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= 030702
(173 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 = 31.2 bits (69), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 31/102 (30%), Positives = 43/102 (42%), Gaps = 7/102 (6%)
Query: 51 LKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINITSDPVSLQ 110
LKE+ E N G W L+ YR S + H P I + KG D NI Q
Sbjct: 510 LKEMTE---NYVGGLQWVLYYYYRGCPSWSWYYRYHYAPRISDVIKGIDQNIEFHKG--Q 564
Query: 111 VTPKRHGVMDVEPKEESSLVALFYN-IQINEVRPVFDVYLPN 151
+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 = 30.8 bits (68), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 19/28 (67%)
Query: 29 ETLFLAEIGALYLLDNNDLCLPLKEIYE 56
+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 = 29.6 bits (65), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 34/64 (53%), Gaps = 1/64 (1%)
Query: 20 NGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSL 79
N + E L+LAE G L ++ + + +E+ + E+ E++++Y++ + L
Sbjct: 45 NAPLILGLYEALYLAEKGRLKVMGEDGREVAPEEL-AALGRERMRNFDEIYKIYKYFRDL 103
Query: 80 GYIV 83
GY+V
Sbjct: 104 GYVV 107
>pdb|3IG3|A Chain A, Crystal Strucure Of Mouse Plexin A3 Intracellular Domain
Length = 627
Score = 27.3 bits (59), Expect = 3.9, Method: Composition-based stats.
Identities = 11/19 (57%), Positives = 12/19 (63%)
Query: 153 KFKKSCPGDPSFLLYLTCK 171
KF K C G+P FLLY K
Sbjct: 182 KFLKECAGEPLFLLYCAIK 200
>pdb|3RYT|A Chain A, The Plexin A1 Intracellular Region In Complex With Rac1
pdb|3RYT|B Chain B, The Plexin A1 Intracellular Region In Complex With Rac1
Length = 626
Score = 26.6 bits (57), Expect = 6.8, Method: Composition-based stats.
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 153 KFKKSCPGDPSFLLYLTCK 171
KF K C G+P F+LY K
Sbjct: 181 KFLKECAGEPLFMLYCAIK 199
>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 = 26.6 bits (57), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 33/148 (22%), Positives = 69/148 (46%), Gaps = 19/148 (12%)
Query: 25 CSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVG 84
I ETLFL ++G + + + + IA+ + +L++VY+ ++ GY+V
Sbjct: 171 LDIYETLFLIDMGVISIKNFTRAQIV------NIASARRTDIMKLYDVYKDWRTKGYVVK 224
Query: 85 ---RHGVPWIVKIPKGRDINITSDPVSLQVTPKRHGVMDVEPKEESSLVALFYN-IQI-N 139
+ G + + P + I ++ + +H V+ V P++ +++ + I++ +
Sbjct: 225 TGFKFGTNFRIYFPGAKPIKENNEWIH-----SKH-VLHVFPRDSKLIISEWARAIRVAH 278
Query: 140 EVRPVFDVYLPNRKFKKSCPGDPSFLLY 167
VR F + +P + KK D F LY
Sbjct: 279 SVRKTFILAIPGKTRKKKLAID--FELY 304
>pdb|1A79|A Chain A, Crystal Structure Of The Trna Splicing Endonuclease From
Methanococcus Jannaschii
pdb|1A79|B Chain B, Crystal Structure Of The Trna Splicing Endonuclease From
Methanococcus Jannaschii
pdb|1A79|C Chain C, Crystal Structure Of The Trna Splicing Endonuclease From
Methanococcus Jannaschii
pdb|1A79|D Chain D, Crystal Structure Of The Trna Splicing Endonuclease From
Methanococcus Jannaschii
Length = 171
Score = 26.6 bits (57), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 25 CSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIAN-EKSGCSWELFEVYRHLKSLGYIV 83
S+ E L+L +G L + ++ L +E+YE N E+ C L VY+ L++ GYIV
Sbjct: 37 LSLVEALYLINLGWLEVKYKDNKPLSFEELYEYARNVEERLCLKYL--VYKDLRTRGYIV 94
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
0.320 0.140 0.430
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,503,075
Number of Sequences: 62578
Number of extensions: 224614
Number of successful extensions: 527
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 522
Number of HSP's gapped (non-prelim): 13
length of query: 173
length of database: 14,973,337
effective HSP length: 92
effective length of query: 81
effective length of database: 9,216,161
effective search space: 746509041
effective search space used: 746509041
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)