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= 027224
(226 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3PIE|A Chain A, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1,
E178q Mutant
pdb|3PIE|B Chain B, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1,
E178q Mutant
pdb|3PIE|C Chain C, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1,
E178q Mutant
pdb|3PIE|D Chain D, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1,
E178q Mutant
pdb|3PIF|A Chain A, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1,
E178q Mutant In Complex With Manganese
pdb|3PIF|B Chain B, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1,
E178q Mutant In Complex With Manganese
pdb|3PIF|C Chain C, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1,
E178q Mutant In Complex With Manganese
pdb|3PIF|D Chain D, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1,
E178q Mutant In Complex With Manganese
Length = 1155
Score = 32.0 bits (71), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 31/102 (30%), Positives = 43/102 (42%), Gaps = 7/102 (6%)
Query: 104 LKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINITSDPVSLQ 163
LKE+ E N G W L+ YR S + H P I + KG D NI Q
Sbjct: 510 LKEMTE---NYVGGLQWVLYYYYRGCPSWSWYYRYHYAPRISDVIKGIDQNIEFH--KGQ 564
Query: 164 VTPKRHGVMDVEPKEESSLVALFYN-IQINEVRPVFDVYLPN 204
+M V P+ +L+ + Y + +E P+ D Y PN
Sbjct: 565 PFKPFQQLMAVLPERSKNLIPVVYRPLMYDEHSPILDFY-PN 605
>pdb|2P18|A Chain A, Crystal Structure Of The Leishmania Infantum Glyoxalase Ii
pdb|2P1E|A Chain A, Crystal Structure Of The Leishmania Infantum Glyoxalase Ii
With D- Lactate At The Active Site
Length = 311
Score = 30.0 bits (66), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 19/28 (67%)
Query: 82 ETLFLAEIGALYLLDNNDLCLPLKEIYE 109
+T+F+A IGA + D D+C ++++Y
Sbjct: 180 DTMFIAGIGAFFEGDEKDMCRAMEKVYH 207
>pdb|2ZYZ|B Chain B, Pyrobaculum Aerophilum Splicing Endonuclease
pdb|2ZYZ|D Chain D, Pyrobaculum Aerophilum Splicing Endonuclease
Length = 183
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 34/64 (53%), Gaps = 1/64 (1%)
Query: 73 NGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSL 132
N + E L+LAE G L ++ + + +E+ + E+ E++++Y++ + L
Sbjct: 45 NAPLILGLYEALYLAEKGRLKVMGEDGREVAPEEL-AALGRERMRNFDEIYKIYKYFRDL 103
Query: 133 GYIV 136
GY+V
Sbjct: 104 GYVV 107
>pdb|3EAY|A Chain A, Crystal Structure Of The Human Senp7 Catalytic Domain
Length = 323
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 22/46 (47%)
Query: 21 DEIDEEDYYMSGFISKLQFRKDISKAHWNNELGMAEVVEKKGKMWT 66
DE+ E + S F K RK+ + N L MA+ K+ + WT
Sbjct: 68 DELVERSHIFSSFFYKCLTRKENNLTEDNPNLSMAQRRHKRVRTWT 113
>pdb|4FZ2|A Chain A, Crystal Structure Of The Fourth Type Of Archaeal Trna
Splicing Endonuclease From Candidatus Micrarchaeum
Acidiphilum Arman-2
pdb|4FZ2|B Chain B, Crystal Structure Of The Fourth Type Of Archaeal Trna
Splicing Endonuclease From Candidatus Micrarchaeum
Acidiphilum Arman-2
Length = 395
Score = 27.3 bits (59), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 33/146 (22%), Positives = 69/146 (47%), Gaps = 19/146 (13%)
Query: 80 IEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVG-- 137
I ETLFL ++G + + + + IA+ + +L++VY+ ++ GY+V
Sbjct: 173 IYETLFLIDMGVISIKNFTRAQIV------NIASARRTDIMKLYDVYKDWRTKGYVVKTG 226
Query: 138 -RHGVPWIVKIPKGRDINITSDPVSLQVTPKRHGVMDVEPKEESSLVALFYN-IQI-NEV 194
+ G + + P + I ++ + +H V+ V P++ +++ + I++ + V
Sbjct: 227 FKFGTNFRIYFPGAKPIKENNEWIH-----SKH-VLHVFPRDSKLIISEWARAIRVAHSV 280
Query: 195 RPVFDVYLPNRKFKKSCPGDPSFLLY 220
R F + +P + KK D F LY
Sbjct: 281 RKTFILAIPGKTRKKKLAID--FELY 304
>pdb|3IG3|A Chain A, Crystal Strucure Of Mouse Plexin A3 Intracellular Domain
Length = 627
Score = 26.9 bits (58), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 12/19 (63%)
Query: 206 KFKKSCPGDPSFLLYLTCK 224
KF K C G+P FLLY K
Sbjct: 182 KFLKECAGEPLFLLYCAIK 200
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
0.318 0.137 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,426,858
Number of Sequences: 62578
Number of extensions: 311189
Number of successful extensions: 729
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 724
Number of HSP's gapped (non-prelim): 15
length of query: 226
length of database: 14,973,337
effective HSP length: 95
effective length of query: 131
effective length of database: 9,028,427
effective search space: 1182723937
effective search space used: 1182723937
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: 50 (23.9 bits)