Gaps = 4/63 (6%)
Query: 65 KGTSRPVHYHVLFDENKFTADNLQKLTNNLCYTLTSKFCFQS-AVP-PAYYAHLAAFRAR 122
+GTSRP HYHVL+D+N+F++D LQ LT LC+T C +S ++P PAYYAHL AFRAR
Sbjct: 757 QGTSRPSHYHVLWDDNRFSSDELQILTYQLCHTYVR--CTRSVSIPAPAYYAHLVAFRAR 814
Query: 123 YYI 125
Y++
Sbjct: 815 YHL 817
Score = 46.6 bits (109), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 30/66 (45%), Positives = 36/66 (54%), Gaps = 8/66 (12%)
Query: 9 YRGLVSAQQHREEIIQDLFTVQQD-------PTR-GPVNAGMIRDGVSEGQFSHVLLSEM 60
Y V QQHR+EIIQDL + ++ TR P RDGVSEGQF VL E+
Sbjct: 625 YCATVRVQQHRQEIIQDLAAMVRELLIQFYKSTRFKPTRIIFYRDGVSEGQFQQVLHHEL 684
Query: 61 DAIRKG 66
AIR+
Sbjct: 685 LAIREA 690
>pdb|2YHA|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid-Piwi
Domains
Length = 388
Score = 58.2 bits (139), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 50/161 (31%), Positives = 66/161 (40%), Gaps = 46/161 (28%)
Query: 3 WPAVTTYRGLVSAQQHREEIIQDLFT---------VQQDPTRG---PVNAGMIRDGVSEG 50
WPA +V H +E + + FT + +P P N + RDGVSEG
Sbjct: 196 WPA------MVWNNPHGQESMTEQFTDKFKTRLELWRSNPANNRSLPENILIFRDGVSEG 249
Query: 51 QFSHVLLSEMDAIRKGT--------------------SRPVHYHVLFDE-------NKFT 83
QF V+ E+ +R S HY VL DE NK
Sbjct: 250 QFQMVIKDELPLVRAACKLVYPAGKLPRITLIVSVKGSGSAHYTVLVDEIFRADYGNK-A 308
Query: 84 ADNLQKLTNNLCYTLTSKFCFQSAVPPAYYAHLAAFRARYY 124
AD L++LT+++CY S PPAYYA L RAR +
Sbjct: 309 ADTLEQLTHDMCYLFGRATKAVSICPPAYYADLVCDRARIH 349
>pdb|4F1N|A Chain A, Crystal Structure Of Kluyveromyces Polysporus Argonaute With
A Guide Rna
pdb|4F1N|B Chain B, Crystal Structure Of Kluyveromyces Polysporus Argonaute With
A Guide Rna
Length = 1046
Score = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 34/103 (33%), Positives = 45/103 (43%), Gaps = 1/103 (0%)
Query: 65 KGTSRPVHYHVLFDENKFTADNLQKLTNNLCYTLTSKFCFQSAVPPAYYAHLAAFRARYY 124
KGT P HY L+DEN+ T+D LQ++ NNLCY P YYA L RA +
Sbjct: 943 KGTGVPCHYWCLYDENQSTSDYLQEICNNLCYIFGRSTTSVKVPAPVYYADLLCTRATCF 1002
Query: 125 IEXXXXXXXXXXXXXXXXVRGEAASVRP-LPPLSPNIKDVMFF 166
+ S LP ++ NIK VM++
Sbjct: 1003 FKAGFELNMAQAPKEKGSKDQPTVSKNVLLPQVNDNIKSVMYY 1045
>pdb|2YHB|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid-Piwi
Domains
Length = 437
Score = 52.0 bits (123), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 34/98 (34%), Positives = 50/98 (51%), Gaps = 9/98 (9%)
Query: 34 TRGPVNAGMIRDGVSEGQFSHVLLSEMDAIRKGTSRPVHYHVLFDE-------NKFTADN 86
++ P ++ GV+ ++ L + A +GT+R HY VL DE NK AD
Sbjct: 303 SKSPKEGTVVDRGVTNVRYWDFFL-QAHASLQGTARSAHYTVLVDEIFRADYGNK-AADT 360
Query: 87 LQKLTNNLCYTLTSKFCFQSAVPPAYYAHLAAFRARYY 124
L++LT+++CY S PPAYYA L RAR +
Sbjct: 361 LEQLTHDMCYLFGRATKAVSICPPAYYADLVCDRARIH 398
Score = 32.0 bits (71), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 33/74 (44%), Gaps = 18/74 (24%)
Query: 3 WPAVTTYRGLVSAQQHREEIIQDLFT---------VQQDPTRG---PVNAGMIRDGVSEG 50
WPA +V H +E + + FT + +P P N + RDGVSEG
Sbjct: 196 WPA------MVWNNPHGQESMTEQFTDKFKTRLELWRSNPANNRSLPENILIFRDGVSEG 249
Query: 51 QFSHVLLSEMDAIR 64
QF V+ E+ +R
Sbjct: 250 QFQMVIKDELPLVR 263
>pdb|4GRH|A Chain A, Crystal Structure Of Pabb Of Stenotrophomonas
Maltophilia
Length = 457
Score = 28.1 bits (61), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 25 DLFTVQQ-DPTRGPVNAGMIRDGVSEGQFSHVLLSEMDAIR 64
DL +QQ DP R P+ G ++G++S +L+++ D +R
Sbjct: 18 DLLALQQHDPARFPLLMESTASGTAQGRWSLLLVAQGDGLR 58
>pdb|2EKX|A Chain A, Solution Structure Of The Human Bmx Sh2 Domain
Length = 110
Score = 26.6 bits (57), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 7/62 (11%)
Query: 35 RGPVNAGMIRDGVSEGQFSHVLLSEMDAIRKGTSRPVHYHVLFDENKFTADNLQKLTNNL 94
+G A M+R+ G ++ L S+ +KGT + HYHV A+N L N
Sbjct: 30 KGKEGAFMVRNSSQVGMYTVSLFSKAVNDKKGTVK--HYHV-----HTNAENKLYLAENY 82
Query: 95 CY 96
C+
Sbjct: 83 CF 84
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 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,228,020
Number of Sequences: 62578
Number of extensions: 141870
Number of successful extensions: 334
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 316
Number of HSP's gapped (non-prelim): 13
length of query: 167
length of database: 14,973,337
effective HSP length: 92
effective length of query: 75
effective length of database: 9,216,161
effective search space: 691212075
effective search space used: 691212075
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 48 (23.1 bits)