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= 009571
(532 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1O0W|A Chain A, Crystal Structure Of Ribonuclease Iii (Tm1102) From
Thermotoga Maritima At 2.0 A Resolution
pdb|1O0W|B Chain B, Crystal Structure Of Ribonuclease Iii (Tm1102) From
Thermotoga Maritima At 2.0 A Resolution
Length = 252
Score = 45.8 bits (107), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 41/138 (29%), Positives = 64/138 (46%), Gaps = 22/138 (15%)
Query: 163 DTLLYLAFQHP--FCERNKA-RHVRAGHSRLCFLGQFVLELAFCEFFLQRYP-------- 211
+ LL+ A H E+N+A R + +L FLG VLEL CE ++YP
Sbjct: 35 EELLFRALCHSSYANEQNQAGRKDVESNEKLEFLGDAVLELFVCEILYKKYPEAEVGDLA 94
Query: 212 RESPAPMRERVFGLIGRR-NLPKWIKAASLQNLIFPFDEMDRLIRKEREPPVKSVFWALF 270
R A E V ++ R+ NL K+ +F ++ ++R+ + F AL
Sbjct: 95 RVKSAAASEEVLAMVSRKMNLGKF---------LFLGKGEEKTGGRDRDSILADAFEALL 145
Query: 271 GAIYLCFGFPEVYRVLFE 288
AIYL G+ ++ + LFE
Sbjct: 146 AAIYLDQGYEKI-KELFE 162
>pdb|2A11|A Chain A, Crystal Structure Of Nuclease Domain Of Ribonuclase Iii
From Mycobacterium Tuberculosis
Length = 242
Score = 38.5 bits (88), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 38/145 (26%), Positives = 55/145 (37%), Gaps = 11/145 (7%)
Query: 151 DQLGDDNPAKHFDTLLYLAFQH-PFCERNKARHVRAGHSRLCFLGQFVLELAFCEFFLQR 209
D LG D P D LL LA H + N + RL FLG VL L + R
Sbjct: 12 DALGVDLP----DELLSLALTHRSYAYENGGLPT---NERLEFLGDAVLGLTITDALFHR 64
Query: 210 YPRESP---APMRERVFGLIGRRNLPKWIKAASLQNLIFPFDEMDRLIRKEREPPVKSVF 266
+P S A +R V ++ + + A L + ++ +
Sbjct: 65 HPDRSEGDLAKLRASVVNTQALADVARRLCAEGLGVHVLLGRGEANTGGADKSSILADGM 124
Query: 267 WALFGAIYLCFGFPEVYRVLFEVFG 291
+L GAIYL G + V+ +FG
Sbjct: 125 ESLLGAIYLQHGMEKAREVILRLFG 149
>pdb|1V9K|A Chain A, The Crystal Structure Of The Catalytic Domain Of
Pseudouridine Synthase Rluc From Escherichia Coli
pdb|1V9K|B Chain B, The Crystal Structure Of The Catalytic Domain Of
Pseudouridine Synthase Rluc From Escherichia Coli
Length = 228
Score = 31.6 bits (70), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 369 MQTLGYPLVVQDRIPEITEARNI-ELGLGLQLCFLHPSKYKFEHP 412
Q G+P+ DR + R + E G GL FLH + KF HP
Sbjct: 157 TQYAGHPIAFDDRYGDREFDRQLTEAGTGLNRLFLHAAALKFTHP 201
>pdb|1XPI|A Chain A, Crystal Structure Of The Catalytic Domain Of E. Coli
Pseudouridine Synthase Rluc
pdb|1XPI|B Chain B, Crystal Structure Of The Catalytic Domain Of E. Coli
Pseudouridine Synthase Rluc
Length = 231
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 369 MQTLGYPLVVQDRIPEITEARNI-ELGLGLQLCFLHPSKYKFEHP 412
Q G+P+ DR + R + E G GL FLH + KF HP
Sbjct: 160 TQYAGHPIAFDDRYGDREFDRQLTEAGTGLNRLFLHAAALKFTHP 204
>pdb|3N3W|A Chain A, 2.2 Angstrom Resolution Crystal Structure Of Nuclease
Domain Ribonuclase Iii (Rnc) From Campylobacter Jejuni
pdb|3N3W|B Chain B, 2.2 Angstrom Resolution Crystal Structure Of Nuclease
Domain Ribonuclase Iii (Rnc) From Campylobacter Jejuni
Length = 248
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 40/138 (28%), Positives = 59/138 (42%), Gaps = 15/138 (10%)
Query: 400 CFLHPSKYKFEHPRFCFERLEYVGQKIQDLVMAERLLMKHL-DAPGHWLQEKHRRILMN- 457
+H +K + ERLE++G + DLV+ E L K DA G K R L+N
Sbjct: 44 LLIHALTHKSFKKSYNNERLEFLGDAVLDLVVGEYLFHKFAKDAEGDL--SKLRAALVNE 101
Query: 458 KFCGRYLREKNLHRYMIYSEQVQDAYEHNRRLRNPST-----TAVQQALHGLAYTVYGKP 512
K + NL +++ S A E+N PS A+ A+H A + K
Sbjct: 102 KSFAKIANSLNLGDFILMSV----AEENNGGKEKPSILSDALEAIIGAIHLEAGFEFAKT 157
Query: 513 DVRRLMFEVFDFEQIQPK 530
RL+ + +F QI K
Sbjct: 158 IALRLIEK--NFPQIDAK 173
>pdb|3BQ3|A Chain A, Crystal Structure Of S. Cerevisiae Dcn1
Length = 270
Score = 28.5 bits (62), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 16/79 (20%), Positives = 34/79 (43%)
Query: 298 ECQPKLRRQLEDVDYVSVEFEGNKLTWQDVAAYKPPEDALFAQPRLFRACVPPGMHRFRG 357
+C PK+ R+ ++ ++ + N +++ + + P + H
Sbjct: 27 KCDPKVSRKYLQRNHWNINYALNDYYDKEIGTFTDEVSTVAHPPVYPKELTQVFEHYINN 86
Query: 358 NLWDFDSRPQVMQTLGYPL 376
NL+D DS + ++ LGY L
Sbjct: 87 NLFDIDSLVKFIEELGYNL 105
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
0.325 0.141 0.439
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,558,429
Number of Sequences: 62578
Number of extensions: 585929
Number of successful extensions: 1515
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1514
Number of HSP's gapped (non-prelim): 8
length of query: 532
length of database: 14,973,337
effective HSP length: 103
effective length of query: 429
effective length of database: 8,527,803
effective search space: 3658427487
effective search space used: 3658427487
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (25.4 bits)