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= 026577
(236 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 35.8 bits (81), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 39/85 (45%), Gaps = 28/85 (32%)
Query: 127 LGNGAVVETSDKKILLLQRSNNVGEFPGHFVFPGGHPEPQDAGITSHPCGSTDSEFINHK 186
LG G VV + +++LLL+ G +VFP GHPEP ++
Sbjct: 3 LGAGGVVFNAKREVLLLRDRM------GFWVFPKGHPEPGES------------------ 38
Query: 187 VSQEMFDSITREVVEEIGVPSESLV 211
+ ++ REV EE GV +E L+
Sbjct: 39 ----LEEAAVREVWEETGVRAEVLL 59
>pdb|3H95|A Chain A, Crystal Structure Of The Nudix Domain Of Nudt6
Length = 199
Score = 35.4 bits (80), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 36/79 (45%), Gaps = 25/79 (31%)
Query: 130 GAVVETSDKKILLLQRSNNVGEFPGHFVFPGGHPEPQDAGITSHPCGSTDSEFINHKVSQ 189
GAV + S +KIL++Q N + + FPGG EP+ +
Sbjct: 31 GAVFDESTRKILVVQDRNKL---KNMWKFPGGLSEPE----------------------E 65
Query: 190 EMFDSITREVVEEIGVPSE 208
++ D+ REV EE G+ SE
Sbjct: 66 DIGDTAVREVFEETGIKSE 84
>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 = 34.7 bits (78), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 39/85 (45%), Gaps = 28/85 (32%)
Query: 127 LGNGAVVETSDKKILLLQRSNNVGEFPGHFVFPGGHPEPQDAGITSHPCGSTDSEFINHK 186
LG G VV + +++LLL+ G +VFP GHPEP ++
Sbjct: 3 LGAGGVVFNAKREVLLLRDRM------GFWVFPKGHPEPGES------------------ 38
Query: 187 VSQEMFDSITREVVEEIGVPSESLV 211
+ ++ REV E+ GV +E L+
Sbjct: 39 ----LEEAAVREVWEQTGVRAEVLL 59
>pdb|3QSJ|A Chain A, Crystal Structure Of Nudix Hydrolase From Alicyclobacillus
Acidocaldarius
Length = 232
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 30/74 (40%), Gaps = 12/74 (16%)
Query: 136 SDKKILLLQRSNNVGEFPGHFVFPGGHPEPQDAGITSHP-----CGSTDSEFINHKVSQE 190
D ++L+++R+ PG FPGG +P DA C D +
Sbjct: 22 KDIEVLVVRRAKTXRFLPGFVAFPGGAADPSDAEXAKRAFGRPVCAEDDDD-------PA 74
Query: 191 MFDSITREVVEEIG 204
+ + RE EEIG
Sbjct: 75 LAVTALRETAEEIG 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 = 0.98, 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|3GRN|A Chain A, Crystal Structure Of Mutt Protein From Methanosarcina
Mazei Go1
pdb|3GRN|B Chain B, Crystal Structure Of Mutt Protein From Methanosarcina
Mazei Go1
Length = 153
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 31/79 (39%), Gaps = 16/79 (20%)
Query: 131 AVVETSDKKILLLQRSNNVGEFPGHFVFPGGHPEP-------------QDAGITSHP--- 174
A++ + LLL+RS N G + PGG P ++ GIT P
Sbjct: 13 ALIRNEKGEFLLLRRSENSRTNAGKWDLPGGKVNPDESLKEGVAREVWEETGITMVPGDI 72
Query: 175 CGSTDSEFINHKVSQEMFD 193
G + E KV +FD
Sbjct: 73 AGQVNFELTEKKVIAIVFD 91
>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 = 29.6 bits (65), Expect = 1.6, 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 = 29.6 bits (65), Expect = 1.6, 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 = 29.6 bits (65), Expect = 1.7, 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|2XIV|A Chain A, Structure Of Rv1477, Hypothetical Invasion Protein Of
Mycobacterium Tuberculosis
Length = 209
Score = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
Query: 164 EPQDAGITSHPCGSTDSEFINHKVSQEMFDSITREVVEEIGVP 206
+P D GIT+ P GS I ++ + + R +IGVP
Sbjct: 53 QPTDTGITNAPAGSAQGR-IPRVYGRQASEYVIRRGXSQIGVP 94
>pdb|1NQY|A Chain A, The Structure Of A Coa Pyrophosphatase From D. Radiodurans
pdb|1NQZ|A Chain A, The Structure Of A Coa Pyrophosphatase From D. Radiodurans
Complexed With A Magnesium Ion
Length = 194
Score = 27.3 bits (59), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 3/41 (7%)
Query: 131 AVVETSDKKILLLQRSNNVGEFPGHFVFPGGHPEPQDAGIT 171
A+ +D ++LL RS+ + G FPGG DAG T
Sbjct: 41 ALTREADPRVLLTVRSSELPTHKGQIAFPGGS---LDAGET 78
>pdb|3ICJ|A Chain A, Crystal Structure Of An Uncharacterized Metal-Dependent
Hydrolase From Pyrococcus Furiosus
Length = 534
Score = 26.9 bits (58), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 27/110 (24%), Positives = 45/110 (40%), Gaps = 11/110 (10%)
Query: 48 EIWDSRVQINKSLFNGQKFRYGGHIMRGEGGSSVESHVCLHLGLTDYRTFVGTNLNPLWE 107
E+ D ++N F G++ R G + +G + L TD NP
Sbjct: 272 ELLDKLEELNLGKFEGRRLRIWGVXLFVDGSLGART-ALLSEPYTD---------NPTTS 321
Query: 108 KFLVPSEDDVIQCQHTASPLG-NGAVVETSDKKILLLQRSNNVGEFPGHF 156
LV ++D++++ A PLG + AV DK + + + EF G
Sbjct: 322 GELVMNKDEIVEVIERAKPLGLDVAVHAIGDKAVDVALDAFEEAEFSGRI 371
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 0.135 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,727,073
Number of Sequences: 62578
Number of extensions: 332551
Number of successful extensions: 709
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 702
Number of HSP's gapped (non-prelim): 16
length of query: 236
length of database: 14,973,337
effective HSP length: 96
effective length of query: 140
effective length of database: 8,965,849
effective search space: 1255218860
effective search space used: 1255218860
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)