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= 028497
(208 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2PZ0|A Chain A, Crystal Structure Of Glycerophosphodiester
Phosphodiesterase (Gdpd) From T. Tengcongensis
pdb|2PZ0|B Chain B, Crystal Structure Of Glycerophosphodiester
Phosphodiesterase (Gdpd) From T. Tengcongensis
Length = 252
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 34/159 (21%), Positives = 75/159 (47%), Gaps = 10/159 (6%)
Query: 31 EFAQKSHDQVITTIEDALTLVSNSVRKVILDAKVGPPSYEKGLAKDILSVIERTKCYNCL 90
+F +K + I T+ + L+ + V ++ K G Y G+ + ++ I+ +
Sbjct: 89 KFGEKFAGERIPTLYEVFELIGDKDFLVNIEIKSGIVLY-PGIEEKLIKAIKEYNFEERV 147
Query: 91 VWAKSDNL-VRDIMRLSSNVTAGYII---MVDPSTGFRTNLLRIRKAGVVGVYHPLIDEK 146
+ + ++ +RD+ +++ ++ G + +V+P LR+ + Y +I E
Sbjct: 148 IISSFNHYSLRDVKKMAPHLKIGLLYQCGLVEPWH----MALRMEAYSLHPFYFNIIPE- 202
Query: 147 LVRTFHGRNKRVFAWTVDDEDSMRKMLHERVDAVVTSNP 185
LV ++F WTVD ++ M +M+ VD ++T +P
Sbjct: 203 LVEGCKKNGVKLFPWTVDRKEDMERMIKAGVDGIITDDP 241
>pdb|1V8E|A Chain A, Crystal Structure Of Glycerophosphoryl Diester
Phosphodiesterase From Thermus Thermophilus Hb8
pdb|1VD6|A Chain A, Crystal Structure Of Glycerophosphoryl Diester
Phosphodiesterase Complexed With Glycerol
Length = 224
Score = 33.5 bits (75), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 26/47 (55%)
Query: 139 YHPLIDEKLVRTFHGRNKRVFAWTVDDEDSMRKMLHERVDAVVTSNP 185
+H L+ E+ V + R V AWTV++E R++L +D ++ P
Sbjct: 170 HHALVTEEAVAGWRKRGLFVVAWTVNEEGEARRLLALGLDGLIGDRP 216
>pdb|3CH0|A Chain A, Crystal Structure Of Glycerophosphoryl Diester
Phosphodiesterase (Yp_677622.1) From Cytophaga
Hutchinsonii Atcc 33406 At 1.50 A Resolution
Length = 272
Score = 33.5 bits (75), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 28/55 (50%), Gaps = 3/55 (5%)
Query: 137 GVYHP---LIDEKLVRTFHGRNKRVFAWTVDDEDSMRKMLHERVDAVVTSNPILF 188
VY P L+ +K + H RV WTV+ ++ + ++ VD ++T P LF
Sbjct: 215 AVYSPDVTLVSKKDIDAAHKLGXRVIPWTVNTKEEIETLISLGVDGIITDYPDLF 269
>pdb|3QVQ|A Chain A, The Structure Of An Oleispira Antarctica Phosphodiesterase
Olei02445 In Complex With The Product
Sn-Glycerol-3-Phosphate
pdb|3QVQ|B Chain B, The Structure Of An Oleispira Antarctica Phosphodiesterase
Olei02445 In Complex With The Product
Sn-Glycerol-3-Phosphate
pdb|3QVQ|C Chain C, The Structure Of An Oleispira Antarctica Phosphodiesterase
Olei02445 In Complex With The Product
Sn-Glycerol-3-Phosphate
pdb|3QVQ|D Chain D, The Structure Of An Oleispira Antarctica Phosphodiesterase
Olei02445 In Complex With The Product
Sn-Glycerol-3-Phosphate
Length = 252
Score = 32.0 bits (71), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 36/170 (21%), Positives = 71/170 (41%), Gaps = 21/170 (12%)
Query: 33 AQKSHDQVITTIEDALTLVSNSVRKVILDAKVGPPSYEKGLAKDI----------LSVIE 82
Q+ + I T+ +A+ ++S + L+ K E+ +A + L ++
Sbjct: 89 GQEYQQETIPTLLEAIEVISQYGXGLNLELKPCEGLEEETIAASVEVLKQHWPQDLPLLF 148
Query: 83 RTKCYNCLVWAKSDNLVRDIMRLSSNVTAGYIIMVDPSTGFRTNLLRIRKAGVVGVYHPL 142
+ Y LV AK+ L + GY + PS ++ L + AG+ ++
Sbjct: 149 SSFNYFALVSAKA---------LWPEIARGYNVSAIPSA-WQERLEHLDCAGL-HIHQSF 197
Query: 143 IDEKLVRTFHGRNKRVFAWTVDDEDSMRKMLHERVDAVVTSNPILFQRVM 192
D + V +V A+T++DE K+ ++ +DAV + P Q +
Sbjct: 198 FDVQQVSDIKAAGYKVLAFTINDESLALKLYNQGLDAVFSDYPQKIQSAI 247
>pdb|3L12|A Chain A, Crystal Structure Of Putative Glycerophosphoryl Diester
Phosphodiesterase (Yp_165505.1) From Silicibacter
Pomeroyi Dss-3 At 1.60 A Resolution
pdb|3L12|B Chain B, Crystal Structure Of Putative Glycerophosphoryl Diester
Phosphodiesterase (Yp_165505.1) From Silicibacter
Pomeroyi Dss-3 At 1.60 A Resolution
Length = 313
Score = 31.2 bits (69), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 26/52 (50%)
Query: 143 IDEKLVRTFHGRNKRVFAWTVDDEDSMRKMLHERVDAVVTSNPILFQRVMQD 194
+ +LV H V WTV++ + +R+ VD +VT P QR++ D
Sbjct: 256 VTPELVAEAHDLGLIVLTWTVNEPEDIRRXATTGVDGIVTDYPGRTQRILID 307
>pdb|1O1Z|A Chain A, Crystal Structure Of Glycerophosphodiester
Phosphodiesterase (Gdpd) (Tm1621) From Thermotoga
Maritima At 1.60 A Resolution
Length = 234
Score = 30.0 bits (66), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 146 KLVRTFHGRNKRVFAWTVDDEDSMRKMLHERVDAVVTSNPILFQRV 191
+++R+F + +F WT++D + RK+ E +D V+T LF ++
Sbjct: 189 EVLRSFRKKGIVIFVWTLNDPEIYRKIRRE-IDGVITDEVELFVKL 233
>pdb|3RLG|A Chain A, Crystal Structure Of Loxosceles Intermedia Phospholipase D
Isoform 1 H12a Mutant
Length = 302
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 21/38 (55%)
Query: 157 RVFAWTVDDEDSMRKMLHERVDAVVTSNPILFQRVMQD 194
+V+ WTVD + R L VD ++T+ P + V+ +
Sbjct: 243 KVYYWTVDKRSTTRDALDAGVDGIMTNYPDVITDVLNE 280
>pdb|3RLH|A Chain A, Crystal Structure Of A Class Ii Phospholipase D From
Loxosceles Intermedia Venom
Length = 329
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 21/39 (53%)
Query: 156 KRVFAWTVDDEDSMRKMLHERVDAVVTSNPILFQRVMQD 194
+V+ WTVD + R L VD ++T+ P + V+ +
Sbjct: 269 NKVYYWTVDKRSTTRDALDAGVDGIMTNYPDVITDVLNE 307
>pdb|3DXF|A Chain A, Crystal Structure Of The Hscarg R37a Mutant
pdb|3DXF|B Chain B, Crystal Structure Of The Hscarg R37a Mutant
Length = 299
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 43 TIEDALTLVSNSVRKVILDAKVGPPSYEK 71
T E+ L++ RKV+ DAK+ P YEK
Sbjct: 220 TAEEYAALLTKHTRKVVHDAKMTPEDYEK 248
>pdb|2WMD|A Chain A, Crystal Structure Of Nmra-Like Family Domain Containing
Protein 1 In Complex With Nadp And 2-(4-Chloro-
Phenylamino)-Nicotinic Acid
pdb|2WM3|A Chain A, Crystal Structure Of Nmra-Like Family Domain Containing
Protein 1 In Complex With Niflumic Acid
Length = 299
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 43 TIEDALTLVSNSVRKVILDAKVGPPSYEK 71
T E+ L++ RKV+ DAK+ P YEK
Sbjct: 221 TAEEYAALLTKHTRKVVHDAKMTPEDYEK 249
>pdb|3E5M|A Chain A, Crystal Structure Of The Hscarg Y81a Mutant
pdb|3E5M|B Chain B, Crystal Structure Of The Hscarg Y81a Mutant
Length = 299
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 43 TIEDALTLVSNSVRKVILDAKVGPPSYEK 71
T E+ L++ RKV+ DAK+ P YEK
Sbjct: 220 TAEEYAALLTKHTRKVVHDAKMTPEDYEK 248
>pdb|2EXX|A Chain A, Crystal Structure Of Hscarg From Homo Sapiens In Complex
With Nadp
pdb|2EXX|B Chain B, Crystal Structure Of Hscarg From Homo Sapiens In Complex
With Nadp
Length = 306
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 43 TIEDALTLVSNSVRKVILDAKVGPPSYEK 71
T E+ L++ RKV+ DAK+ P YEK
Sbjct: 227 TAEEYAALLTKHTRKVVHDAKMTPEDYEK 255
>pdb|3SG6|A Chain A, Crystal Structure Of Dimeric Gcamp2-Lia(Linker 1)
Length = 450
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 23/52 (44%), Gaps = 3/52 (5%)
Query: 92 WAKSDNLVRDIMRLSSNVTAGYIIMVDPSTGFRTNLL---RIRKAGVVGVYH 140
W K+ + VR I RLSS + YI+ G + N I GV YH
Sbjct: 44 WNKTGHAVRAIGRLSSLIANVYIMADKQKNGIKANFKIRHNIEDGGVQLAYH 95
>pdb|3SM4|A Chain A, Crystal Structure Of The K131a Mutant Of Lambda
Exonuclease In Complex With A 5'-Phosphorylated
14-Mer12-Mer Duplex And Magnesium
pdb|3SM4|B Chain B, Crystal Structure Of The K131a Mutant Of Lambda
Exonuclease In Complex With A 5'-Phosphorylated
14-Mer12-Mer Duplex And Magnesium
pdb|3SM4|C Chain C, Crystal Structure Of The K131a Mutant Of Lambda
Exonuclease In Complex With A 5'-Phosphorylated
14-Mer12-Mer Duplex And Magnesium
Length = 229
Score = 27.7 bits (60), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 28/65 (43%), Gaps = 2/65 (3%)
Query: 139 YHPLIDEKLVRTFHGRNKRVFAWTVDDEDSMRKMLHERVDAVVTSNPILFQRVMQDIRTQ 198
+H L+ E N + AW E+ R + VT +PI+++ + +RT
Sbjct: 61 FHTLLAEVCTGVAPEVNAKALAWGKQYENDARTLFEFTSGVNVTESPIIYRD--ESMRTA 118
Query: 199 CLEEG 203
C +G
Sbjct: 119 CSPDG 123
>pdb|3SLP|A Chain A, Crystal Structure Of Lambda Exonuclease In Complex With A
12 Bp Symmetric Dna Duplex
pdb|3SLP|B Chain B, Crystal Structure Of Lambda Exonuclease In Complex With A
12 Bp Symmetric Dna Duplex
pdb|3SLP|C Chain C, Crystal Structure Of Lambda Exonuclease In Complex With A
12 Bp Symmetric Dna Duplex
Length = 229
Score = 27.7 bits (60), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 28/65 (43%), Gaps = 2/65 (3%)
Query: 139 YHPLIDEKLVRTFHGRNKRVFAWTVDDEDSMRKMLHERVDAVVTSNPILFQRVMQDIRTQ 198
+H L+ E N + AW E+ R + VT +PI+++ + +RT
Sbjct: 61 FHTLLAEVCTGVAPEVNAKALAWGKQYENDARTLFEFTSGVNVTESPIIYRD--ESMRTA 118
Query: 199 CLEEG 203
C +G
Sbjct: 119 CSPDG 123
>pdb|1AVQ|A Chain A, Toroidal Structure Of Lambda Exonuclease Determined At 2.4
Angstroms
pdb|1AVQ|B Chain B, Toroidal Structure Of Lambda Exonuclease Determined At 2.4
Angstroms
pdb|1AVQ|C Chain C, Toroidal Structure Of Lambda Exonuclease Determined At 2.4
Angstroms
Length = 228
Score = 27.7 bits (60), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 28/65 (43%), Gaps = 2/65 (3%)
Query: 139 YHPLIDEKLVRTFHGRNKRVFAWTVDDEDSMRKMLHERVDAVVTSNPILFQRVMQDIRTQ 198
+H L+ E N + AW E+ R + VT +PI+++ + +RT
Sbjct: 60 FHTLLAEVCTGVAPEVNAKALAWGKQYENDARTLFEFTSGVNVTESPIIYRD--ESMRTA 117
Query: 199 CLEEG 203
C +G
Sbjct: 118 CSPDG 122
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
0.322 0.136 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,636,292
Number of Sequences: 62578
Number of extensions: 204827
Number of successful extensions: 531
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 518
Number of HSP's gapped (non-prelim): 18
length of query: 208
length of database: 14,973,337
effective HSP length: 94
effective length of query: 114
effective length of database: 9,091,005
effective search space: 1036374570
effective search space used: 1036374570
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 49 (23.5 bits)