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= 045016
(204 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1OLM|A Chain A, Supernatant Protein Factor In Complex With
Rrr-Alpha-Tocopherylquinone: A Link Between Oxidized
Vitamin E And Cholesterol Biosynthesis
pdb|1OLM|C Chain C, Supernatant Protein Factor In Complex With
Rrr-Alpha-Tocopherylquinone: A Link Between Oxidized
Vitamin E And Cholesterol Biosynthesis
Length = 403
Score = 79.3 bits (194), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 61/211 (28%), Positives = 103/211 (48%), Gaps = 23/211 (10%)
Query: 4 RFLRARDLDIEKASAMLLKYLSWRRDFVPNGLIS---ESEIQNHLAKNILNMQGFDKKGR 60
R+LRAR D++K+ AML K++ +R+ + +IS IQ +L+ M G+D G
Sbjct: 40 RWLRARSFDLQKSEAMLRKHVEFRKQKDIDNIISWQPPEVIQQYLSGG---MCGYDLDGC 96
Query: 61 PI------------LVAFASRHKPSDGTLEDFKRFVVYCLDKICAKMPKGHEKFVYIGDL 108
P+ L+ AS+ + + + + C + K+ + E I D
Sbjct: 97 PVWYDIIGPLDAKGLLFSASKQDLLRTKMRECELLLQECAHQT-TKLGRKVETITIIYDC 155
Query: 109 QGWGYSC---SDIRAYLACLSILQDCFPERLGKLYIVHAPKLFMTVWKVVYPFIDDNTKK 165
+G G + AY L + ++ +PE L +L++V APKLF + ++ PF+ ++T+K
Sbjct: 156 EGLGLKHLWKPAVEAYGEFLCMFEENYPETLKRLFVVKAPKLFPVAYNLIKPFLSEDTRK 215
Query: 166 KIVFVENKNLTSTLLDEIDKSQLPDIYGGKL 196
KI+ V N LL I Q+P YGG +
Sbjct: 216 KIM-VLGANWKEVLLKHISPDQVPVEYGGTM 245
>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 = 79.0 bits (193), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 61/211 (28%), Positives = 103/211 (48%), Gaps = 23/211 (10%)
Query: 4 RFLRARDLDIEKASAMLLKYLSWRRDFVPNGLIS---ESEIQNHLAKNILNMQGFDKKGR 60
R+LRAR D++K+ AML K++ +R+ + +IS IQ +L+ M G+D G
Sbjct: 40 RWLRARSFDLQKSEAMLRKHVEFRKQKDIDNIISWQPPEVIQQYLSGG---MCGYDLDGC 96
Query: 61 PI------------LVAFASRHKPSDGTLEDFKRFVVYCLDKICAKMPKGHEKFVYIGDL 108
P+ L+ AS+ + + + + C + K+ + E I D
Sbjct: 97 PVWYDIIGPLDAKGLLFSASKQDLLRTKMRECELLLQECAHQT-TKLGRKVETITIIYDC 155
Query: 109 QGWGYSC---SDIRAYLACLSILQDCFPERLGKLYIVHAPKLFMTVWKVVYPFIDDNTKK 165
+G G + AY L + ++ +PE L +L++V APKLF + ++ PF+ ++T+K
Sbjct: 156 EGLGLKHLWKPAVEAYGEFLCMFEENYPETLKRLFVVKAPKLFPVAYNLIKPFLSEDTRK 215
Query: 166 KIVFVENKNLTSTLLDEIDKSQLPDIYGGKL 196
KI+ V N LL I Q+P YGG +
Sbjct: 216 KIM-VLGANWKEVLLKHISPDQVPVEYGGTM 245
>pdb|3Q8G|A Chain A, Resurrection Of A Functional Phosphatidylinositol Transfer
Protein From A Pseudo-Sec14 Scaffold By Directed
Evolution
Length = 320
Score = 75.9 bits (185), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 60/214 (28%), Positives = 101/214 (47%), Gaps = 24/214 (11%)
Query: 4 RFLRARDLDIEKASAMLLKYLSWRRDFVPNGLIS------ESEIQNHLAKNILNMQGF-- 55
RFLRAR DI + M ++ WR ++ N +I E+E + + + Q +
Sbjct: 66 RFLRARKFDINASVEMFVETERWREEYGANTIIEDYENNKEAEDKERIKLAKMYPQYYHH 125
Query: 56 -DKKGRPILVA------------FASRHKPSDGTLEDFKRFVVYCLDKICAKMPKGHEKF 102
DK GRP+ A + + +++++ F Y + + E
Sbjct: 126 VDKDGRPLYFAELGGINLKKMYKITTEKQMLRNLVKEYELFATYRVPACSRRAGYLIETS 185
Query: 103 VYIGDLQGWGYSCS-DIRAYLACLS-ILQDCFPERLGKLYIVHAPKLFMTVWKVVYPFID 160
+ DL+G S + + +Y+ ++ I Q+ +PER+GK YI+H+P F T++K+V PF+D
Sbjct: 186 CTVLDLKGISLSNAYHVLSYIKDVADISQNYYPERMGKFYIIHSPFGFSTMFKMVKPFLD 245
Query: 161 DNTKKKIVFVENKNLTSTLLDEIDKSQLPDIYGG 194
T KI F+ + LL +I LP YGG
Sbjct: 246 PVTVSKI-FILGSSYKKELLKQIPIENLPVKYGG 278
>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 = 74.7 bits (182), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 59/214 (27%), Positives = 101/214 (47%), Gaps = 24/214 (11%)
Query: 4 RFLRARDLDIEKASAMLLKYLSWRRDFVPNGLIS------ESEIQNHLAKNILNMQGF-- 55
RFLRAR DI + M ++ WR ++ N +I E+E + + + Q +
Sbjct: 66 RFLRARKFDINASVEMFVETERWREEYGANTIIEDYENNKEAEDKERIKLAKMYPQYYHH 125
Query: 56 -DKKGRPI------------LVAFASRHKPSDGTLEDFKRFVVYCLDKICAKMPKGHEKF 102
DK GRP+ + + + +++++ F Y + + E
Sbjct: 126 VDKDGRPLYFEELGGINLKKMYKITTEKQMLRNLVKEYELFATYRVPACSRRAGYLIETS 185
Query: 103 VYIGDLQGWGYSCS-DIRAYLACLS-ILQDCFPERLGKLYIVHAPKLFMTVWKVVYPFID 160
+ DL+G S + + +Y+ ++ I Q+ +PER+GK YI+H+P F T++K+V PF+D
Sbjct: 186 CTVLDLKGISLSNAYHVLSYIKDVADISQNYYPERMGKFYIIHSPFGFSTMFKMVKPFLD 245
Query: 161 DNTKKKIVFVENKNLTSTLLDEIDKSQLPDIYGG 194
T KI F+ + LL +I LP YGG
Sbjct: 246 PVTVSKI-FILGSSYKKELLKQIPIENLPVKYGG 278
>pdb|1AUA|A Chain A, Phosphatidylinositol Transfer Protein Sec14p From
Saccharomyces Cerevisiae
Length = 296
Score = 71.6 bits (174), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 63/211 (29%), Positives = 100/211 (47%), Gaps = 22/211 (10%)
Query: 4 RFLRARDLDIEKASAMLLKYLSWRRDFVPNGLISESEIQNHLAKNILNMQGF---DKKGR 60
RFLRAR D++ A M WR+D+ + ++ + Q + DK GR
Sbjct: 57 RFLRARKFDVQLAKEMFENCEKWRKDYGTDTILQDFHYDEKPLIAKFYPQYYHKTDKDGR 116
Query: 61 PIL---VAFASRHKPSDGTLED---------FKRFVVYCLDKICAKMPKGH--EKFVYIG 106
P+ + + H+ + T E+ ++ V Y L C++ GH E I
Sbjct: 117 PVYFEELGAVNLHEMNKVTSEERMLKNLVWEYESVVQYRL-PACSRA-AGHLVETSCTIM 174
Query: 107 DLQGWGYSCS-DIRAYLACLS-ILQDCFPERLGKLYIVHAPKLFMTVWKVVYPFIDDNTK 164
DL+G S + + +Y+ S I Q+ +PER+GK YI++AP F T +++ PF+D T
Sbjct: 175 DLKGISISSAYSVMSYVREASYISQNYYPERMGKFYIINAPFGFSTAFRLFKPFLDPVTV 234
Query: 165 KKIVFVENKNLTSTLLDEIDKSQLPDIYGGK 195
KI F+ + LL +I LP +GGK
Sbjct: 235 SKI-FILGSSYQKELLKQIPAENLPVKFGGK 264
>pdb|1O6U|A Chain A, The Crystal Structure Of Human Supernatant Protein Factor
pdb|1O6U|C Chain C, The Crystal Structure Of Human Supernatant Protein Factor
pdb|1O6U|E Chain E, The Crystal Structure Of Human Supernatant Protein Factor
Length = 403
Score = 71.2 bits (173), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 59/209 (28%), Positives = 97/209 (46%), Gaps = 23/209 (11%)
Query: 4 RFLRARDLDIEKASAMLLKYLSWRRDFVPNGLIS---ESEIQNHLAKNILNMQGFDKKGR 60
R+LRAR D++K+ A L K++ +R+ + +IS IQ +L+ G+D G
Sbjct: 40 RWLRARSFDLQKSEAXLRKHVEFRKQKDIDNIISWQPPEVIQQYLSGGXC---GYDLDGC 96
Query: 61 PI------------LVAFASRHKPSDGTLEDFKRFVVYCLDKICAKMPKGHEKFVYIGDL 108
P+ L+ AS+ + + + C + K+ + E I D
Sbjct: 97 PVWYDIIGPLDAKGLLFSASKQDLLRTKXRECELLLQECAHQT-TKLGRKVETITIIYDC 155
Query: 109 QGWGYSC---SDIRAYLACLSILQDCFPERLGKLYIVHAPKLFMTVWKVVYPFIDDNTKK 165
+G G + AY L ++ +PE L +L++V APKLF + ++ PF+ ++T+K
Sbjct: 156 EGLGLKHLWKPAVEAYGEFLCXFEENYPETLKRLFVVKAPKLFPVAYNLIKPFLSEDTRK 215
Query: 166 KIVFVENKNLTSTLLDEIDKSQLPDIYGG 194
KI V N LL I Q+P YGG
Sbjct: 216 KIX-VLGANWKEVLLKHISPDQVPVEYGG 243
>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 = 69.3 bits (168), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 56/210 (26%), Positives = 94/210 (44%), Gaps = 27/210 (12%)
Query: 4 RFLRARDLDIEKASAMLLKYLSWRRDFVPNGLISES---------EIQNHLAKNILNMQG 54
R+LRA ++ + L+WRR+F + L E ++N K ++ G
Sbjct: 92 RYLRATKWVLKDCIDRITMTLAWRREFGISHLGEEHGDKITADLVAVENESGKQVI--LG 149
Query: 55 FDKKGRPILVAFASRHKPSDGTLEDFKRFVVYCLDKICAKMPKGHEKFVYIGDLQGW--- 111
++ RPIL R + T + +V+ L+++ MP G + + D + +
Sbjct: 150 YENDARPILYLKPGRQ--NTKTSHRQVQHLVFMLERVIDFMPAGQDSLALLIDFKDYPDV 207
Query: 112 -----GYSCSDIRAYLACLSILQDCFPERLGKLYIVHAPKLFMTVWKVVYPFIDDNTKKK 166
I L ILQ +PERLGK + + P L T K+++PFID T++K
Sbjct: 208 PKVPGNSKIPPIGVGKEVLHILQTHYPERLGKALLTNIPWLAWTFLKLIHPFIDPLTREK 267
Query: 167 IVFVENKNLTSTLLDEIDKSQLPDIYGGKL 196
+VF E + + K++L +YGG L
Sbjct: 268 LVFDE------PFVKYVPKNELDSLYGGDL 291
>pdb|3HY5|A Chain A, Crystal Structure Of Cralbp
Length = 316
Score = 66.2 bits (160), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 53/202 (26%), Positives = 94/202 (46%), Gaps = 13/202 (6%)
Query: 4 RFLRARDLDIEKASAMLLKYLSWRRDF--VPNGLISESEIQNHLAKNILNMQGFDKKGRP 61
RF+RAR ++ +A +L Y+++R + + + L E+ A + DK GR
Sbjct: 97 RFIRARKFNVGRAYELLRGYVNFRLQYPELFDSLSPEAVRCTIEAGYPGVLSSRDKYGRV 156
Query: 62 ILVAFASRHKPSDGTLEDFKRFVVYCLDKICAKMPKGHEKFVYIGDLQGW------GYSC 115
+++ + + T ++ + + L+K+ F I + +G+
Sbjct: 157 VMLFNIENWQSQEITFDEILQAYCFILEKLLENEETQINGFCIIENFKGFTMQQAASLRT 216
Query: 116 SDIRAYLACLSILQDCFPERLGKLYIVHAPKLFMTVWKVVYPFIDDNTKKKIVFVENKNL 175
SD+R + +LQD FP R ++ +H P F T + VV PF+ ++ VFV +L
Sbjct: 217 SDLRK---MVDMLQDSFPARFKAIHFIHQPWYFTTTYNVVKPFLKSKLLER-VFVHGDDL 272
Query: 176 TSTLLDEIDKSQLPDIYGGKLP 197
S EID++ LP +GG LP
Sbjct: 273 -SGFYQEIDENILPSDFGGTLP 293
>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 = 62.8 bits (151), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 52/202 (25%), Positives = 90/202 (44%), Gaps = 17/202 (8%)
Query: 4 RFLRARDLDIEKASAMLLKYLSWRR-------DFVPNGLISESEIQNHLAKNILNMQGFD 56
RFLRARD D++ A +L Y WR D P +I + H ++ D
Sbjct: 54 RFLRARDFDLDLAWRLLKNYYKWRAECPEISADLHPRSIIGLLKAGYHGV-----LRSRD 108
Query: 57 KKGRPILVAFASRHKPSDGTLEDFKRFVVYCLDKICAKMPKGHEKFVYIGDLQGWGYSCS 116
G +L+ + P T D R + + I ++ I DL+GW +S +
Sbjct: 109 PTGSKVLIYRIAHWDPKVFTAYDVFRVSLITSELIVQEVETQRNGIKAIFDLEGWQFSHA 168
Query: 117 -DIRAYLA--CLSILQDCFPERLGKLYIVHAPKLFMTVWKVVYPFIDDNTKKKIVFVENK 173
I +A ++L D FP ++ +++++ P +F V+ ++ PF+ + K++I +
Sbjct: 169 FQITPSVAKKIAAVLTDSFPLKVRGIHLINEPVIFHAVFSMIKPFLTEKIKERI-HMHGN 227
Query: 174 NLTSTLLDEIDKSQLPDIYGGK 195
N +LL LP YGG+
Sbjct: 228 NYKQSLLQHF-PDILPLEYGGE 248
>pdb|1R5L|A Chain A, Crystal Structure Of Human Alpha-tocopherol Transfer
Protein Bound To Its Ligand
Length = 262
Score = 61.6 bits (148), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 52/202 (25%), Positives = 88/202 (43%), Gaps = 17/202 (8%)
Query: 4 RFLRARDLDIEKASAMLLKYLSWRR-------DFVPNGLISESEIQNHLAKNILNMQGFD 56
RFLRARD D++ A +L Y WR D P +I + H ++ D
Sbjct: 38 RFLRARDFDLDLAWRLLKNYYKWRAECPEISADLHPRSIIGLLKAGYHGV-----LRSRD 92
Query: 57 KKGRPILVAFASRHKPSDGTLEDFKRFVVYCLDKICAKMPKGHEKFVYIGDLQGWGYSCS 116
G +L+ + P T D R + + I ++ I DL+GW +S +
Sbjct: 93 PTGSKVLIYRIAHWDPKVFTAYDVFRVSLITSELIVQEVETQRNGIKAIFDLEGWQFSHA 152
Query: 117 -DIRAYLA--CLSILQDCFPERLGKLYIVHAPKLFMTVWKVVYPFIDDNTKKKIVFVENK 173
I +A ++L D FP ++ +++++ P +F V+ + PF+ + K++I
Sbjct: 153 FQITPSVAKKIAAVLTDSFPLKVRGIHLINEPVIFHAVFSXIKPFLTEKIKERI-HXHGN 211
Query: 174 NLTSTLLDEIDKSQLPDIYGGK 195
N +LL LP YGG+
Sbjct: 212 NYKQSLLQHF-PDILPLEYGGE 232
>pdb|3HX3|A Chain A, Crystal Structure Of Cralbp Mutant R234w
Length = 316
Score = 60.5 bits (145), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 52/202 (25%), Positives = 91/202 (45%), Gaps = 13/202 (6%)
Query: 4 RFLRARDLDIEKASAMLLKYLSWRRDF--VPNGLISESEIQNHLAKNILNMQGFDKKGRP 61
RF+RAR ++ +A +L Y+++R + + + L E+ A + DK GR
Sbjct: 97 RFIRARKFNVGRAYELLRGYVNFRLQYPELFDSLSPEAVRCTIEAGYPGVLSSRDKYGRV 156
Query: 62 ILVAFASRHKPSDGTLEDFKRFVVYCLDKICAKMPKGHEKFVYIGDLQGWGYS------C 115
+ + + + T ++ + + L+K+ F I + +G+
Sbjct: 157 VXLFNIENWQSQEITFDEILQAYCFILEKLLENEETQINGFCIIENFKGFTXQQAASLRT 216
Query: 116 SDIRAYLACLSILQDCFPERLGKLYIVHAPKLFMTVWKVVYPFIDDNTKKKIVFVENKNL 175
SD+R + LQD FP ++ +H P F T + VV PF+ ++ VFV +L
Sbjct: 217 SDLRK---XVDXLQDSFPAWFKAIHFIHQPWYFTTTYNVVKPFLKSKLLER-VFVHGDDL 272
Query: 176 TSTLLDEIDKSQLPDIYGGKLP 197
S EID++ LP +GG LP
Sbjct: 273 -SGFYQEIDENILPSDFGGTLP 293
>pdb|3SY2|A Chain A, Crystal Structure Of The Salmonella E3 Ubiquitin Ligase
Sopa In Complex With The Human E2 Ubch7
pdb|3SY2|B Chain B, Crystal Structure Of The Salmonella E3 Ubiquitin Ligase
Sopa In Complex With The Human E2 Ubch7
Length = 621
Score = 27.7 bits (60), Expect = 4.3, Method: Composition-based stats.
Identities = 13/38 (34%), Positives = 18/38 (47%)
Query: 157 PFIDDNTKKKIVFVENKNLTSTLLDEIDKSQLPDIYGG 194
P D T K + NL+ +L+E D S P + GG
Sbjct: 122 PSFIDTTLKNTLIRHKANLSGVILNEPDNSSPPSVSGG 159
>pdb|2QZA|A Chain A, Crystal Structure Of Salmonella Effector Protein Sopa
pdb|2QZA|B Chain B, Crystal Structure Of Salmonella Effector Protein Sopa
Length = 618
Score = 27.7 bits (60), Expect = 4.3, Method: Composition-based stats.
Identities = 13/38 (34%), Positives = 18/38 (47%)
Query: 157 PFIDDNTKKKIVFVENKNLTSTLLDEIDKSQLPDIYGG 194
P D T K + NL+ +L+E D S P + GG
Sbjct: 119 PSFIDTTLKNTLIRHKANLSGVILNEPDNSSPPSVSGG 156
>pdb|2QYU|A Chain A, Crystal Structure Of Salmonella Effector Protein Sopa
Length = 627
Score = 27.7 bits (60), Expect = 4.3, Method: Composition-based stats.
Identities = 13/38 (34%), Positives = 18/38 (47%)
Query: 157 PFIDDNTKKKIVFVENKNLTSTLLDEIDKSQLPDIYGG 194
P D T K + NL+ +L+E D S P + GG
Sbjct: 128 PSFIDTTLKNTLIRHKANLSGVILNEPDNSSPPSVSGG 165
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
0.325 0.143 0.443
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,278,648
Number of Sequences: 62578
Number of extensions: 251959
Number of successful extensions: 844
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 810
Number of HSP's gapped (non-prelim): 15
length of query: 204
length of database: 14,973,337
effective HSP length: 94
effective length of query: 110
effective length of database: 9,091,005
effective search space: 1000010550
effective search space used: 1000010550
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 49 (23.5 bits)