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= 028904
(202 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XG2|B Chain B, Crystal Structure Of The Complex Between Pectin
Methylesterase And Its Inhibitor Protein
Length = 153
Score = 37.0 bits (84), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 38/154 (24%), Positives = 61/154 (39%), Gaps = 18/154 (11%)
Query: 41 CSGTIYRRLCYRSLSVYAAKIKSNPKTLANTALNITLKATKSTSRMMVKMSRIPGMIPRE 100
C T LC ++L + K L +++I + K TS+++ ++ P+
Sbjct: 10 CPKTRNPSLCLQALESDPRSASKDLKGLGQFSIDIAQASAKQTSKIIASLTN-QATDPK- 67
Query: 101 TAGAVADCIEVIGDSIDELQDSMDELGHIRNSNFWLTMGDVQT---WVSAALTYEDTCVD 157
G C E D+I D LG + +LT GD + + SAA TC D
Sbjct: 68 LKGRYETCSENYADAI-------DSLGQAKQ---FLTSGDYNSLNIYASAAFDGAGTCED 117
Query: 158 GLQGRPLNGYTKTMIRRHILKVAHLTSNALALIN 191
+G P T + + LK+ L L + N
Sbjct: 118 SFEGPP---NIPTQLHQADLKLEDLCDIVLVISN 148
>pdb|1X90|A Chain A, Crystal Structure Of Mutant Form B Of A Pectin
Methylesterase Inhibitor From Arabidopsis
pdb|1X90|B Chain B, Crystal Structure Of Mutant Form B Of A Pectin
Methylesterase Inhibitor From Arabidopsis
Length = 152
Score = 30.4 bits (67), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 33/128 (25%), Positives = 58/128 (45%), Gaps = 19/128 (14%)
Query: 37 IRTSCSGTIYRRLCYRSLSVYAAKIKSNPKTLANTALNIT-LKATKSTSRMMVKMSRIPG 95
+ T C T+ C + L+ A +N + LA T L+ T +AT++ ++ S I G
Sbjct: 7 MSTICDKTLNPSFCLKFLNTKFAS--ANLQALAKTTLDSTQARATQTLKKLQ---SIIDG 61
Query: 96 MIPRETAGAVADCIEVIGDSIDELQDSMDELGHIRNSNFWLTMGD---VQTWVSAALTYE 152
+ + A C++ +I L+++ + L GD + VSAAL
Sbjct: 62 GVDPRSKLAYRSCVDEYESAIGNLEEAFEHLAS----------GDGMGMNMKVSAALDGA 111
Query: 153 DTCVDGLQ 160
DTC+D ++
Sbjct: 112 DTCLDDVK 119
>pdb|1X91|A Chain A, Crystal Structure Of Mutant Form A Of A Pectin
Methylesterase Inhibitor From Arabidopsis
Length = 153
Score = 30.4 bits (67), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 33/125 (26%), Positives = 58/125 (46%), Gaps = 13/125 (10%)
Query: 37 IRTSCSGTIYRRLCYRSLSVYAAKIKSNPKTLANTALNIT-LKATKSTSRMMVKMSRIPG 95
+ T C T+ C + L+ A +N + LA T L+ T +AT++ ++ S I G
Sbjct: 8 MSTICDKTLNPSFCLKFLNTKFAS--ANLQALAKTTLDSTQARATQTLKKLQ---SIIDG 62
Query: 96 MIPRETAGAVADCIEVIGDSIDELQDSMDELGHIRNSNFWLTMGDVQTWVSAALTYEDTC 155
+ + A C++ +I L+++ + L MG + VSAAL DTC
Sbjct: 63 GVDPRSKLAYRSCVDEYESAIGNLEEAFEHLASGDG------MG-MNMKVSAALDGADTC 115
Query: 156 VDGLQ 160
+D ++
Sbjct: 116 LDDVK 120
>pdb|1X8Z|A Chain A, Crystal Structure Of A Pectin Methylesterase Inhibitor
From Arabidopsis Thaliana
pdb|1X8Z|B Chain B, Crystal Structure Of A Pectin Methylesterase Inhibitor
From Arabidopsis Thaliana
pdb|1X8Z|C Chain C, Crystal Structure Of A Pectin Methylesterase Inhibitor
From Arabidopsis Thaliana
Length = 153
Score = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 33/125 (26%), Positives = 57/125 (45%), Gaps = 13/125 (10%)
Query: 37 IRTSCSGTIYRRLCYRSLSVYAAKIKSNPKTLANTALNIT-LKATKSTSRMMVKMSRIPG 95
+ T C T+ C + L+ A N + LA T L+ T +AT++ ++ S I G
Sbjct: 8 MSTICDKTLNPSFCLKFLNTKFAS--PNLQALAKTTLDSTQARATQTLKKLQ---SIIDG 62
Query: 96 MIPRETAGAVADCIEVIGDSIDELQDSMDELGHIRNSNFWLTMGDVQTWVSAALTYEDTC 155
+ + A C++ +I L+++ + L MG + VSAAL DTC
Sbjct: 63 GVDPRSKLAYRSCVDEYESAIGNLEEAFEHLASGDG------MG-MNMKVSAALDGADTC 115
Query: 156 VDGLQ 160
+D ++
Sbjct: 116 LDDVK 120
>pdb|3CC9|A Chain A, Crystal Structure Of Plasmodium Vivax Putative Polyprenyl
Pyrophosphate Synthase In Complex With Geranylgeranyl
Diphosphate
pdb|3CC9|B Chain B, Crystal Structure Of Plasmodium Vivax Putative Polyprenyl
Pyrophosphate Synthase In Complex With Geranylgeranyl
Diphosphate
pdb|3CC9|C Chain C, Crystal Structure Of Plasmodium Vivax Putative Polyprenyl
Pyrophosphate Synthase In Complex With Geranylgeranyl
Diphosphate
pdb|3CC9|D Chain D, Crystal Structure Of Plasmodium Vivax Putative Polyprenyl
Pyrophosphate Synthase In Complex With Geranylgeranyl
Diphosphate
pdb|3EZ3|A Chain A, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Pvx_092040 With
Zoledronate And Ipp Bound
pdb|3EZ3|B Chain B, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Pvx_092040 With
Zoledronate And Ipp Bound
pdb|3EZ3|C Chain C, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Pvx_092040 With
Zoledronate And Ipp Bound
pdb|3EZ3|D Chain D, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Pvx_092040 With
Zoledronate And Ipp Bound
pdb|3LDW|A Chain A, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Pvx_092040 With
Zoledronate And Ipp Bound
pdb|3LDW|B Chain B, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Pvx_092040 With
Zoledronate And Ipp Bound
pdb|3LDW|C Chain C, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Pvx_092040 With
Zoledronate And Ipp Bound
pdb|3LDW|D Chain D, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Pvx_092040 With
Zoledronate And Ipp Bound
pdb|3PH7|A Chain A, Crystal Structure Of Plasmodium Vivax Putative Polyprenyl
Pyrophosphate Synthase In Complex With Geranylgeranyl
Diphosphate
pdb|3PH7|B Chain B, Crystal Structure Of Plasmodium Vivax Putative Polyprenyl
Pyrophosphate Synthase In Complex With Geranylgeranyl
Diphosphate
pdb|3PH7|C Chain C, Crystal Structure Of Plasmodium Vivax Putative Polyprenyl
Pyrophosphate Synthase In Complex With Geranylgeranyl
Diphosphate
pdb|3PH7|D Chain D, Crystal Structure Of Plasmodium Vivax Putative Polyprenyl
Pyrophosphate Synthase In Complex With Geranylgeranyl
Diphosphate
pdb|3RBM|A Chain A, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Complexed With Bph
-703
pdb|3RBM|B Chain B, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Complexed With Bph
-703
pdb|3RBM|C Chain C, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Complexed With Bph
-703
pdb|3RBM|D Chain D, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Complexed With Bph
-703
pdb|3RYW|A Chain A, Crystal Structure Of P. Vivax Geranylgeranyl Diphosphate
Synthase Complexed With Bph-811
pdb|3RYW|B Chain B, Crystal Structure Of P. Vivax Geranylgeranyl Diphosphate
Synthase Complexed With Bph-811
pdb|3RYW|C Chain C, Crystal Structure Of P. Vivax Geranylgeranyl Diphosphate
Synthase Complexed With Bph-811
pdb|3RYW|D Chain D, Crystal Structure Of P. Vivax Geranylgeranyl Diphosphate
Synthase Complexed With Bph-811
Length = 396
Score = 28.1 bits (61), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 22/44 (50%)
Query: 100 ETAGAVADCIEVIGDSIDELQDSMDELGHIRNSNFWLTMGDVQT 143
E A +A CIE++ + D MD+ RN W + DV+T
Sbjct: 106 EKAACLAWCIEILQAAFLVADDIMDKGEMRRNKYCWYLLKDVET 149
>pdb|3MAV|A Chain A, Crystal Structure Of Plasmodium Vivax Putative Farnesyl
Pyrophosphate Synthase (Pv092040)
pdb|3MAV|B Chain B, Crystal Structure Of Plasmodium Vivax Putative Farnesyl
Pyrophosphate Synthase (Pv092040)
pdb|3MAV|C Chain C, Crystal Structure Of Plasmodium Vivax Putative Farnesyl
Pyrophosphate Synthase (Pv092040)
pdb|3MAV|D Chain D, Crystal Structure Of Plasmodium Vivax Putative Farnesyl
Pyrophosphate Synthase (Pv092040)
Length = 395
Score = 28.1 bits (61), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 22/44 (50%)
Query: 100 ETAGAVADCIEVIGDSIDELQDSMDELGHIRNSNFWLTMGDVQT 143
E A +A CIE++ + D MD+ RN W + DV+T
Sbjct: 105 EKAACLAWCIEILQAAFLVADDIMDKGEMRRNKYCWYLLKDVET 148
>pdb|1T3Q|A Chain A, Crystal Structure Of Quinoline 2-Oxidoreductase From
Pseudomonas Putida 86
pdb|1T3Q|D Chain D, Crystal Structure Of Quinoline 2-Oxidoreductase From
Pseudomonas Putida 86
Length = 168
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 22/47 (46%), Gaps = 1/47 (2%)
Query: 156 VDGL-QGRPLNGYTKTMIRRHILKVAHLTSNALALINSYAAGSNPPS 201
V+GL QG LN + R H L+ T+ LA S A + PS
Sbjct: 83 VEGLSQGEKLNALQDSFRRHHALQCGFCTAGMLATARSILAENPAPS 129
>pdb|1YX3|A Chain A, Nmr Structure Of Allochromatium Vinosum Dsrc: Northeast
Structural Genomics Consortium Target Op4
Length = 132
Score = 27.7 bits (60), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 24/42 (57%), Gaps = 7/42 (16%)
Query: 95 GMIPRETAGAVADCIEVIGDSIDELQDSMDELGHIRNSNFWL 136
G++PR +AD IEV G Q ++DE G++ N N W+
Sbjct: 13 GLVPR--GSHMADTIEVDGK-----QFAVDEEGYLSNLNDWV 47
>pdb|2WBM|A Chain A, Crystal Structure Of Mthsbds, The Homologue Of The
Shwachman-Bodian-Diamond Syndrome Protein In The
Euriarchaeon Methanothermobacter Thermautotrophicus
pdb|2WBM|B Chain B, Crystal Structure Of Mthsbds, The Homologue Of The
Shwachman-Bodian-Diamond Syndrome Protein In The
Euriarchaeon Methanothermobacter Thermautotrophicus
Length = 252
Score = 26.6 bits (57), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 28/60 (46%)
Query: 59 AKIKSNPKTLANTALNITLKATKSTSRMMVKMSRIPGMIPRETAGAVADCIEVIGDSIDE 118
A++ +P + +NI LKA ++ + + R+ IP E AG+ I G +E
Sbjct: 153 ARVHVDPFKTVDEQVNIVLKAIRTKIPIKFEKVRVAIKIPGEMAGSAYGVISNFGKITNE 212
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
0.318 0.131 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,359,466
Number of Sequences: 62578
Number of extensions: 185182
Number of successful extensions: 357
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 353
Number of HSP's gapped (non-prelim): 10
length of query: 202
length of database: 14,973,337
effective HSP length: 94
effective length of query: 108
effective length of database: 9,091,005
effective search space: 981828540
effective search space used: 981828540
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: 49 (23.5 bits)