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= 022346
(298 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3H95|A Chain A, Crystal Structure Of The Nudix Domain Of Nudt6
Length = 199
Score = 37.7 bits (86), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 32/113 (28%), Positives = 49/113 (43%), Gaps = 34/113 (30%)
Query: 130 GAVVETSDKKILLLQRSNNVGEFPGHFVFPGGHPEPQDAGITSHPCGSTDSEFINHKVSQ 189
GAV + S +KIL++Q N + + FPGG EP+ +
Sbjct: 31 GAVFDESTRKILVVQDRNKL---KNMWKFPGGLSEPE----------------------E 65
Query: 190 EMFDSITREVVEEIGVPSESLCNPLFIGISRRRLNVRPAAF----FFIKCSLQ 238
++ D+ REV EE G+ SE +S R+ + P AF +I C L+
Sbjct: 66 DIGDTAVREVFEETGIKSE-----FRSVLSIRQQHTNPGAFGKSDMYIICRLK 113
>pdb|1VC8|A Chain A, Crystal Structure Of A T.Thermophilus Hb8 Ap6a Hydrolase
Ndx1-Ap6a Complex
pdb|1VC8|B Chain B, Crystal Structure Of A T.Thermophilus Hb8 Ap6a Hydrolase
Ndx1-Ap6a Complex
pdb|1VCD|A Chain A, Crystal Structure Of A T.Thermophilus Hb8 Ap6a Hydrolase
Ndx1
pdb|1VCD|B Chain B, Crystal Structure Of A T.Thermophilus Hb8 Ap6a Hydrolase
Ndx1
Length = 126
Score = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 41/89 (46%), Gaps = 29/89 (32%)
Query: 127 LGNGAVVETSDKKILLLQRSNNVGEFPGHFVFPGGHPEPQDAGITSHPCGSTDSEFINHK 186
LG G VV + +++LLL+ G +VFP GHPEP ++
Sbjct: 3 LGAGGVVFNAKREVLLLRDRM------GFWVFPKGHPEPGES------------------ 38
Query: 187 VSQEMFDSITREVVEEIGVPSESLCNPLF 215
+ ++ REV EE GV +E L PL+
Sbjct: 39 ----LEEAAVREVWEETGVRAEVLL-PLY 62
>pdb|1VC9|A Chain A, Crystal Structure Of A T.thermophilus Hb8 Ap6a Hydrolase
E50q Mutant- Mg2+-atp Complex
pdb|1VC9|B Chain B, Crystal Structure Of A T.thermophilus Hb8 Ap6a Hydrolase
E50q Mutant- Mg2+-atp Complex
Length = 126
Score = 35.4 bits (80), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 41/89 (46%), Gaps = 29/89 (32%)
Query: 127 LGNGAVVETSDKKILLLQRSNNVGEFPGHFVFPGGHPEPQDAGITSHPCGSTDSEFINHK 186
LG G VV + +++LLL+ G +VFP GHPEP ++
Sbjct: 3 LGAGGVVFNAKREVLLLRDRM------GFWVFPKGHPEPGES------------------ 38
Query: 187 VSQEMFDSITREVVEEIGVPSESLCNPLF 215
+ ++ REV E+ GV +E L PL+
Sbjct: 39 ----LEEAAVREVWEQTGVRAEVLL-PLY 62
>pdb|3QSJ|A Chain A, Crystal Structure Of Nudix Hydrolase From Alicyclobacillus
Acidocaldarius
Length = 232
Score = 32.7 bits (73), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 30/73 (41%), Gaps = 12/73 (16%)
Query: 137 DKKILLLQRSNNVGEFPGHFVFPGGHPEPQDAGITSHP-----CGSTDSEFINHKVSQEM 191
D ++L+++R+ PG FPGG +P DA C D + +
Sbjct: 23 DIEVLVVRRAKTXRFLPGFVAFPGGAADPSDAEXAKRAFGRPVCAEDDDD-------PAL 75
Query: 192 FDSITREVVEEIG 204
+ RE EEIG
Sbjct: 76 AVTALRETAEEIG 88
>pdb|1JA9|A Chain A, Crystal Structure Of 1,3,6,8-Tetrahydroxynaphthalene
Reductase In Complex With Nadph And Pyroquilon
Length = 274
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 23/42 (54%)
Query: 21 PSEVSVVFDESYDRVPHPDNNLENSISEIWDSRVQINKSLFN 62
PSEV +FD++ D + NS E+W +++ + LF+
Sbjct: 83 PSEVVALFDKAVSHFGGLDFVMSNSGMEVWCDELEVTQELFD 124
>pdb|3S0Q|A Chain A, Peptidase Module Of The Peptidoglycan Hydrolase Ripa
(Rv1477) From Mycobacterium Tuberculosis, Catalytic Site
Mutant (Cys383ala) At 1.45 Resolution
Length = 215
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 164 EPQDAGITSHPCGSTDSEFINHKVSQEMFDSITREVVEEIGVP 206
+P D GIT+ P GS I ++ + + R + +IGVP
Sbjct: 59 QPTDTGITNAPAGSAQGR-IPRVYGRQASEYVIRRGMSQIGVP 100
>pdb|3NE0|A Chain A, Structure And Functional Regulation Of Ripa, A
Mycobacterial Enzyme Essential For Daughter Cell
Separation
Length = 214
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 164 EPQDAGITSHPCGSTDSEFINHKVSQEMFDSITREVVEEIGVP 206
+P D GIT+ P GS I ++ + + R + +IGVP
Sbjct: 58 QPTDTGITNAPAGSAQGR-IPRVYGRQASEYVIRRGMSQIGVP 99
>pdb|3PBC|A Chain A, Peptidase Module Of The Peptidoglycan Hydrolase Ripa
(Rv1477) From Mycobacterium Tuberculosis At 1.38
Resolution
Length = 214
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 164 EPQDAGITSHPCGSTDSEFINHKVSQEMFDSITREVVEEIGVP 206
+P D GIT+ P GS I ++ + + R + +IGVP
Sbjct: 58 QPTDTGITNAPAGSAQGR-IPRVYGRQASEYVIRRGMSQIGVP 99
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 0.134 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,294,084
Number of Sequences: 62578
Number of extensions: 389697
Number of successful extensions: 782
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 775
Number of HSP's gapped (non-prelim): 12
length of query: 298
length of database: 14,973,337
effective HSP length: 98
effective length of query: 200
effective length of database: 8,840,693
effective search space: 1768138600
effective search space used: 1768138600
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: 51 (24.3 bits)