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= 004783
(730 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2D9Y|A Chain A, Solution Structure Of The Ph Domain Of Pepp-3 From Human
Length = 117
Score = 32.3 bits (72), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 31/109 (28%), Positives = 47/109 (43%), Gaps = 22/109 (20%)
Query: 14 GWLHLIRSNRIGLQYSRKRYFLLEDHFLKSFKSVPHSKNEDPVRSAIIDSCIRVTD-NGR 72
GWL + G++ KR+F+L D L +K + E+ + +I RV
Sbjct: 15 GWL--FKQASSGVKQWNKRWFVLVDRCLFYYKD----EKEESILGSIPLLSFRVAAVQPS 68
Query: 73 ESIHRK--------------LGASSPEEAAKWIHSLQEAA-LKGGPHQG 106
++I RK A SPEE WI ++ EAA ++ GP G
Sbjct: 69 DNISRKHTFKAEHAGVRTYFFSAESPEEQEAWIQAMGEAARVQSGPSSG 117
>pdb|1UPQ|A Chain A, Crystal Structure Of The Pleckstrin Homology (Ph) Domain
Of Pepp1
pdb|1UPR|A Chain A, Crystal Structure Of The Pepp1 Pleckstrin Homology Domain
In Complex With Inositol 1,3,4,5-Tetrakisphosphate
Length = 123
Score = 30.8 bits (68), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 32/120 (26%), Positives = 51/120 (42%), Gaps = 25/120 (20%)
Query: 12 MEGWLHLIRSNRIGLQYSRKRYFLLEDHFLKSFKSVPHSKNEDPVRSAIIDSC-IRVTDN 70
+ GWLH + + GL+ ++R+F+L H L +K S+ E + S ++ S IR
Sbjct: 13 IRGWLH--KQDSSGLRLWKRRWFVLSGHCLFYYKD---SREESVLGSVLLPSYNIRPDGP 67
Query: 71 GRESIHR-------------KLGASSPEEAAKWIHSLQEAALKGGPHQGVGDHIGCPNSP 117
G R L A + E+ W+ +L A+ + GD G P SP
Sbjct: 68 GAPRGRRFTFTAEHPGMRTYVLAADTLEDLRGWLRALGRAS------RAEGDDYGQPRSP 121
>pdb|4A6F|B Chain B, Crystal Structure Of Slm1-ph Domain In Complex With
Phosphoserine
Length = 120
Score = 30.4 bits (67), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 43/89 (48%), Gaps = 11/89 (12%)
Query: 18 LIRSNRIGLQYSRKRYFLLEDHFLKSFKSVPHSKNEDPVRSAIIDSCIRVTDNGRESIHR 77
L R ++ YS K Y++L +FL FK+ K+ PV S + C VT++ R
Sbjct: 12 LERRSKFLKSYS-KGYYVLTPNFLHEFKTADRKKDLVPVMSLALSECT-VTEHS-----R 64
Query: 78 KLGASSPEEA---AKWI-HSLQEAALKGG 102
K SSP AK++ H+ Q ++ G
Sbjct: 65 KNSTSSPNSTGSDAKFVLHAKQNGIIRRG 93
>pdb|4A5K|A Chain A, Structural Analyses Of Slm1-Ph Domain Demonstrate Ligand
Binding In The Non-Canonical Site
pdb|4A5K|B Chain B, Structural Analyses Of Slm1-Ph Domain Demonstrate Ligand
Binding In The Non-Canonical Site
pdb|4A5K|C Chain C, Structural Analyses Of Slm1-Ph Domain Demonstrate Ligand
Binding In The Non-Canonical Site
pdb|4A5K|D Chain D, Structural Analyses Of Slm1-Ph Domain Demonstrate Ligand
Binding In The Non-Canonical Site
Length = 118
Score = 30.4 bits (67), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 43/89 (48%), Gaps = 11/89 (12%)
Query: 18 LIRSNRIGLQYSRKRYFLLEDHFLKSFKSVPHSKNEDPVRSAIIDSCIRVTDNGRESIHR 77
L R ++ YS K Y++L +FL FK+ K+ PV S + C VT++ R
Sbjct: 10 LERRSKFLKSYS-KGYYVLTPNFLHEFKTADRKKDLVPVMSLALSECT-VTEHS-----R 62
Query: 78 KLGASSPEEA---AKWI-HSLQEAALKGG 102
K SSP AK++ H+ Q ++ G
Sbjct: 63 KNSTSSPNSTGSDAKFVLHAKQNGIIRRG 91
>pdb|3NSU|A Chain A, A Systematic Screen For Protein-Lipid Interactions In
Saccharomyces Cerevisiae
pdb|3NSU|B Chain B, A Systematic Screen For Protein-Lipid Interactions In
Saccharomyces Cerevisiae
pdb|4A6F|A Chain A, Crystal Structure Of Slm1-ph Domain In Complex With
Phosphoserine
pdb|4A6H|A Chain A, Crystal Structure Of Slm1-Ph Domain In Complex With
Inositol-4-Phosphate
pdb|4A6H|B Chain B, Crystal Structure Of Slm1-Ph Domain In Complex With
Inositol-4-Phosphate
pdb|4A6H|C Chain C, Crystal Structure Of Slm1-Ph Domain In Complex With
Inositol-4-Phosphate
pdb|4A6H|D Chain D, Crystal Structure Of Slm1-Ph Domain In Complex With
Inositol-4-Phosphate
pdb|4A6K|A Chain A, Crystal Structure Of Slm1-Ph Domain In Complex With
D-Myo-Inositol-4-Phosphate
pdb|4A6K|B Chain B, Crystal Structure Of Slm1-Ph Domain In Complex With
D-Myo-Inositol-4-Phosphate
pdb|4A6K|C Chain C, Crystal Structure Of Slm1-Ph Domain In Complex With
D-Myo-Inositol-4-Phosphate
pdb|4A6K|D Chain D, Crystal Structure Of Slm1-Ph Domain In Complex With
D-Myo-Inositol-4-Phosphate
Length = 120
Score = 30.4 bits (67), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 43/89 (48%), Gaps = 11/89 (12%)
Query: 18 LIRSNRIGLQYSRKRYFLLEDHFLKSFKSVPHSKNEDPVRSAIIDSCIRVTDNGRESIHR 77
L R ++ YS K Y++L +FL FK+ K+ PV S + C VT++ R
Sbjct: 12 LERRSKFLKSYS-KGYYVLTPNFLHEFKTADRKKDLVPVMSLALSECT-VTEHS-----R 64
Query: 78 KLGASSPEEA---AKWI-HSLQEAALKGG 102
K SSP AK++ H+ Q ++ G
Sbjct: 65 KNSTSSPNSTGSDAKFVLHAKQNGIIRRG 93
>pdb|2XWH|A Chain A, Hcv-J6 Ns5b Polymerase Structure At 1.8 Angstrom
Length = 563
Score = 30.4 bits (67), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 38/84 (45%), Gaps = 15/84 (17%)
Query: 25 GLQYSRKRYFLLEDHFLKSFKSVPHSKNEDPVRSAIIDSCIRVTDNGR-----ESIHRKL 79
G QYS + + LK++ ++ +DP+ + C T R ESI+R
Sbjct: 192 GFQYSPAQRV---EFLLKAW-----AEKKDPMGFSYDTRCFDSTVTERDIRTEESIYR-- 241
Query: 80 GASSPEEAAKWIHSLQEAALKGGP 103
S PEEA IHSL E GGP
Sbjct: 242 ACSLPEEAHTAIHSLTERLYVGGP 265
>pdb|4ADP|A Chain A, Hcv-J6 Ns5b Polymerase V405i Mutant
Length = 579
Score = 30.4 bits (67), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 38/84 (45%), Gaps = 15/84 (17%)
Query: 25 GLQYSRKRYFLLEDHFLKSFKSVPHSKNEDPVRSAIIDSCIRVTDNGR-----ESIHRKL 79
G QYS + + LK++ ++ +DP+ + C T R ESI+R
Sbjct: 194 GFQYSPAQRV---EFLLKAW-----AEKKDPMGFSYDTRCFDSTVTERDIRTEESIYR-- 243
Query: 80 GASSPEEAAKWIHSLQEAALKGGP 103
S PEEA IHSL E GGP
Sbjct: 244 ACSLPEEAHTAIHSLTERLYVGGP 267
>pdb|4ATN|A Chain A, Crystal Structure Of C2498 2'-O-Ribose Methyltransferase
Rlmm From Escherichia Coli
pdb|4B17|A Chain A, Crystal Structure Of C2498 2'-O-Ribose Methyltransferase
Rlmm From Escherichia Coli In Complex With
S-Adenosylmethionine
Length = 375
Score = 30.0 bits (66), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 30/72 (41%), Gaps = 5/72 (6%)
Query: 574 PGSTTYSLALYYMMTTPVKDAPLLESFINGDDA--YRNSRFKLIPYISEGSWIVKQSV-- 629
PG TY L M V + P+ +S ++ R FK P S SW+V V
Sbjct: 222 PGGWTYQLVKRNMWVYSVDNGPMAQSLMDTGQVTWLREDGFKFRPTRSNISWMVCDMVEK 281
Query: 630 -GKKACLIGQAL 640
K A L+ Q L
Sbjct: 282 PAKVAALMAQWL 293
>pdb|4AUK|A Chain A, Crystal Structure Of C2498 2'-O-Ribose Methyltransferase
Rlmm From Escherichia Coli
pdb|4AUK|B Chain B, Crystal Structure Of C2498 2'-O-Ribose Methyltransferase
Rlmm From Escherichia Coli
Length = 375
Score = 30.0 bits (66), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 30/72 (41%), Gaps = 5/72 (6%)
Query: 574 PGSTTYSLALYYMMTTPVKDAPLLESFINGDDA--YRNSRFKLIPYISEGSWIVKQSV-- 629
PG TY L M V + P+ +S ++ R FK P S SW+V V
Sbjct: 222 PGGWTYQLVKRNMWVYSVDNGPMAQSLMDTGQVTWLREDGFKFRPTRSNISWMVCDMVEK 281
Query: 630 -GKKACLIGQAL 640
K A L+ Q L
Sbjct: 282 PAKVAALMAQWL 293
>pdb|1X05|A Chain A, Solution Structure Of The C-Terminal Ph Domain Of Human
Pleckstrin
Length = 129
Score = 29.6 bits (65), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 35/73 (47%), Gaps = 19/73 (26%)
Query: 53 EDPVRSAIIDSCIRVT----DNGRES-------------IHRKLGASSPEEAAKWIHSLQ 95
EDP+ + + C+ + NGR+S +H L A++P+E +WI ++Q
Sbjct: 57 EDPLGAIHLRGCVVTSVESNSNGRKSEEENLFEIITADEVHYFLQAATPKERTEWIKAIQ 116
Query: 96 EAALKG--GPHQG 106
A+ G GP G
Sbjct: 117 MASRTGKSGPSSG 129
>pdb|3SG6|A Chain A, Crystal Structure Of Dimeric Gcamp2-Lia(Linker 1)
Length = 450
Score = 29.3 bits (64), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 36/78 (46%), Gaps = 18/78 (23%)
Query: 520 HKVKAKGTLMQMVAADWLKSDKREDDLGGRPGGIVQKYAEQGGPEFFFIINIQVPGSTTY 579
H V+A G L ++A ++ +DK+++ G + ++ E GG +
Sbjct: 49 HAVRAIGRLSSLIANVYIMADKQKN--GIKANFKIRHNIEDGGVQ--------------- 91
Query: 580 SLALYYMMTTPVKDAPLL 597
LA +Y TP+ D P+L
Sbjct: 92 -LAYHYQQNTPIGDGPVL 108
>pdb|2PSO|A Chain A, Human Stard13 (Dlc2) Lipid Transfer And Protein
Localization Domain
pdb|2PSO|B Chain B, Human Stard13 (Dlc2) Lipid Transfer And Protein
Localization Domain
pdb|2PSO|C Chain C, Human Stard13 (Dlc2) Lipid Transfer And Protein
Localization Domain
Length = 237
Score = 28.9 bits (63), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 31/106 (29%), Positives = 44/106 (41%), Gaps = 4/106 (3%)
Query: 212 RSVWDFCFYRGCVVEHLDGHTDIIHKQLYSDWLPWGMKXXXXXXXXXXXXXXXGTYVILY 271
R +WD F + VVE LD T+I L S + G ++
Sbjct: 98 RHLWDEDFVQWKVVETLDRQTEIYQYVLNS--MAPHPSRDFVVLRTWKTDLPKGMCTLVS 155
Query: 272 HSVFHKKCPRQKGSVRACLKSGGYVITPMNHGKKSVVKHMLAIDWK 317
SV H++ + G VRA + Y+I P G KS + H+ ID K
Sbjct: 156 LSVEHEEA-QLLGGVRAVVMDSQYLIEPCGSG-KSRLTHICRIDLK 199
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 0.134 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,375,008
Number of Sequences: 62578
Number of extensions: 951858
Number of successful extensions: 2000
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1997
Number of HSP's gapped (non-prelim): 16
length of query: 730
length of database: 14,973,337
effective HSP length: 106
effective length of query: 624
effective length of database: 8,340,069
effective search space: 5204203056
effective search space used: 5204203056
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: 55 (25.8 bits)