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= 032973
(130 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2LJ9|A Chain A, Partial 3d Structure Of The C-Terminal Part Of The Free
Arabidopsis Thaliana Cp12-2 In Its Oxidized Form
Length = 99
Score = 110 bits (275), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 59/84 (70%), Positives = 68/84 (80%), Gaps = 7/84 (8%)
Query: 50 HMQPLRAAPDR-ISEKVEQSIKSAEEACEGDPASGECAAAWDEVEELSAAASHARERKK- 107
HM AAP+ IS+ VE+SIK A+E C GDP SGEC AAWDEVEELSAAASHAR++KK
Sbjct: 20 HM----AAPEGGISDVVEKSIKEAQETCAGDPVSGECVAAWDEVEELSAAASHARDKKKA 75
Query: 108 -DSDPLEAYCKDNPETDECRTYED 130
SDPLE YCKDNPET+ECRTY++
Sbjct: 76 DGSDPLEEYCKDNPETNECRTYDN 99
>pdb|3QV1|G Chain G, Crystal Structure Of The Binary Complex Of Photosyntetic
A4 Glyceraldehyde 3-Phosphate Dehydrogenase (Gapdh) With
Cp12-2, Both From Arabidopsis Thaliana.
pdb|3QV1|H Chain H, Crystal Structure Of The Binary Complex Of Photosyntetic
A4 Glyceraldehyde 3-Phosphate Dehydrogenase (Gapdh) With
Cp12-2, Both From Arabidopsis Thaliana.
pdb|3QV1|I Chain I, Crystal Structure Of The Binary Complex Of Photosyntetic
A4 Glyceraldehyde 3-Phosphate Dehydrogenase (Gapdh) With
Cp12-2, Both From Arabidopsis Thaliana.
pdb|3RVD|I Chain I, Crystal Structure Of The Binary Complex, Obtained By
Soaking, Of Photosyntetic A4 Glyceraldehyde 3-Phosphate
Dehydrogenase (Gapdh) With Cp12-2, Both From Arabidopsis
Thaliana.
pdb|3RVD|J Chain J, Crystal Structure Of The Binary Complex, Obtained By
Soaking, Of Photosyntetic A4 Glyceraldehyde 3-Phosphate
Dehydrogenase (Gapdh) With Cp12-2, Both From Arabidopsis
Thaliana.
pdb|3RVD|K Chain K, Crystal Structure Of The Binary Complex, Obtained By
Soaking, Of Photosyntetic A4 Glyceraldehyde 3-Phosphate
Dehydrogenase (Gapdh) With Cp12-2, Both From Arabidopsis
Thaliana.
pdb|3RVD|L Chain L, Crystal Structure Of The Binary Complex, Obtained By
Soaking, Of Photosyntetic A4 Glyceraldehyde 3-Phosphate
Dehydrogenase (Gapdh) With Cp12-2, Both From Arabidopsis
Thaliana.
pdb|3RVD|M Chain M, Crystal Structure Of The Binary Complex, Obtained By
Soaking, Of Photosyntetic A4 Glyceraldehyde 3-Phosphate
Dehydrogenase (Gapdh) With Cp12-2, Both From Arabidopsis
Thaliana.
pdb|3RVD|N Chain N, Crystal Structure Of The Binary Complex, Obtained By
Soaking, Of Photosyntetic A4 Glyceraldehyde 3-Phosphate
Dehydrogenase (Gapdh) With Cp12-2, Both From Arabidopsis
Thaliana
Length = 82
Score = 110 bits (274), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 59/84 (70%), Positives = 68/84 (80%), Gaps = 7/84 (8%)
Query: 50 HMQPLRAAPDR-ISEKVEQSIKSAEEACEGDPASGECAAAWDEVEELSAAASHARERKK- 107
HM AAP+ IS+ VE+SIK A+E C GDP SGEC AAWDEVEELSAAASHAR++KK
Sbjct: 3 HM----AAPEGGISDVVEKSIKEAQETCAGDPVSGECVAAWDEVEELSAAASHARDKKKA 58
Query: 108 -DSDPLEAYCKDNPETDECRTYED 130
SDPLE YCKDNPET+ECRTY++
Sbjct: 59 DGSDPLEEYCKDNPETNECRTYDN 82
>pdb|2PKQ|O Chain O, Crystal Structure Of The Photosynthetic
A2b2-Glyceraldehyde-3- Phosphate Dehydrogenase,
Complexed With Nadp
pdb|2PKQ|Q Chain Q, Crystal Structure Of The Photosynthetic
A2b2-Glyceraldehyde-3- Phosphate Dehydrogenase,
Complexed With Nadp
pdb|2PKQ|T Chain T, Crystal Structure Of The Photosynthetic
A2b2-Glyceraldehyde-3- Phosphate Dehydrogenase,
Complexed With Nadp
Length = 368
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 13/21 (61%), Positives = 16/21 (76%)
Query: 109 SDPLEAYCKDNPETDECRTYE 129
DPLE +CKDNP +EC+ YE
Sbjct: 348 GDPLEDFCKDNPADEECKLYE 368
>pdb|2PKR|O Chain O, Crystal Structure Of (A+cte)4 Chimeric Form Of
Photosyntetic Glyceraldehyde-3-Phosphate Dehydrogenase,
Complexed With Nadp
pdb|2PKR|R Chain R, Crystal Structure Of (A+cte)4 Chimeric Form Of
Photosyntetic Glyceraldehyde-3-Phosphate Dehydrogenase,
Complexed With Nadp
pdb|2PKR|P Chain P, Crystal Structure Of (A+cte)4 Chimeric Form Of
Photosyntetic Glyceraldehyde-3-Phosphate Dehydrogenase,
Complexed With Nadp
pdb|2PKR|Q Chain Q, Crystal Structure Of (A+cte)4 Chimeric Form Of
Photosyntetic Glyceraldehyde-3-Phosphate Dehydrogenase,
Complexed With Nadp
pdb|2PKR|A Chain A, Crystal Structure Of (A+cte)4 Chimeric Form Of
Photosyntetic Glyceraldehyde-3-Phosphate Dehydrogenase,
Complexed With Nadp
pdb|2PKR|B Chain B, Crystal Structure Of (A+cte)4 Chimeric Form Of
Photosyntetic Glyceraldehyde-3-Phosphate Dehydrogenase,
Complexed With Nadp
pdb|2PKR|C Chain C, Crystal Structure Of (A+cte)4 Chimeric Form Of
Photosyntetic Glyceraldehyde-3-Phosphate Dehydrogenase,
Complexed With Nadp
pdb|2PKR|D Chain D, Crystal Structure Of (A+cte)4 Chimeric Form Of
Photosyntetic Glyceraldehyde-3-Phosphate Dehydrogenase,
Complexed With Nadp
pdb|2PKR|H Chain H, Crystal Structure Of (A+cte)4 Chimeric Form Of
Photosyntetic Glyceraldehyde-3-Phosphate Dehydrogenase,
Complexed With Nadp
pdb|2PKR|I Chain I, Crystal Structure Of (A+cte)4 Chimeric Form Of
Photosyntetic Glyceraldehyde-3-Phosphate Dehydrogenase,
Complexed With Nadp
pdb|2PKR|L Chain L, Crystal Structure Of (A+cte)4 Chimeric Form Of
Photosyntetic Glyceraldehyde-3-Phosphate Dehydrogenase,
Complexed With Nadp
pdb|2PKR|M Chain M, Crystal Structure Of (A+cte)4 Chimeric Form Of
Photosyntetic Glyceraldehyde-3-Phosphate Dehydrogenase,
Complexed With Nadp
Length = 365
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 13/21 (61%), Positives = 16/21 (76%)
Query: 109 SDPLEAYCKDNPETDECRTYE 129
DPLE +CKDNP +EC+ YE
Sbjct: 345 GDPLEDFCKDNPADEECKLYE 365
>pdb|3VMK|A Chain A, 3-Isopropylmalate Dehydrogenase From Shewanella Benthica
Db21 Mt-2
pdb|3VMK|B Chain B, 3-Isopropylmalate Dehydrogenase From Shewanella Benthica
Db21 Mt-2
Length = 375
Score = 26.9 bits (58), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 31/76 (40%), Gaps = 18/76 (23%)
Query: 2 ATIAGVNLSTPSVFAKITDPK-----SKVQPSRSLWLNNPSRK--------RPAQFRTGR 48
AT+ G + +F + PK QP R L P R RPA+ G
Sbjct: 69 ATLKGCEAADAVLFGSVGGPKWEHLPPNDQPERGALL--PLRGHFELFCNMRPAKLHPGL 126
Query: 49 MHMQPLRAAPDRISEK 64
HM PLR+ ISEK
Sbjct: 127 EHMSPLRS---DISEK 139
>pdb|3VML|A Chain A, Chimera 3-Isopropylmalate Dehydrogenase Between Shewanella
Oneidensis Mr-1 (O) And Shewanella Benthica Db21 Mt-2
(M) From N-Terminal: 20% O Middle 70% M Residual 10% O
Length = 375
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 31/76 (40%), Gaps = 18/76 (23%)
Query: 2 ATIAGVNLSTPSVFAKITDPK-----SKVQPSRSLWLNNPSRK--------RPAQFRTGR 48
AT+ G + +F + PK QP R L P R RPA+ G
Sbjct: 69 ATLKGCEAADAVLFGSVGGPKWEHLPPNDQPERGALL--PLRGHFELFCNMRPAKLHPGL 126
Query: 49 MHMQPLRAAPDRISEK 64
HM PLR+ ISEK
Sbjct: 127 EHMSPLRS---DISEK 139
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
0.309 0.124 0.363
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,973,049
Number of Sequences: 62578
Number of extensions: 138919
Number of successful extensions: 257
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 247
Number of HSP's gapped (non-prelim): 12
length of query: 130
length of database: 14,973,337
effective HSP length: 88
effective length of query: 42
effective length of database: 9,466,473
effective search space: 397591866
effective search space used: 397591866
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 45 (21.9 bits)