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= 044047
(260 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 36.6 bits (83), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 41/190 (21%), Positives = 73/190 (38%), Gaps = 26/190 (13%)
Query: 67 KTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHSDVAAETS 126
K DV E+L LY E G++ + YN L + AE +
Sbjct: 38 KKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVC--------------------SLAEAA 77
Query: 127 TYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETAWELFQSL 186
T ++ GL + G+ ++F+ + V K ++ E A+++ + +
Sbjct: 78 TESSPNPGLSR-GF-----DIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQM 131
Query: 187 PRVGLMPNVVTYNIMIHGFCNDGQMDKAHDLFLDMEAKGVAPNCVTFNTLMLGCIRNNET 246
G+ P + +Y + GFC G DKA+++ M V P L+ +
Sbjct: 132 KAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNA 191
Query: 247 SKVVELLHRM 256
KV + L R+
Sbjct: 192 DKVYKTLQRL 201
>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana, Semet Substituted Form With Sr
Length = 501
Score = 32.3 bits (72), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 22/41 (53%)
Query: 177 ETAWELFQSLPRVGLMPNVVTYNIMIHGFCNDGQMDKAHDL 217
E A++ + G+ P + +Y + GFC G DKA+++
Sbjct: 122 EXAFDXVKQXKAFGIQPRLRSYGPALFGFCRKGDADKAYEV 162
>pdb|2FO7|A Chain A, Crystal Structure Of An 8 Repeat Consensus Tpr Superhelix
(Trigonal Crystal Form)
pdb|2HYZ|A Chain A, Crystal Structure Of An 8 Repeat Consensus Tpr Superhelix
(Orthorombic Crystal Form)
Length = 136
Score = 30.4 bits (67), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 30/125 (24%), Positives = 51/125 (40%), Gaps = 3/125 (2%)
Query: 60 TLINGYCKTKDVEESLNLYSEMLSKGIRPTVVTYNTLFHGLFEIHQVEHALKLFDEMQHS 119
L N Y K D +E++ Y + L R YN L + ++ + A++ + +
Sbjct: 6 NLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYN-LGNAYYKQGDYDEAIEYYQKALEL 64
Query: 120 DVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCELGIEAYSCLIDGLCKIGKLETA 179
D + + YN + K G EA E ++ L EA+ L + K G + A
Sbjct: 65 DPRSAEAWYN-LGNAYYKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEA 122
Query: 180 WELFQ 184
E +Q
Sbjct: 123 IEYYQ 127
>pdb|2DJ6|A Chain A, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3
pdb|2DJ6|B Chain B, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3
pdb|2DJ6|C Chain C, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3
pdb|2DTT|A Chain A, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3 Complexed With
(1'r,2's)-Biopterin
pdb|2DTT|B Chain B, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3 Complexed With
(1'r,2's)-Biopterin
pdb|2DTT|C Chain C, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3 Complexed With
(1'r,2's)-Biopterin
pdb|2DTT|D Chain D, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3 Complexed With
(1'r,2's)-Biopterin
pdb|2DTT|E Chain E, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3 Complexed With
(1'r,2's)-Biopterin
pdb|2DTT|F Chain F, Crystal Structure Of 6-Pyruvoyl Tetrahydrobiopterin
Synthase From Pyrococcus Horikoshii Ot3 Complexed With
(1'r,2's)-Biopterin
Length = 115
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 27/51 (52%), Gaps = 2/51 (3%)
Query: 108 HALKLFDEMQHSDVAAETSTYNTFIDGLCKNGYIVEAAELFRTLRVLKCEL 158
HA+K+ D + DV T I+G KNGY+++ EL + + + EL
Sbjct: 15 HAVKVGDHWE--DVHGHTFFLEVAIEGEIKNGYVMDFLELRKIVEEITKEL 63
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
0.324 0.139 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,367,888
Number of Sequences: 62578
Number of extensions: 287048
Number of successful extensions: 641
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 631
Number of HSP's gapped (non-prelim): 10
length of query: 260
length of database: 14,973,337
effective HSP length: 97
effective length of query: 163
effective length of database: 8,903,271
effective search space: 1451233173
effective search space used: 1451233173
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.9 bits)