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= 029647
(190 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3Q8G|A Chain A, Resurrection Of A Functional Phosphatidylinositol Transfer
Protein From A Pseudo-Sec14 Scaffold By Directed
Evolution
Length = 320
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 40/182 (21%), Positives = 83/182 (45%), Gaps = 25/182 (13%)
Query: 2 ILWFLKDRKFSIEESLAKLTKAIKWRQEFRVSELNEDSVRG----------IAESGKAYV 51
+L FL+ RKF I S+ + +WR+E+ + + ED +A+ Y
Sbjct: 64 LLRFLRARKFDINASVEMFVETERWREEYGANTIIEDYENNKEAEDKERIKLAKMYPQYY 123
Query: 52 HDFLDINERPVLIV-VASKHLPAVHDPVEDEKLCVFFIEK----ALSKLPPGK------- 99
H +D + RP+ + +L ++ ++++ +++ A ++P
Sbjct: 124 H-HVDKDGRPLYFAELGGINLKKMYKITTEKQMLRNLVKEYELFATYRVPACSRRAGYLI 182
Query: 100 EQILGIIDLRGFGTENAD--LKFLTFLFDVFYYYHPKRLGEVLFVEAPFVFKPFWQLTKP 157
E ++DL+G NA L ++ + D+ Y+P+R+G+ + +PF F +++ KP
Sbjct: 183 ETSCTVLDLKGISLSNAYHVLSYIKDVADISQNYYPERMGKFYIIHSPFGFSTMFKMVKP 242
Query: 158 LL 159
L
Sbjct: 243 FL 244
>pdb|4FMM|A Chain A, Dimeric Sec14 Family Homolog 3 From Saccharomyces
Cerevisiae Presents Some Novel Features Of Structure
That Lead To A Surprising "dimer- Monomer" State Change
Induced By Substrate Binding
pdb|4FMM|B Chain B, Dimeric Sec14 Family Homolog 3 From Saccharomyces
Cerevisiae Presents Some Novel Features Of Structure
That Lead To A Surprising "dimer- Monomer" State Change
Induced By Substrate Binding
Length = 360
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 37/174 (21%), Positives = 82/174 (47%), Gaps = 21/174 (12%)
Query: 3 LWFLKDRKFSIEESLAKLTKAIKWRQEFRVSELNEDSVRGIA--------ESGKAYVHDF 54
L +L+ K+ +++ + ++T + WR+EF +S L E+ I ESGK + +
Sbjct: 91 LRYLRATKWVLKDCIDRITMTLAWRREFGISHLGEEHGDKITADLVAVENESGKQVILGY 150
Query: 55 LDINERPVL-IVVASKHLPAVHDPVEDEKLCVFFIEKALSKLPPGKEQILGIIDLRGF-- 111
+ + RP+L + ++ H V+ VF +E+ + +P G++ + +ID + +
Sbjct: 151 -ENDARPILYLKPGRQNTKTSHRQVQH---LVFMLERVIDFMPAGQDSLALLIDFKDYPD 206
Query: 112 ------GTENADLKFLTFLFDVFYYYHPKRLGEVLFVEAPFVFKPFWQLTKPLL 159
++ + + + ++P+RLG+ L P++ F +L P +
Sbjct: 207 VPKVPGNSKIPPIGVGKEVLHILQTHYPERLGKALLTNIPWLAWTFLKLIHPFI 260
>pdb|3B74|A Chain A, Crystal Structure Of Yeast Sec14 Homolog Sfh1 In Complex
With Phosphatidylethanolamine
pdb|3B7N|A Chain A, Crystal Structure Of Yeast Sec14 Homolog Sfh1 In Complex
With Phosphatidylinositol
pdb|3B7Q|A Chain A, Crystal Structure Of Yeast Sec14 Homolog Sfh1 In Complex
With Phosphatidylcholine
pdb|3B7Q|B Chain B, Crystal Structure Of Yeast Sec14 Homolog Sfh1 In Complex
With Phosphatidylcholine
pdb|3B7Z|A Chain A, Crystal Structure Of Yeast Sec14 Homolog Sfh1 In Complex
With Phosphatidylcholine Or Phosphatidylinositol
Length = 320
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 40/182 (21%), Positives = 83/182 (45%), Gaps = 25/182 (13%)
Query: 2 ILWFLKDRKFSIEESLAKLTKAIKWRQEFRVSELNEDSVRG----------IAESGKAYV 51
+L FL+ RKF I S+ + +WR+E+ + + ED +A+ Y
Sbjct: 64 LLRFLRARKFDINASVEMFVETERWREEYGANTIIEDYENNKEAEDKERIKLAKMYPQYY 123
Query: 52 HDFLDINERPVLIV-VASKHLPAVHDPVEDEKLCVFFIEK----ALSKLPPGK------- 99
H +D + RP+ + +L ++ ++++ +++ A ++P
Sbjct: 124 H-HVDKDGRPLYFEELGGINLKKMYKITTEKQMLRNLVKEYELFATYRVPACSRRAGYLI 182
Query: 100 EQILGIIDLRGFGTENAD--LKFLTFLFDVFYYYHPKRLGEVLFVEAPFVFKPFWQLTKP 157
E ++DL+G NA L ++ + D+ Y+P+R+G+ + +PF F +++ KP
Sbjct: 183 ETSCTVLDLKGISLSNAYHVLSYIKDVADISQNYYPERMGKFYIIHSPFGFSTMFKMVKP 242
Query: 158 LL 159
L
Sbjct: 243 FL 244
>pdb|1AUA|A Chain A, Phosphatidylinositol Transfer Protein Sec14p From
Saccharomyces Cerevisiae
Length = 296
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 42/177 (23%), Positives = 81/177 (45%), Gaps = 21/177 (11%)
Query: 2 ILWFLKDRKFSIEESLAKLTKAIKWRQEFR----VSELNEDSVRGIAESGKAYVHDFLDI 57
+L FL+ RKF ++ + KWR+++ + + + D IA+ Y H D
Sbjct: 55 LLRFLRARKFDVQLAKEMFENCEKWRKDYGTDTILQDFHYDEKPLIAKFYPQYYHK-TDK 113
Query: 58 NERPVLIV-VASKHLPAVHDPVEDEKLC---VFFIEKALSKLPPGKEQILG--------I 105
+ RPV + + +L ++ +E++ V+ E + P + G I
Sbjct: 114 DGRPVYFEELGAVNLHEMNKVTSEERMLKNLVWEYESVVQYRLPACSRAAGHLVETSCTI 173
Query: 106 IDLRGFGTENADLKFLTFLFDVFY---YYHPKRLGEVLFVEAPFVFKPFWQLTKPLL 159
+DL+G +A ++++ + Y Y+P+R+G+ + APF F ++L KP L
Sbjct: 174 MDLKGISISSA-YSVMSYVREASYISQNYYPERMGKFYIINAPFGFSTAFRLFKPFL 229
>pdb|1OIP|A Chain A, The Molecular Basis Of Vitamin E Retention: Structure Of
Human Alpha-tocopherol Transfer Protein
pdb|1OIZ|A Chain A, The Molecular Basis Of Vitamin E Retention: Structure Of
Human Alpha-Tocopherol Transfer Protein
pdb|1OIZ|B Chain B, The Molecular Basis Of Vitamin E Retention: Structure Of
Human Alpha-Tocopherol Transfer Protein
Length = 278
Score = 32.7 bits (73), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 38/167 (22%), Positives = 68/167 (40%), Gaps = 13/167 (7%)
Query: 2 ILWFLKDRKFSIEESLAKLTKAIKWRQEFR--VSELNEDSVRGIAESGKAYVHDFLDINE 59
+L FL+ R F ++ + L KWR E ++L+ S+ G+ ++G V D
Sbjct: 52 LLRFLRARDFDLDLAWRLLKNYYKWRAECPEISADLHPRSIIGLLKAGYHGVLRSRDPTG 111
Query: 60 RPVLIVVASKHLPAVHDPVEDEKLCVFFIEKALSKLPPGKEQILGIIDLRGFG------- 112
VLI + P V + ++ + E + ++ + I I DL G+
Sbjct: 112 SKVLIYRIAHWDPKVFTAYDVFRVSLITSELIVQEVETQRNGIKAIFDLEGWQFSHAFQI 171
Query: 113 TENADLKFLTFLFDVFYYYHPKRLGEVLFVEAPFVFKPFWQLTKPLL 159
T + K L D F P ++ + + P +F + + KP L
Sbjct: 172 TPSVAKKIAAVLTDSF----PLKVRGIHLINEPVIFHAVFSMIKPFL 214
>pdb|1R5L|A Chain A, Crystal Structure Of Human Alpha-tocopherol Transfer
Protein Bound To Its Ligand
Length = 262
Score = 32.0 bits (71), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 38/167 (22%), Positives = 67/167 (40%), Gaps = 13/167 (7%)
Query: 2 ILWFLKDRKFSIEESLAKLTKAIKWRQEFR--VSELNEDSVRGIAESGKAYVHDFLDINE 59
+L FL+ R F ++ + L KWR E ++L+ S+ G+ ++G V D
Sbjct: 36 LLRFLRARDFDLDLAWRLLKNYYKWRAECPEISADLHPRSIIGLLKAGYHGVLRSRDPTG 95
Query: 60 RPVLIVVASKHLPAVHDPVEDEKLCVFFIEKALSKLPPGKEQILGIIDLRGFG------- 112
VLI + P V + ++ + E + ++ + I I DL G+
Sbjct: 96 SKVLIYRIAHWDPKVFTAYDVFRVSLITSELIVQEVETQRNGIKAIFDLEGWQFSHAFQI 155
Query: 113 TENADLKFLTFLFDVFYYYHPKRLGEVLFVEAPFVFKPFWQLTKPLL 159
T + K L D F P ++ + + P +F + KP L
Sbjct: 156 TPSVAKKIAAVLTDSF----PLKVRGIHLINEPVIFHAVFSXIKPFL 198
>pdb|3HY5|A Chain A, Crystal Structure Of Cralbp
Length = 316
Score = 31.6 bits (70), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 41/168 (24%), Positives = 67/168 (39%), Gaps = 13/168 (7%)
Query: 3 LWFLKDRKFSIEESLAKLTKAIKWRQEF--RVSELNEDSVRGIAESGKAYVHDFLDINER 60
L F++ RKF++ + L + +R ++ L+ ++VR E+G V D R
Sbjct: 96 LRFIRARKFNVGRAYELLRGYVNFRLQYPELFDSLSPEAVRCTIEAGYPGVLSSRDKYGR 155
Query: 61 PVLIVVASKHLPAVHDPVEDEKLCVFFIEKALSKLPPGKEQILGIIDLRGFGTENA---- 116
V++ E + F +EK L I + +GF + A
Sbjct: 156 VVMLFNIENWQSQEITFDEILQAYCFILEKLLENEETQINGFCIIENFKGFTMQQAASLR 215
Query: 117 --DL-KFLTFLFDVFYYYHPKRLGEVLFVEAPFVFKPFWQLTKPLLKS 161
DL K + L D F P R + F+ P+ F + + KP LKS
Sbjct: 216 TSDLRKMVDMLQDSF----PARFKAIHFIHQPWYFTTTYNVVKPFLKS 259
>pdb|3OKT|A Chain A, Mouse Plexin A2, Extracellular Domains 1-4
pdb|3OKY|A Chain A, Plexin A2 In Complex With Semaphorin 6a
pdb|4GZA|A Chain A, Complex Of Mouse Plexin A2 - Semaphorin 3a - Neuropilin-1
pdb|4GZA|B Chain B, Complex Of Mouse Plexin A2 - Semaphorin 3a - Neuropilin-1
pdb|4GZA|C Chain C, Complex Of Mouse Plexin A2 - Semaphorin 3a - Neuropilin-1
pdb|4GZA|D Chain D, Complex Of Mouse Plexin A2 - Semaphorin 3a - Neuropilin-1
pdb|4GZA|E Chain E, Complex Of Mouse Plexin A2 - Semaphorin 3a - Neuropilin-1
pdb|4GZA|F Chain F, Complex Of Mouse Plexin A2 - Semaphorin 3a - Neuropilin-1
Length = 681
Score = 28.1 bits (61), Expect = 2.9, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 22/46 (47%)
Query: 43 IAESGKAYVHDFLDINERPVLIVVASKHLPAVHDPVEDEKLCVFFI 88
+A+ G+A F ++ VL + SK H P +D LC F I
Sbjct: 284 LAKPGEALAQAFNISSDEDVLFAIFSKGQKQYHHPPDDSALCAFPI 329
>pdb|3AL8|B Chain B, Plexin A2 SEMAPHORIN 6A COMPLEX
pdb|3AL9|A Chain A, Mouse Plexin A2 Extracellular Domain
pdb|3AL9|B Chain B, Mouse Plexin A2 Extracellular Domain
Length = 539
Score = 27.3 bits (59), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 22/46 (47%)
Query: 43 IAESGKAYVHDFLDINERPVLIVVASKHLPAVHDPVEDEKLCVFFI 88
+A+ G+A F ++ VL + SK H P +D LC F I
Sbjct: 285 LAKPGEALAQAFNISSDEDVLFAIFSKGQKQYHHPPDDSALCAFPI 330
>pdb|2WMF|A Chain A, Crystal Structure Of The Catalytic Module Of A Family 98
Glycoside Hydrolase From Streptococcus Pneumoniae Tigr4
( Sp4gh98) In Its Native Form
Length = 581
Score = 27.3 bits (59), Expect = 5.5, Method: Composition-based stats.
Identities = 18/82 (21%), Positives = 32/82 (39%), Gaps = 27/82 (32%)
Query: 14 EESLAKLTKAIKWRQEFRVSELN--------EDSVRGIAESGKAYVHDFLDINERPVLIV 65
+E + TKA+ W E R+S LN D + +G+ ++
Sbjct: 328 KEEVVNRTKAVFWNGEGRISSLNGFYQGLYSNDETMPLYNNGRYHI-------------- 373
Query: 66 VASKHLPAVHDPVEDEKLCVFF 87
LP +H+ ++ EK+ F
Sbjct: 374 -----LPVIHEKIDKEKISSIF 390
>pdb|2WMH|A Chain A, Crystal Structure Of The Catalytic Module Of A Family 98
Glycoside Hydrolase From Streptococcus Pneumoniae Tigr4
In Complex With The H-Disaccharide Blood Group Antigen
Length = 581
Score = 27.3 bits (59), Expect = 5.6, Method: Composition-based stats.
Identities = 18/82 (21%), Positives = 32/82 (39%), Gaps = 27/82 (32%)
Query: 14 EESLAKLTKAIKWRQEFRVSELN--------EDSVRGIAESGKAYVHDFLDINERPVLIV 65
+E + TKA+ W E R+S LN D + +G+ ++
Sbjct: 328 KEEVVNRTKAVFWNGEGRISSLNGFYQGLYSNDETMPLYNNGRYHI-------------- 373
Query: 66 VASKHLPAVHDPVEDEKLCVFF 87
LP +H+ ++ EK+ F
Sbjct: 374 -----LPVIHEKIDKEKISSIF 390
>pdb|2WMG|A Chain A, Crystal Structure Of The Catalytic Module Of A Family 98
Glycoside Hydrolase From Streptococcus Pneumoniae Tigr4
( Sp4gh98) In Complex With The Lewisy Pentasaccharide
Blood Group Antigen
Length = 581
Score = 27.3 bits (59), Expect = 5.6, Method: Composition-based stats.
Identities = 18/82 (21%), Positives = 32/82 (39%), Gaps = 27/82 (32%)
Query: 14 EESLAKLTKAIKWRQEFRVSELN--------EDSVRGIAESGKAYVHDFLDINERPVLIV 65
+E + TKA+ W E R+S LN D + +G+ ++
Sbjct: 328 KEEVVNRTKAVFWNGEGRISSLNGFYQGLYSNDETMPLYNNGRYHI-------------- 373
Query: 66 VASKHLPAVHDPVEDEKLCVFF 87
LP +H+ ++ EK+ F
Sbjct: 374 -----LPVIHEKIDKEKISSIF 390
>pdb|1OLM|E Chain E, Supernatant Protein Factor In Complex With
Rrr-Alpha-Tocopherylquinone: A Link Between Oxidized
Vitamin E And Cholesterol Biosynthesis
Length = 403
Score = 26.6 bits (57), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 48/215 (22%), Positives = 83/215 (38%), Gaps = 31/215 (14%)
Query: 2 ILWFLKDRKFSIEESLAKLTKAIKWRQEFRVSELNE------------DSVRGIAESGKA 49
+L +L+ R F +++S A L K +++R++ + + + G G
Sbjct: 38 LLRWLRARSFDLQKSEAMLRKHVEFRKQKDIDNIISWQPPEVIQQYLSGGMCGYDLDGCP 97
Query: 50 YVHDFLDINERPVLIVVASKHLPAVHDPVEDEKLCVFFIEKALSKLPPGKEQILGIIDLR 109
+D + + L+ ASK + + + +L + +KL E I I D
Sbjct: 98 VWYDIIGPLDAKGLLFSASKQ-DLLRTKMRECELLLQECAHQTTKLGRKVETITIIYDCE 156
Query: 110 GFGTEN----ADLKFLTFLFDVFYYYHPKRLGEVLFVEAPFVFKPFWQLTKPLLKSYAS- 164
G G ++ A + FL +F +P+ L + V+AP +F + L KP L
Sbjct: 157 GLGLKHLWKPAVEAYGEFLC-MFEENYPETLKRLFVVKAPKLFPVAYNLIKPFLSEDTRK 215
Query: 165 ------------LAKFCSVETVRKEYFTEATVPDN 187
L K S + V EY T PD
Sbjct: 216 KIMVLGANWKEVLLKHISPDQVPVEYGGTMTDPDG 250
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
0.324 0.141 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,630,586
Number of Sequences: 62578
Number of extensions: 227492
Number of successful extensions: 489
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 475
Number of HSP's gapped (non-prelim): 16
length of query: 190
length of database: 14,973,337
effective HSP length: 93
effective length of query: 97
effective length of database: 9,153,583
effective search space: 887897551
effective search space used: 887897551
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 48 (23.1 bits)