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= 043311
(257 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 = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 31/116 (26%), Positives = 54/116 (46%), Gaps = 4/116 (3%)
Query: 129 IEAYASAGQGKEALRVFMRMLASGVAPNAYTYAVL--IKGLAAAADGNAKILGDAQKY-- 184
++ + G EALR++ +GV + Y Y VL + LA AA ++ G ++ +
Sbjct: 33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI 92
Query: 185 LMEMVGKGMRPNAGTYTAVFEAFVRAQKVDEARGLLQQMKAKGFVPDEKAVKEALI 240
+M+ + PN T+T V + A +++QMKA G P ++ AL
Sbjct: 93 FKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALF 148
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 32/132 (24%), Positives = 55/132 (41%), Gaps = 14/132 (10%)
Query: 94 FDALSKDGLTHEALQLFAQIKDKG-----HMPDVVAHTAVIEAYASAGQGKEALR----V 144
D SK G EAL+L+ + + G + +V+ + + A+ L +
Sbjct: 33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI 92
Query: 145 FMRMLASGVAPNAYTYAVLIKGLAAAADGNAKILGDAQKYLMEMVGKGMRPNAGTYTAVF 204
F +M+ V PN T+ + LA A D + ++ D K +M G++P +Y
Sbjct: 93 FKQMIVDKVVPNEATFTNGAR-LAVAKD-DPEMAFDMVK---QMKAFGIQPRLRSYGPAL 147
Query: 205 EAFVRAQKVDEA 216
F R D+A
Sbjct: 148 FGFCRKGDADKA 159
>pdb|2WDC|A Chain A, Termus Thermophilus Sulfate Thiohydrolase Soxb In Complex
With Glycerol
pdb|2WDD|A Chain A, Termus Thermophilus Sulfate Thiohydrolase Soxb In Complex
With Sulfate
pdb|2WDE|A Chain A, Termus Thermophilus Sulfate Thiohydrolase Soxb In Complex
With Thiosulfate
pdb|2WDF|A Chain A, Termus Thermophilus Sulfate Thiohydrolase Soxb
Length = 562
Score = 30.8 bits (68), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 29/100 (29%), Positives = 44/100 (44%), Gaps = 28/100 (28%)
Query: 70 DPRNLQEIFHKMRTEGLTNNAVKMFDALSKDGLTHEALQLFAQIKDK---------GHMP 120
D R LQE K R EG NAV + L+H +QL A + ++ GH
Sbjct: 239 DERRLQEAVDKARAEG--ANAVVL--------LSHNGMQLDAALAERIRGIDLILSGHTH 288
Query: 121 DV------VAHTAVIEAYASAGQGKEALRVFMRMLASGVA 154
D+ V T ++ A + GK +RV +++ G+A
Sbjct: 289 DLTPRPWRVGKTWIV---AGSAAGKALMRVDLKLWKGGIA 325
>pdb|3HAZ|A Chain A, Crystal Structure Of Bifunctional Proline Utilization A
(Puta) Protein
pdb|3HAZ|B Chain B, Crystal Structure Of Bifunctional Proline Utilization A
(Puta) Protein
Length = 1001
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 26/53 (49%), Gaps = 4/53 (7%)
Query: 98 SKDG----LTHEALQLFAQIKDKGHMPDVVAHTAVIEAYASAGQGKEALRVFM 146
+KDG L E + A I D +P+ VA V A+ SAGQ ALR+
Sbjct: 749 AKDGPIVPLIAETGGINAMIADATALPEQVADDVVTSAFRSAGQRCSALRLLF 801
>pdb|1C3X|A Chain A, Purine Nucleoside Phosphorylase From Cellulomonas Sp. In
Complex With 8-Iodo-Guanine
pdb|1C3X|B Chain B, Purine Nucleoside Phosphorylase From Cellulomonas Sp. In
Complex With 8-Iodo-Guanine
pdb|1C3X|C Chain C, Purine Nucleoside Phosphorylase From Cellulomonas Sp. In
Complex With 8-Iodo-Guanine
pdb|1QE5|A Chain A, Purine Nucleoside Phosphorylase From Cellulomonas Sp. In
Complex With Phosphate
pdb|1QE5|B Chain B, Purine Nucleoside Phosphorylase From Cellulomonas Sp. In
Complex With Phosphate
pdb|1QE5|C Chain C, Purine Nucleoside Phosphorylase From Cellulomonas Sp. In
Complex With Phosphate
Length = 266
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 34/64 (53%), Gaps = 1/64 (1%)
Query: 121 DVVAHTAVIEAYASAGQGKEALRV-FMRMLASGVAPNAYTYAVLIKGLAAAADGNAKILG 179
D+V + +EA A+ G E L V + LA+G++P ++A +I+ AA + +L
Sbjct: 202 DLVGMSTTLEAIAARHCGLEVLGVSLVTNLAAGISPTPLSHAEVIEAGQAAGPRISALLA 261
Query: 180 DAQK 183
D K
Sbjct: 262 DIAK 265
>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 = 27.7 bits (60), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 29/116 (25%), Positives = 51/116 (43%), Gaps = 4/116 (3%)
Query: 129 IEAYASAGQGKEALRVFMRMLASGVAPNAYTYAVL--IKGLAAAADGNAKILGDAQKY-- 184
++ + G EALR++ +GV + Y Y VL + LA AA ++ G ++ +
Sbjct: 33 LDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI 92
Query: 185 LMEMVGKGMRPNAGTYTAVFEAFVRAQKVDEARGLLQQMKAKGFVPDEKAVKEALI 240
+ + + PN T+T V + A ++Q KA G P ++ AL
Sbjct: 93 FKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALF 148
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
0.317 0.132 0.371
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,343,467
Number of Sequences: 62578
Number of extensions: 286141
Number of successful extensions: 859
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 851
Number of HSP's gapped (non-prelim): 14
length of query: 257
length of database: 14,973,337
effective HSP length: 97
effective length of query: 160
effective length of database: 8,903,271
effective search space: 1424523360
effective search space used: 1424523360
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)