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= 006989
(622 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1AUA|A Chain A, Phosphatidylinositol Transfer Protein Sec14p From
Saccharomyces Cerevisiae
Length = 296
Score = 201 bits (512), Expect = 8e-52, Method: Compositional matrix adjust.
Identities = 100/235 (42%), Positives = 146/235 (62%), Gaps = 2/235 (0%)
Query: 109 LLRFLKARKFDIAKATQMWADMIQWRKDFGTDTILEDFEFSEVNEVLQYYPQGYHGMDKE 168
LLRFL+ARKFD+ A +M+ + +WRKD+GTDTIL+DF + E + ++YPQ YH DK+
Sbjct: 55 LLRFLRARKFDVQLAKEMFENCEKWRKDYGTDTILQDFHYDEKPLIAKFYPQYYHKTDKD 114
Query: 169 GRPVYIERLGKVDPNKLTQVTTMDRYLRYHVQEFEKCFAIKFPACSIAAKRHIDSSTTIL 228
GRPVY E LG V+ +++ +VT+ +R L+ V E+E + PACS AA +++S TI+
Sbjct: 115 GRPVYFEELGAVNLHEMNKVTSEERMLKNLVWEYESVVQYRLPACSRAAGHLVETSCTIM 174
Query: 229 DVQGVGFKSLTKSARELIMQVQKIDSDNYPETLCRMFIINAGQGFKLLWNSVRRFLDPKT 288
D++G+ S S + + I + YPE + + +IINA GF + + FLDP T
Sbjct: 175 DLKGISISS-AYSVMSYVREASYISQNYYPERMGKFYIINAPFGFSTAFRLFKPFLDPVT 233
Query: 289 TSKIHVLGNKYQSKLLEIIDASELPEFLGGSCNCAD-QGGCMRSDKGPWKDPNIL 342
SKI +LG+ YQ +LL+ I A LP GG + +GG SD GPW+DP +
Sbjct: 234 VSKIFILGSSYQKELLKQIPAENLPVKFGGKSEVDESKGGLYLSDIGPWRDPKYI 288
>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 = 173 bits (439), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 101/270 (37%), Positives = 159/270 (58%), Gaps = 18/270 (6%)
Query: 81 EELHAVDAFRRVLISEELLPARHDHYHMLLRFLKARKFDIAKATQMWADMIQWRKDFGTD 140
E+ A+ FR +L+ + D LLRFL+ARKFDI + +M+ + +WR+++G +
Sbjct: 38 EQEEALLQFRSILLEKNYKERLDDS--TLLRFLRARKFDINASVEMFVETERWREEYGAN 95
Query: 141 TILEDFEFSEVNE------VLQYYPQGYHGMDKEGRPVYIERLGKVDPNKLTQVTTMDRY 194
TI+ED+E ++ E + + YPQ YH +DK+GRP+Y E LG ++ K+ ++TT +
Sbjct: 96 TIIEDYENNKEAEDKERIKLAKMYPQYYHHVDKDGRPLYFEELGGINLKKMYKITTEKQM 155
Query: 195 LRYHVQEFEKCFAIKFPACSIAAKRHIDSSTTILDVQGVGFKSLTKSAREL--IMQVQKI 252
LR V+E+E + PACS A I++S T+LD++G+ SL+ + L I V I
Sbjct: 156 LRNLVKEYELFATYRVPACSRRAGYLIETSCTVLDLKGI---SLSNAYHVLSYIKDVADI 212
Query: 253 DSDNYPETLCRMFIINAGQGFKLLWNSVRRFLDPKTTSKIHVLGNKYQSKLLEIIDASEL 312
+ YPE + + +II++ GF ++ V+ FLDP T SKI +LG+ Y+ +LL+ I L
Sbjct: 213 SQNYYPERMGKFYIIHSPFGFSTMFKMVKPFLDPVTVSKIFILGSSYKKELLKQIPIENL 272
Query: 313 PEFLGGSC---NCADQGGCMRSDKGPWKDP 339
P GG+ N D+ SD GPW+DP
Sbjct: 273 PVKYGGTSVLHNPNDK--FYYSDIGPWRDP 300
>pdb|3Q8G|A Chain A, Resurrection Of A Functional Phosphatidylinositol Transfer
Protein From A Pseudo-Sec14 Scaffold By Directed
Evolution
Length = 320
Score = 171 bits (432), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 100/270 (37%), Positives = 158/270 (58%), Gaps = 18/270 (6%)
Query: 81 EELHAVDAFRRVLISEELLPARHDHYHMLLRFLKARKFDIAKATQMWADMIQWRKDFGTD 140
E+ A+ FR +L+ + D LLRFL+ARKFDI + +M+ + +WR+++G +
Sbjct: 38 EQEEALLQFRSILLEKNYKERLDDS--TLLRFLRARKFDINASVEMFVETERWREEYGAN 95
Query: 141 TILEDFEFSEVNE------VLQYYPQGYHGMDKEGRPVYIERLGKVDPNKLTQVTTMDRY 194
TI+ED+E ++ E + + YPQ YH +DK+GRP+Y LG ++ K+ ++TT +
Sbjct: 96 TIIEDYENNKEAEDKERIKLAKMYPQYYHHVDKDGRPLYFAELGGINLKKMYKITTEKQM 155
Query: 195 LRYHVQEFEKCFAIKFPACSIAAKRHIDSSTTILDVQGVGFKSLTKSAREL--IMQVQKI 252
LR V+E+E + PACS A I++S T+LD++G+ SL+ + L I V I
Sbjct: 156 LRNLVKEYELFATYRVPACSRRAGYLIETSCTVLDLKGI---SLSNAYHVLSYIKDVADI 212
Query: 253 DSDNYPETLCRMFIINAGQGFKLLWNSVRRFLDPKTTSKIHVLGNKYQSKLLEIIDASEL 312
+ YPE + + +II++ GF ++ V+ FLDP T SKI +LG+ Y+ +LL+ I L
Sbjct: 213 SQNYYPERMGKFYIIHSPFGFSTMFKMVKPFLDPVTVSKIFILGSSYKKELLKQIPIENL 272
Query: 313 PEFLGGSC---NCADQGGCMRSDKGPWKDP 339
P GG+ N D+ SD GPW+DP
Sbjct: 273 PVKYGGTSVLHNPNDK--FYYSDIGPWRDP 300
>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 = 102 bits (253), Expect = 9e-22, Method: Compositional matrix adjust.
Identities = 72/229 (31%), Positives = 117/229 (51%), Gaps = 12/229 (5%)
Query: 99 LPARHDHYHMLLRFLKARKFDIAKATQMWADMIQWRKDFGTDTILEDFEFSEVNEVLQYY 158
LP D++ LLR+L+AR FD+ K+ M +++RK D I+ ++ EV + QY
Sbjct: 30 LPNPDDYF--LLRWLRARSFDLQKSEAMLRKHVEFRKQKDIDNII-SWQPPEV--IQQYL 84
Query: 159 PQGYHGMDKEGRPVYIERLGKVDPNKLTQVTTMDRYLRYHVQEFEKCFAIKFPAC---SI 215
G G D +G PV+ + +G +D L + LR ++E E + C +
Sbjct: 85 SGGMCGYDLDGCPVWYDIIGPLDAKGLLFSASKQDLLRTKMRECE----LLLQECAHQTT 140
Query: 216 AAKRHIDSSTTILDVQGVGFKSLTKSARELIMQVQKIDSDNYPETLCRMFIINAGQGFKL 275
R +++ T I D +G+G K L K A E + + +NYPETL R+F++ A + F +
Sbjct: 141 KLGRKVETITIIYDCEGLGLKHLWKPAVEAYGEFLCMFEENYPETLKRLFVVKAPKLFPV 200
Query: 276 LWNSVRRFLDPKTTSKIHVLGNKYQSKLLEIIDASELPEFLGGSCNCAD 324
+N ++ FL T KI VLG ++ LL+ I ++P GG+ D
Sbjct: 201 AYNLIKPFLSEDTRKKIMVLGANWKEVLLKHISPDQVPVEYGGTMTDPD 249
>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 = 102 bits (253), Expect = 9e-22, Method: Compositional matrix adjust.
Identities = 72/229 (31%), Positives = 117/229 (51%), Gaps = 12/229 (5%)
Query: 99 LPARHDHYHMLLRFLKARKFDIAKATQMWADMIQWRKDFGTDTILEDFEFSEVNEVLQYY 158
LP D++ LLR+L+AR FD+ K+ M +++RK D I+ ++ EV + QY
Sbjct: 30 LPNPDDYF--LLRWLRARSFDLQKSEAMLRKHVEFRKQKDIDNII-SWQPPEV--IQQYL 84
Query: 159 PQGYHGMDKEGRPVYIERLGKVDPNKLTQVTTMDRYLRYHVQEFEKCFAIKFPAC---SI 215
G G D +G PV+ + +G +D L + LR ++E E + C +
Sbjct: 85 SGGMCGYDLDGCPVWYDIIGPLDAKGLLFSASKQDLLRTKMRECE----LLLQECAHQTT 140
Query: 216 AAKRHIDSSTTILDVQGVGFKSLTKSARELIMQVQKIDSDNYPETLCRMFIINAGQGFKL 275
R +++ T I D +G+G K L K A E + + +NYPETL R+F++ A + F +
Sbjct: 141 KLGRKVETITIIYDCEGLGLKHLWKPAVEAYGEFLCMFEENYPETLKRLFVVKAPKLFPV 200
Query: 276 LWNSVRRFLDPKTTSKIHVLGNKYQSKLLEIIDASELPEFLGGSCNCAD 324
+N ++ FL T KI VLG ++ LL+ I ++P GG+ D
Sbjct: 201 AYNLIKPFLSEDTRKKIMVLGANWKEVLLKHISPDQVPVEYGGTMTDPD 249
>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 = 97.8 bits (242), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 70/224 (31%), Positives = 113/224 (50%), Gaps = 12/224 (5%)
Query: 99 LPARHDHYHMLLRFLKARKFDIAKATQMWADMIQWRKDFGTDTILEDFEFSEVNEVLQYY 158
LP D++ LLR+L+AR FD+ K+ +++RK D I+ ++ EV + QY
Sbjct: 30 LPNPDDYF--LLRWLRARSFDLQKSEAXLRKHVEFRKQKDIDNII-SWQPPEV--IQQYL 84
Query: 159 PQGYHGMDKEGRPVYIERLGKVDPNKLTQVTTMDRYLRYHVQEFEKCFAIKFPAC---SI 215
G G D +G PV+ + +G +D L + LR +E E + C +
Sbjct: 85 SGGXCGYDLDGCPVWYDIIGPLDAKGLLFSASKQDLLRTKXRECE----LLLQECAHQTT 140
Query: 216 AAKRHIDSSTTILDVQGVGFKSLTKSARELIMQVQKIDSDNYPETLCRMFIINAGQGFKL 275
R +++ T I D +G+G K L K A E + +NYPETL R+F++ A + F +
Sbjct: 141 KLGRKVETITIIYDCEGLGLKHLWKPAVEAYGEFLCXFEENYPETLKRLFVVKAPKLFPV 200
Query: 276 LWNSVRRFLDPKTTSKIHVLGNKYQSKLLEIIDASELPEFLGGS 319
+N ++ FL T KI VLG ++ LL+ I ++P GG+
Sbjct: 201 AYNLIKPFLSEDTRKKIXVLGANWKEVLLKHISPDQVPVEYGGT 244
>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 = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 49/202 (24%), Positives = 89/202 (44%), Gaps = 21/202 (10%)
Query: 108 MLLRFLKARKFDIAKATQMWADMIQWRKDFGTDTILEDFEFSEVNEVLQYYPQGYHGM-- 165
LLRFL+AR FD+ A ++ + +WR + I D + +L+ GYHG+
Sbjct: 51 FLLRFLRARDFDLDLAWRLLKNYYKWRAE--CPEISADLHPRSIIGLLK---AGYHGVLR 105
Query: 166 --DKEGRPVYIERLGKVDPNKLTQVTTMDRYLRYHVQEFEKCFAIKFPACSIAAKRHIDS 223
D G V I R+ DP T Y + V ++ + +R +
Sbjct: 106 SRDPTGSKVLIYRIAHWDPKVFTA------YDVFRVSLITSELIVQ----EVETQR--NG 153
Query: 224 STTILDVQGVGFKSLTKSARELIMQVQKIDSDNYPETLCRMFIINAGQGFKLLWNSVRRF 283
I D++G F + + ++ + +D++P + + +IN F +++ ++ F
Sbjct: 154 IKAIFDLEGWQFSHAFQITPSVAKKIAAVLTDSFPLKVRGIHLINEPVIFHAVFSMIKPF 213
Query: 284 LDPKTTSKIHVLGNKYQSKLLE 305
L K +IH+ GN Y+ LL+
Sbjct: 214 LTEKIKERIHMHGNNYKQSLLQ 235
>pdb|1R5L|A Chain A, Crystal Structure Of Human Alpha-tocopherol Transfer
Protein Bound To Its Ligand
Length = 262
Score = 59.3 bits (142), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 52/205 (25%), Positives = 87/205 (42%), Gaps = 27/205 (13%)
Query: 108 MLLRFLKARKFDIAKATQMWADMIQWRKDFGTDTILEDFEFSEVNEVLQYYPQGYHGM-- 165
LLRFL+AR FD+ A ++ + +WR + I D + +L+ GYHG+
Sbjct: 35 FLLRFLRARDFDLDLAWRLLKNYYKWRAE--CPEISADLHPRSIIGLLK---AGYHGVLR 89
Query: 166 --DKEGRPVYIERLGKVDPNKLTQVTTMDRYL---RYHVQEFEKCFAIKFPACSIAAKRH 220
D G V I R+ DP T L VQE E +R
Sbjct: 90 SRDPTGSKVLIYRIAHWDPKVFTAYDVFRVSLITSELIVQEVE-------------TQR- 135
Query: 221 IDSSTTILDVQGVGFKSLTKSARELIMQVQKIDSDNYPETLCRMFIINAGQGFKLLWNSV 280
+ I D++G F + + ++ + +D++P + + +IN F +++ +
Sbjct: 136 -NGIKAIFDLEGWQFSHAFQITPSVAKKIAAVLTDSFPLKVRGIHLINEPVIFHAVFSXI 194
Query: 281 RRFLDPKTTSKIHVLGNKYQSKLLE 305
+ FL K +IH GN Y+ LL+
Sbjct: 195 KPFLTEKIKERIHXHGNNYKQSLLQ 219
>pdb|3HY5|A Chain A, Crystal Structure Of Cralbp
Length = 316
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 48/229 (20%), Positives = 90/229 (39%), Gaps = 16/229 (6%)
Query: 108 MLLRFLKARKFDIAKATQMWADMIQWRKDFGTDTILEDFEFSEVNEVLQY-YPQGYHGMD 166
LRF++ARKF++ +A ++ + +R + + + V ++ YP D
Sbjct: 94 FFLRFIRARKFNVGRAYELLRGYVNFRLQY--PELFDSLSPEAVRCTIEAGYPGVLSSRD 151
Query: 167 KEGRPVYIERLGKVDPNKLTQVTTMDRYLRYHVQEFEKCFAIKFPACSIAAKRHIDSSTT 226
K GR V + + N +Q T D L+ + CF ++ + I+
Sbjct: 152 KYGRVVMLFNI----ENWQSQEITFDEILQAY------CFILE--KLLENEETQINGFCI 199
Query: 227 ILDVQGVGFKSLTKSARELIMQVQKIDSDNYPETLCRMFIINAGQGFKLLWNSVRRFLDP 286
I + +G + + ++ + D++P + I+ F +N V+ FL
Sbjct: 200 IENFKGFTMQQAASLRTSDLRKMVDMLQDSFPARFKAIHFIHQPWYFTTTYNVVKPFLKS 259
Query: 287 KTTSKIHVLGNKYQSKLLEIIDASELPEFLGGSCNCADQGGCMRSDKGP 335
K ++ V G+ S + ID + LP GG+ D GP
Sbjct: 260 KLLERVFVHGDDL-SGFYQEIDENILPSDFGGTLPKYDGKAVAEQLFGP 307
>pdb|3HX3|A Chain A, Crystal Structure Of Cralbp Mutant R234w
Length = 316
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 51/233 (21%), Positives = 92/233 (39%), Gaps = 24/233 (10%)
Query: 108 MLLRFLKARKFDIAKATQMWADMIQWRKDFGTDTILEDFEFSEVNEVLQY-YPQGYHGMD 166
LRF++ARKF++ +A ++ + +R + + + V ++ YP D
Sbjct: 94 FFLRFIRARKFNVGRAYELLRGYVNFRLQY--PELFDSLSPEAVRCTIEAGYPGVLSSRD 151
Query: 167 KEGRPVYIERLGKVDPNKLTQVTTMDRYLRYHVQEFEKCFAIKFPACSIAAKRHIDSSTT 226
K GR V + + N +Q T D L+ + CF ++ + I+
Sbjct: 152 KYGRVVXLFNI----ENWQSQEITFDEILQAY------CFILE--KLLENEETQINGFCI 199
Query: 227 ILDVQGVGFKSL----TKSARELIMQVQKIDSDNYPETLCRMFIINAGQGFKLLWNSVRR 282
I + +G + T R+ + +Q D++P + I+ F +N V+
Sbjct: 200 IENFKGFTXQQAASLRTSDLRKXVDXLQ----DSFPAWFKAIHFIHQPWYFTTTYNVVKP 255
Query: 283 FLDPKTTSKIHVLGNKYQSKLLEIIDASELPEFLGGSCNCADQGGCMRSDKGP 335
FL K ++ V G+ S + ID + LP GG+ D GP
Sbjct: 256 FLKSKLLERVFVHGDDL-SGFYQEIDENILPSDFGGTLPKYDGKAVAEQLFGP 307
>pdb|1YBY|A Chain A, Conserved Hypothetical Protein Cth-95 From Clostridium
Thermocellum
pdb|1YBY|B Chain B, Conserved Hypothetical Protein Cth-95 From Clostridium
Thermocellum
Length = 215
Score = 29.6 bits (65), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 38/88 (43%), Gaps = 9/88 (10%)
Query: 348 GEALR---SRQIVTVLNNEGRVIARDKPRFLMIKSGDTSAAESGSEVEDIASP---EPTG 401
G+AL+ +IV VL+++G V + P F+ ++ DT G P E
Sbjct: 129 GDALKFVKENEIVKVLSHKGNVFGIEPPNFVELEVTDTEPGFKGDTATGATKPAIVETGA 188
Query: 402 SYLVPRLTPVCEEPRVDVMATCAGEFSE 429
S VP + R+D T GE+ E
Sbjct: 189 SIKVPLFVNKGDIIRID---TRTGEYXE 213
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
0.320 0.136 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,790,535
Number of Sequences: 62578
Number of extensions: 742007
Number of successful extensions: 1635
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1609
Number of HSP's gapped (non-prelim): 14
length of query: 622
length of database: 14,973,337
effective HSP length: 105
effective length of query: 517
effective length of database: 8,402,647
effective search space: 4344168499
effective search space used: 4344168499
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)