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= psy16241
(186 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3S4Y|A Chain A, Crystal Structure Of Human Thiamin Pyrophosphokinase 1
pdb|3S4Y|B Chain B, Crystal Structure Of Human Thiamin Pyrophosphokinase 1
Length = 247
Score = 119 bits (298), Expect = 9e-28, Method: Compositional matrix adjust.
Identities = 60/164 (36%), Positives = 98/164 (59%), Gaps = 13/164 (7%)
Query: 27 YWPDLVTGDFDSVSSNSMGRFLALGSDIVPTPDQSYTDFQKAVMEITKR-----EKIDYL 81
+ P+ + GDFDS+ + G +++ TPDQ +TDF K + + K+ K+D +
Sbjct: 67 FLPEFINGDFDSIRPEVREYYATKGCELISTPDQDHTDFTKCLKMLQKKIEEKDLKVDVI 126
Query: 82 ISIVEFNGRLDHCMSNINTLYKSS----LPIYLLSAKYMSWVLRANAGLHRIHLNPGFTS 137
+++ GR D M+++NTL++++ PI ++ + + ++L+ G HR+H++ G
Sbjct: 127 VTLGGLAGRFDQIMASVNTLFQATHITPFPIIIIQEESLIYLLQP--GKHRLHVDTGMEG 184
Query: 138 GKKTLGLIPVGSPVQQVYSTGLKWNLNNHTLAFGGMVSSSNTYE 181
GLIPVG P QV +TGLKWNL N LAFG +VS+SNTY+
Sbjct: 185 --DWCGLIPVGQPCMQVTTTGLKWNLTNDVLAFGTLVSTSNTYD 226
>pdb|1IG3|A Chain A, Mouse Thiamin Pyrophosphokinase Complexed With Thiamin
pdb|1IG3|B Chain B, Mouse Thiamin Pyrophosphokinase Complexed With Thiamin
pdb|2F17|A Chain A, Mouse Thiamin Pyrophosphokinase In A Ternary Complex With
Pyrithiamin Pyrophosphate And Amp At 2.5 Angstrom
pdb|2F17|B Chain B, Mouse Thiamin Pyrophosphokinase In A Ternary Complex With
Pyrithiamin Pyrophosphate And Amp At 2.5 Angstrom
Length = 263
Score = 119 bits (297), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 61/165 (36%), Positives = 100/165 (60%), Gaps = 13/165 (7%)
Query: 27 YWPDLVTGDFDSVSSNSMGRFLALGSDIVPTPDQSYTDFQKAVM----EITKRE-KIDYL 81
+ P+ V+GDFDS+ + G D++ TPDQ +TDF K + +I ++E ++D +
Sbjct: 83 FLPEFVSGDFDSIRPEVKEYYTKKGCDLISTPDQDHTDFTKCLQVLQRKIEEKELQVDVI 142
Query: 82 ISIVEFNGRLDHCMSNINTLYKSS----LPIYLLSAKYMSWVLRANAGLHRIHLNPGFTS 137
+++ GR D M+++NTL++++ +PI ++ + ++L+ G HR+H++ G
Sbjct: 143 VTLGGLGGRFDQIMASVNTLFQATHITPVPIIIIQKDSLIYLLQP--GKHRLHVDTGMEG 200
Query: 138 GKKTLGLIPVGSPVQQVYSTGLKWNLNNHTLAFGGMVSSSNTYEN 182
GLIPVG P QV +TGLKWNL N L FG +VS+SNTY+
Sbjct: 201 --SWCGLIPVGQPCNQVTTTGLKWNLTNDVLGFGTLVSTSNTYDG 243
>pdb|2HH9|A Chain A, Thiamin Pyrophosphokinase From Candida Albicans
pdb|2HH9|B Chain B, Thiamin Pyrophosphokinase From Candida Albicans
Length = 339
Score = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 56/207 (27%), Positives = 88/207 (42%), Gaps = 52/207 (25%)
Query: 27 YWPDLVTGDFDSVSSNSMGRFLALGSDIVPTPDQSYTDFQKAVMEI--------TKR--- 75
Y PD + GDFDS+S + + + GS I+ Q Y DF K++ I TK
Sbjct: 118 YIPDYIVGDFDSISPDVKTYYESHGSKIIRQSSQYYNDFTKSIHCIQLHYQLNHTKENWF 177
Query: 76 EKIDYL---------------------ISIVEFN---GRLDHCMSNINTLY-----KSSL 106
E ID + I+I N GR D + +IN LY +
Sbjct: 178 ESIDEVDGLAKLWNGLNNSSDVVVDIDITIYVLNAIGGRFDQTVQSINQLYIMNEDYPKV 237
Query: 107 PIYLLSAKYMSWVLRANAGLHRI--------HLNPGFTSGKKTLGLIPVGSPVQQVY-ST 157
++ ++ + ++L+ G++ I H + G +S T GL+P+ + + S
Sbjct: 238 TVFFITTNDIIFLLK--KGVNYISYKNRLMFHKDNG-SSPTPTCGLLPLSNKTPIILNSY 294
Query: 158 GLKWNLNNHTLAFGGMVSSSNTYENET 184
GLK+++ N G VSSSN ET
Sbjct: 295 GLKYDMRNWKTEMLGQVSSSNRISGET 321
>pdb|2G9Z|A Chain A, Thiamin Pyrophosphokinase From Candida Albicans
pdb|2G9Z|B Chain B, Thiamin Pyrophosphokinase From Candida Albicans
Length = 348
Score = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 56/207 (27%), Positives = 88/207 (42%), Gaps = 52/207 (25%)
Query: 27 YWPDLVTGDFDSVSSNSMGRFLALGSDIVPTPDQSYTDFQKAVMEI--------TKR--- 75
Y PD + GDFDS+S + + + GS I+ Q Y DF K++ I TK
Sbjct: 118 YIPDYIVGDFDSISPDVKTYYESHGSKIIRQSSQYYNDFTKSIHCIQLHYQLNHTKENWF 177
Query: 76 EKIDYL---------------------ISIVEFN---GRLDHCMSNINTLY-----KSSL 106
E ID + I+I N GR D + +IN LY +
Sbjct: 178 ESIDEVDGLAKLWNGLNNSSDVVVDIDITIYVLNAIGGRFDQTVQSINQLYIMNEDYPKV 237
Query: 107 PIYLLSAKYMSWVLRANAGLHRI--------HLNPGFTSGKKTLGLIPVGSPVQQVY-ST 157
++ ++ + ++L+ G++ I H + G +S T GL+P+ + + S
Sbjct: 238 TVFFITTNDIIFLLK--KGVNYISYKNRLMFHKDNG-SSPTPTCGLLPLSNKTPIILNSY 294
Query: 158 GLKWNLNNHTLAFGGMVSSSNTYENET 184
GLK+++ N G VSSSN ET
Sbjct: 295 GLKYDMRNWKTEMLGQVSSSNRISGET 321
>pdb|3CQ9|A Chain A, Crystal Structure Of The Lp_1622 Protein From
Lactobacillus Plantarum. Northeast Structural Genomics
Consortium Target Lpr114
pdb|3CQ9|B Chain B, Crystal Structure Of The Lp_1622 Protein From
Lactobacillus Plantarum. Northeast Structural Genomics
Consortium Target Lpr114
pdb|3CQ9|C Chain C, Crystal Structure Of The Lp_1622 Protein From
Lactobacillus Plantarum. Northeast Structural Genomics
Consortium Target Lpr114
pdb|3CQ9|D Chain D, Crystal Structure Of The Lp_1622 Protein From
Lactobacillus Plantarum. Northeast Structural Genomics
Consortium Target Lpr114
Length = 227
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 31/90 (34%), Positives = 44/90 (48%), Gaps = 6/90 (6%)
Query: 9 GTDRWLLFLNQHNLDPALYWPDLVTGDFDSVSSNSMGRFL-ALGSDIVPTPDQSYTDFQK 67
G DR L L + + P V GDFDS+ + + AL IV PDQ +TD Q
Sbjct: 29 GADRGALRLVKRGIQPVX-----VVGDFDSIDAAELQTVKDALVGAIVVKPDQDHTDTQL 83
Query: 68 AVMEITKREKIDYLISIVEFNGRLDHCMSN 97
A+ I ++ + D + GRLDH ++N
Sbjct: 84 AIKSIFEQLQPDEVHLYGATGGRLDHLLAN 113
>pdb|3LM8|A Chain A, Crystal Structure Of Thiamine Pyrophosphokinase From
Bacillus Subtilis, Northeast Structural Genomics
Consortium Target Sr677
pdb|3LM8|B Chain B, Crystal Structure Of Thiamine Pyrophosphokinase From
Bacillus Subtilis, Northeast Structural Genomics
Consortium Target Sr677
pdb|3LM8|C Chain C, Crystal Structure Of Thiamine Pyrophosphokinase From
Bacillus Subtilis, Northeast Structural Genomics
Consortium Target Sr677
pdb|3LM8|D Chain D, Crystal Structure Of Thiamine Pyrophosphokinase From
Bacillus Subtilis, Northeast Structural Genomics
Consortium Target Sr677
Length = 222
Score = 40.4 bits (93), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 38/150 (25%), Positives = 65/150 (43%), Gaps = 13/150 (8%)
Query: 34 GDFDSVSSNSMGRFLALGSDI-VPTPDQSYTDFQKAV-MEITKREKIDYLISIVEFNGRL 91
GDFDS++ R + V ++ TD A+ + K+ I + I GR
Sbjct: 50 GDFDSITEQERRRIEKAAPALHVYQAEKDQTDLDLALDWALEKQPDIIQIFGIT--GGRA 107
Query: 92 DHCMSNINTLYK---SSLPIYLLSAKYMSWVLRANAGLHRIHLNPGFTSGKKTLGLIPVG 148
DH + NI LYK +++ I L+ + + + G + I + K+ + IP
Sbjct: 108 DHFLGNIQLLYKGVKTNIKIRLIDKQ--NHIQXFPPGEYDIEKD----ENKRYISFIPFS 161
Query: 149 SPVQQVYSTGLKWNLNNHTLAFGGMVSSSN 178
+ ++ TG K+ LNN + G + SN
Sbjct: 162 EDIHELTLTGFKYPLNNCHITLGSTLCISN 191
>pdb|1IG0|A Chain A, Crystal Structure Of Yeast Thiamin Pyrophosphokinase
pdb|1IG0|B Chain B, Crystal Structure Of Yeast Thiamin Pyrophosphokinase
Length = 319
Score = 40.0 bits (92), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 51/229 (22%), Positives = 81/229 (35%), Gaps = 52/229 (22%)
Query: 2 IRCTVDQGTDRWLLFLNQHNLDPALYWPDLVTGDFDSVSSNSMGRFLALGSDIVPTPDQS 61
++ D +R +L+ Y P+ + GD DS+S + I+ Q
Sbjct: 64 LKVCADGAANRLYDYLDDDETLRIKYLPNYIIGDLDSLSEKVYKYYRKNKVTIIKQTTQY 123
Query: 62 YTDFQKAV---------------------------MEITKREKIDY-------------- 80
TDF K V +E+ K Y
Sbjct: 124 STDFTKCVNLISLHFNSPEFRSLISNKDNLQSNHGIELEKGIHTLYNTMTESLVFSKVTP 183
Query: 81 --LISIVEFNGRLDHCMSNINTLYKSSLPIYLLSAKYMS-----WVLRANAGLHRIHLNP 133
L+++ GR D + +I LY S YM+ ++++ N L I +P
Sbjct: 184 ISLLALGGIGGRFDQTVHSITQLYTLSENASYFKLCYMTPTDLIFLIKKNGTL--IEYDP 241
Query: 134 GF-TSGKKTLGLIPVGSPVQQVYSTGLKWNLNN-HTLAFGGMVSSSNTY 180
F + GL+P+G + GLKW++ N T G VSSSN +
Sbjct: 242 QFRNTCIGNCGLLPIGEATLVKETRGLKWDVKNWPTSVVTGRVSSSNRF 290
>pdb|3L8M|A Chain A, Crystal Structure Of A Probable Thiamine Pyrophosphokinase
From Staphylococcus Saprophyticus Subsp. Saprophyticus.
Northeast Structural Genomics Consortium Target Id Syr86
pdb|3L8M|B Chain B, Crystal Structure Of A Probable Thiamine Pyrophosphokinase
From Staphylococcus Saprophyticus Subsp. Saprophyticus.
Northeast Structural Genomics Consortium Target Id Syr86
Length = 212
Score = 39.7 bits (91), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 47/175 (26%), Positives = 70/175 (40%), Gaps = 18/175 (10%)
Query: 9 GTDRWLLFLNQHNLDPALYWPDLVTGDFDSVSSNSMGRFLALGSDIVP-TPDQSYTDFQK 67
G DR L L + + P GDFDS+S +S F+ +I P ++ TD
Sbjct: 27 GIDRGTLILLESGI-----TPQFAVGDFDSIS-DSERNFIQQQIEINPYNSEKDDTDLAL 80
Query: 68 AVMEITKR--EKIDYLISIVEFNGRLDHCMSNINTLYKSSLPIYLLSAKYMSWVLRANA- 124
+ + KR ID + GRLDH + L K P Y + + N
Sbjct: 81 GIDQAVKRGYRNIDVYGAT---GGRLDHFXGALQILEK---PEYAKXNINIKLIDDTNEI 134
Query: 125 -GLHRIHLNPGFTSGKKTLGLIPVGSPVQQVYSTGLKWNLNNHTLAFGGMVSSSN 178
+ + N ++ + IPV P + G K+NL N TL G ++ SN
Sbjct: 135 QFIQKGQFNVTYSEQFPYISFIPVIYPTV-ISLKGFKYNLQNETLKLGSTLTISN 188
>pdb|3IHK|A Chain A, Crystal Structure Of Thiamin Pyrophosphokinase From
S.Mutans, Northeast Structural Genomics Consortium
Target Smr83
pdb|3IHK|B Chain B, Crystal Structure Of Thiamin Pyrophosphokinase From
S.Mutans, Northeast Structural Genomics Consortium
Target Smr83
pdb|3IHK|C Chain C, Crystal Structure Of Thiamin Pyrophosphokinase From
S.Mutans, Northeast Structural Genomics Consortium
Target Smr83
Length = 218
Score = 36.2 bits (82), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 38/73 (52%), Gaps = 7/73 (9%)
Query: 30 DLVTGDFDSVSSNSMGRFLALGSDIVPTP-DQSYTDFQ---KAVMEITKREKIDYLISIV 85
DL GDFDSVS+ + A +V P +++ TD + K + + R +I I
Sbjct: 40 DLAIGDFDSVSAEEFKQIKAKAKKLVXAPAEKNDTDTELALKTIFDCFGRVEI---IVFG 96
Query: 86 EFNGRLDHCMSNI 98
F GR+DH +SNI
Sbjct: 97 AFGGRIDHXLSNI 109
>pdb|3TQT|A Chain A, Structure Of The D-Alanine-D-Alanine Ligase From Coxiella
Burnetii
pdb|3TQT|B Chain B, Structure Of The D-Alanine-D-Alanine Ligase From Coxiella
Burnetii
Length = 372
Score = 32.3 bits (72), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 37/79 (46%), Gaps = 10/79 (12%)
Query: 46 RFLALGSDIVPTPDQSYTDFQKAVMEITKREKIDYLISIVEFNGRLDHCMSNINTLYKSS 105
+ ++LGS + P ++ T+F KAV E+ + + D L+ GR C N K+S
Sbjct: 186 KAVSLGSSVATLPVKTETEFTKAVKEVFRYD--DRLMVEPRIRGREIECAVLGNGAPKAS 243
Query: 106 LP--------IYLLSAKYM 116
LP Y AKY+
Sbjct: 244 LPGEIIPHHDYYSYDAKYL 262
>pdb|3K94|A Chain A, Crystal Structure Of Thiamin Pyrophosphokinase From
Geobacillus Thermodenitrificans, Northeast Structural
Genomics Consortium Target Gtr2
pdb|3K94|B Chain B, Crystal Structure Of Thiamin Pyrophosphokinase From
Geobacillus Thermodenitrificans, Northeast Structural
Genomics Consortium Target Gtr2
Length = 223
Score = 32.0 bits (71), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 42/163 (25%), Positives = 68/163 (41%), Gaps = 23/163 (14%)
Query: 25 ALYWPDLVTGDFDSVSSNSMGRFLALGSDIVPTP-DQSYTDFQKAV---MEITKREKIDY 80
A + P GDFDS+ + + + D+ P ++ TD + A+ +E T R +
Sbjct: 40 AGFRPVRAFGDFDSLPAEDVVKLQQAFPDLDVWPAEKDKTDXEIALDWAVEQTARXIRLF 99
Query: 81 LISIVEFNGRLDHCMSNINTLYK-SSLPIYLLSAKYMSWVLRANAGLHRIHLNPGFTSGK 139
+ GRLDH N+ L K + PI ++ R N + +HL +T
Sbjct: 100 GAT----GGRLDHLFGNVELLLKYADRPIEIVD--------RQN--VLTVHLPGTYTVXY 145
Query: 140 KT----LGLIPVGSPVQQVYSTGLKWNLNNHTLAFGGMVSSSN 178
+ IPV V + TG K+ L N ++ G + SN
Sbjct: 146 DARYCYVSYIPVSETVAEFTLTGFKYPLTNXHISRGSTLXISN 188
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 0.135 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,954,418
Number of Sequences: 62578
Number of extensions: 245117
Number of successful extensions: 462
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 443
Number of HSP's gapped (non-prelim): 17
length of query: 186
length of database: 14,973,337
effective HSP length: 93
effective length of query: 93
effective length of database: 9,153,583
effective search space: 851283219
effective search space used: 851283219
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: 48 (23.1 bits)