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= 029593
(191 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ONN|A Chain A, Crystal Structure Of 5'-Nucleotidase Sdt1 From
Saccharomyces Cerevisiae
Length = 263
Score = 72.8 bits (177), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 47/128 (36%), Positives = 69/128 (53%), Gaps = 7/128 (5%)
Query: 10 FDLDDTLYPSETGIAAAVKRNIEGFLIEKCGFSETKASSLRVELFKAYGSTLAGLRALGY 69
FD+D+ LY S T I ++++I F S A L +K YG + GL + +
Sbjct: 35 FDIDNCLYKSSTRIHDLMQQSILRFFQTHLKLSPEDAHVLNNSYYKEYGLAIRGL-VMFH 93
Query: 70 DIGADDYHGFVHGRLPY-DLIKPDPQLRNLLCSITQ-----RKIIFTNSDRNHAITCLKR 123
+ A +Y+ V LP D++KPD LRN+L + Q + +FTN+ +NHAI CL+
Sbjct: 94 KVNALEYNRLVDDSLPLQDILKPDIPLRNMLLRLRQSGKIDKLWLFTNAYKNHAIRCLRL 153
Query: 124 LEIADCFD 131
L IAD FD
Sbjct: 154 LGIADLFD 161
>pdb|3NUQ|A Chain A, Structure Of A Putative Nucleotide Phosphatase From
Saccharomyces Cerevisiae
Length = 282
Score = 72.4 bits (176), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 47/128 (36%), Positives = 69/128 (53%), Gaps = 7/128 (5%)
Query: 10 FDLDDTLYPSETGIAAAVKRNIEGFLIEKCGFSETKASSLRVELFKAYGSTLAGLRALGY 69
FD+D+ LY S T I ++++I F S A L +K YG + GL + +
Sbjct: 62 FDIDNCLYKSSTRIHDLMQQSILRFFQTHLKLSPEDAHVLNNSYYKEYGLAIRGL-VMFH 120
Query: 70 DIGADDYHGFVHGRLP-YDLIKPDPQLRNLLCSITQ-----RKIIFTNSDRNHAITCLKR 123
+ A +Y+ V LP D++KPD LRN+L + Q + +FTN+ +NHAI CL+
Sbjct: 121 KVNALEYNRLVDDSLPLQDILKPDIPLRNMLLRLRQSGKIDKLWLFTNAYKNHAIRCLRL 180
Query: 124 LEIADCFD 131
L IAD FD
Sbjct: 181 LGIADLFD 188
>pdb|3OPX|A Chain A, Crystal Structure Of Pyrimidine 5 -Nucleotidase Sdt1 From
Saccharomyces Cerevisiae Complexed With Uridine
5'-Monophosphate
Length = 263
Score = 70.1 bits (170), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 46/128 (35%), Positives = 68/128 (53%), Gaps = 7/128 (5%)
Query: 10 FDLDDTLYPSETGIAAAVKRNIEGFLIEKCGFSETKASSLRVELFKAYGSTLAGLRALGY 69
F +D+ LY S T I ++++I F S A L +K YG + GL + +
Sbjct: 35 FAIDNCLYKSSTRIHDLMQQSILRFFQTHLKLSPEDAHVLNNSYYKEYGLAIRGL-VMFH 93
Query: 70 DIGADDYHGFVHGRLPY-DLIKPDPQLRNLLCSITQ-----RKIIFTNSDRNHAITCLKR 123
+ A +Y+ V LP D++KPD LRN+L + Q + +FTN+ +NHAI CL+
Sbjct: 94 KVNALEYNRLVDDSLPLQDILKPDIPLRNMLLRLRQSGKIDKLWLFTNAYKNHAIRCLRL 153
Query: 124 LEIADCFD 131
L IAD FD
Sbjct: 154 LGIADLFD 161
>pdb|2HOQ|A Chain A, Crystal Structure Of The Probable Haloacid Dehalogenase
(Ph1655) From Pyrococcus Horikoshii Ot3
Length = 241
Score = 33.5 bits (75), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 46/188 (24%), Positives = 65/188 (34%), Gaps = 34/188 (18%)
Query: 6 NCLVFDLDDTLYPSETGIAAAVKRNIEGFLIEKCGFSETKASSLRVELFKAYGSTLAG-- 63
+ FDLDDTL + A K IE + A S +EL K YGS
Sbjct: 3 KVIFFDLDDTLVDTSKLAEIARKNAIENMIRHGLPVDFETAYSELIELIKEYGSNFPYHF 62
Query: 64 ---LRAL-------GYDIGADDYHGFVHGRLPYDLIKPDPQLRNLLCSITQRKI---IFT 110
LR L G YH + ++ P R +L + + I T
Sbjct: 63 DYLLRRLDLPYNPKWISAGVIAYHN-----TKFAYLREVPGARKVLIRLKELGYELGIIT 117
Query: 111 NSDRNHAITCLKRLEIADCFDQIICFETMNPNLSKATRPDEFPVLLKPSMDAMKLALHVA 170
+ + + RLE+ D F+ +I +F + KP K AL
Sbjct: 118 DGNPVKQWEKILRLELDDFFEHVII--------------SDFEGVKKPHPKIFKKALKAF 163
Query: 171 NVDPRHAV 178
NV P A+
Sbjct: 164 NVKPEEAL 171
>pdb|4EEK|A Chain A, Crystal Structure Of Had Family Hydrolase Dr_1622 From
Deinococcus Radiodurans R1 (Target Efi-501256) With
Bound Phosphate And Sodium
pdb|4EEL|A Chain A, Crystal Structure Of Had Family Hydrolase Dr_1622 From
Deinococcus Radiodurans R1 (Target Efi-501256) With
Bound Citrate And Sodium
pdb|4EEN|A Chain A, Crystal Structure Of Had Family Hydrolase Dr_1622 From
Deinococcus Radiodurans R1 (Target Efi-501256) With
Bound Magnesium
Length = 259
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 2 DSPFNCLVFDLDDTLYPSETGIAAAVKRNI 31
D+PF+ ++FDLD L SE GI A V +++
Sbjct: 25 DAPFDAVLFDLDGVLVESE-GIIAQVWQSV 53
>pdb|3VAY|A Chain A, Crystal Structure Of 2-Haloacid Dehalogenase From
Pseudomonas Syringae Pv. Tomato Dc3000
pdb|3VAY|B Chain B, Crystal Structure Of 2-Haloacid Dehalogenase From
Pseudomonas Syringae Pv. Tomato Dc3000
Length = 230
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 50/199 (25%), Positives = 79/199 (39%), Gaps = 52/199 (26%)
Query: 5 FNCLVFDLDDTLY---PSETGIAAAVK------------------RNIEGFLIEKCGFSE 43
+ FDLDDTL+ P+ G AA++ I L+++ +
Sbjct: 2 IKLVTFDLDDTLWDTAPAIVGAEAALRDWLAEQAPKLGPVPVEHLWEIRSRLLDEDPSFK 61
Query: 44 TKASSLRVE-LFKAYGSTLAGLRALGYD------IGADDYHGFVHGRLPYDLI-KPDPQL 95
+ S+LR LF A L GYD + + + F+HGR + + P L
Sbjct: 62 HRISALRRRVLFHA-------LEDAGYDSDEAQQLADESFEVFLHGRHQVQIFPEVQPTL 114
Query: 96 RNLLCSITQRKIIFTNSDRNHAITCLKRLEIADCFDQIICFETMNPNLSKATRPDEFP-- 153
L + T I N+D ++RL +AD F +C E + +PD P
Sbjct: 115 EILAKTFTLGVITNGNAD-------VRRLGLADYFAFALCAEDLG-----IGKPDPAPFL 162
Query: 154 -VLLKPSMDAMKLALHVAN 171
L + +DA A+HV +
Sbjct: 163 EALRRAKVDA-SAAVHVGD 180
>pdb|3FZQ|A Chain A, Crystal Structure Of Putative Haloacid Dehalogenase-Like
Hydrolase (Yp_001086940.1) From Clostridium Difficile
630 At 2.10 A Resolution
pdb|3FZQ|B Chain B, Crystal Structure Of Putative Haloacid Dehalogenase-Like
Hydrolase (Yp_001086940.1) From Clostridium Difficile
630 At 2.10 A Resolution
Length = 274
Score = 27.7 bits (60), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 27/132 (20%), Positives = 55/132 (41%), Gaps = 12/132 (9%)
Query: 5 FNCLVFDLDDTLYPSETGIAAAVKRNIEGFLIEKCGFSETKASSLRVELFKAYGSTLAGL 64
+ L+ D+D TL GI + K I + S+ + ++ G+ +
Sbjct: 5 YKLLILDIDGTLRDEVYGIPESAKHAIR--------LCQKNHCSVVICTGRSXGTIQDDV 56
Query: 65 RALGYD---IGADDYHGFVHGRLPYDLIKPDPQLRNLLCSITQRKIIFTNSDRNHAITCL 121
+LG D G +Y + HG L Y+ ++ ++C + +R++ F+ +
Sbjct: 57 LSLGVDGYIAGGGNYIQY-HGELLYNQSFNQRLIKEVVCLLKKREVAFSIESQEKVFXNQ 115
Query: 122 KRLEIADCFDQI 133
K EI + +Q+
Sbjct: 116 KAKEIFETXNQL 127
>pdb|1ZBH|A Chain A, 3'-End Specific Recognition Of Histone Mrna Stem-Loop By
3'- Exonuclease
pdb|1ZBH|B Chain B, 3'-End Specific Recognition Of Histone Mrna Stem-Loop By
3'- Exonuclease
pdb|1ZBH|C Chain C, 3'-End Specific Recognition Of Histone Mrna Stem-Loop By
3'- Exonuclease
pdb|1ZBH|D Chain D, 3'-End Specific Recognition Of Histone Mrna Stem-Loop By
3'- Exonuclease
Length = 299
Score = 26.6 bits (57), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 21/53 (39%), Gaps = 11/53 (20%)
Query: 124 LEIADCFDQII-----------CFETMNPNLSKATRPDEFPVLLKPSMDAMKL 165
LEI D F Q + C + R D FP +LK +D MKL
Sbjct: 114 LEIEDTFQQYVRPEINTQLSDFCISLTGITQDQVDRADTFPQVLKKVIDLMKL 166
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
0.326 0.141 0.431
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,628,026
Number of Sequences: 62578
Number of extensions: 214457
Number of successful extensions: 598
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 584
Number of HSP's gapped (non-prelim): 14
length of query: 191
length of database: 14,973,337
effective HSP length: 93
effective length of query: 98
effective length of database: 9,153,583
effective search space: 897051134
effective search space used: 897051134
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 48 (23.1 bits)