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= 026657
(235 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 = 82.8 bits (203), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 71/229 (31%), Positives = 105/229 (45%), Gaps = 23/229 (10%)
Query: 17 DPTLMRFLIARSMDSEKAARMFVQWQKWRATMVPNGFIADSEVPDELEPRK--------- 67
D TL+RFL AR D + MFV+ ++WR N I D E E E ++
Sbjct: 61 DSTLLRFLRARKFDINASVEMFVETERWREEYGANTIIEDYENNKEAEDKERIKLAKMYP 120
Query: 68 IFLQGLTKDGLPLLV-----IQVRKHFPSKDPLQF-----KKFVVHLLDKTIASSFRGSE 117
+ + KDG PL I ++K + Q K++ + + A S R
Sbjct: 121 QYYHHVDKDGRPLYFAELGGINLKKMYKITTEKQMLRNLVKEYELFATYRVPACSRRAGY 180
Query: 118 VGNEKLTAILDLRQISYKNV-DVRGMITGFQFL-QAYYPERLAKLYILHMPGFFVSVWRM 175
+ T +LDL+ IS N V I + Q YYPER+ K YI+H P F ++++M
Sbjct: 181 LIETSCT-VLDLKGISLSNAYHVLSYIKDVADISQNYYPERMGKFYIIHSPFGFSTMFKM 239
Query: 176 VSRCLERATLEKIVIVTNEEEMKNFVKDIGEEVLPEEYGGRAKLVAVQD 224
V L+ T+ KI I+ + + K +K I E LP +YGG + L D
Sbjct: 240 VKPFLDPVTVSKIFILGSSYK-KELLKQIPIENLPVKYGGTSVLHNPND 287
>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 = 82.4 bits (202), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 71/229 (31%), Positives = 105/229 (45%), Gaps = 23/229 (10%)
Query: 17 DPTLMRFLIARSMDSEKAARMFVQWQKWRATMVPNGFIADSEVPDELEPRK--------- 67
D TL+RFL AR D + MFV+ ++WR N I D E E E ++
Sbjct: 61 DSTLLRFLRARKFDINASVEMFVETERWREEYGANTIIEDYENNKEAEDKERIKLAKMYP 120
Query: 68 IFLQGLTKDGLPLLV-----IQVRKHFPSKDPLQF-----KKFVVHLLDKTIASSFRGSE 117
+ + KDG PL I ++K + Q K++ + + A S R
Sbjct: 121 QYYHHVDKDGRPLYFEELGGINLKKMYKITTEKQMLRNLVKEYELFATYRVPACSRRAGY 180
Query: 118 VGNEKLTAILDLRQISYKNV-DVRGMITGFQFL-QAYYPERLAKLYILHMPGFFVSVWRM 175
+ T +LDL+ IS N V I + Q YYPER+ K YI+H P F ++++M
Sbjct: 181 LIETSCT-VLDLKGISLSNAYHVLSYIKDVADISQNYYPERMGKFYIIHSPFGFSTMFKM 239
Query: 176 VSRCLERATLEKIVIVTNEEEMKNFVKDIGEEVLPEEYGGRAKLVAVQD 224
V L+ T+ KI I+ + + K +K I E LP +YGG + L D
Sbjct: 240 VKPFLDPVTVSKIFILGSSYK-KELLKQIPIENLPVKYGGTSVLHNPND 287
>pdb|1AUA|A Chain A, Phosphatidylinositol Transfer Protein Sec14p From
Saccharomyces Cerevisiae
Length = 296
Score = 65.5 bits (158), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 60/217 (27%), Positives = 101/217 (46%), Gaps = 15/217 (6%)
Query: 17 DPTLMRFLIARSMDSEKAARMFVQWQKWRATMVPNGFIADSEVPDELEPRKIFLQ---GL 73
D TL+RFL AR D + A MF +KWR + + D ++ K + Q
Sbjct: 52 DSTLLRFLRARKFDVQLAKEMFENCEKWRKDYGTDTILQDFHYDEKPLIAKFYPQYYHKT 111
Query: 74 TKDGLPLLVIQ---VRKHFPSK---DPLQFKKFVVH---LLDKTIASSFRGSEVGNEKLT 124
KDG P+ + V H +K + K V ++ + + R + E
Sbjct: 112 DKDGRPVYFEELGAVNLHEMNKVTSEERMLKNLVWEYESVVQYRLPACSRAAGHLVETSC 171
Query: 125 AILDLRQISYKNV-DVRGMITGFQFL-QAYYPERLAKLYILHMPGFFVSVWRMVSRCLER 182
I+DL+ IS + V + ++ Q YYPER+ K YI++ P F + +R+ L+
Sbjct: 172 TIMDLKGISISSAYSVMSYVREASYISQNYYPERMGKFYIINAPFGFSTAFRLFKPFLDP 231
Query: 183 ATLEKIVIVTNEEEMKNFVKDIGEEVLPEEYGGRAKL 219
T+ KI I+ + + K +K I E LP ++GG++++
Sbjct: 232 VTVSKIFILGSSYQ-KELLKQIPAENLPVKFGGKSEV 267
>pdb|3HY5|A Chain A, Crystal Structure Of Cralbp
Length = 316
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 46/83 (55%), Gaps = 5/83 (6%)
Query: 133 SYKNVDVRGMITGFQFLQAYYPERLAKLYILHMPGFFVSVWRMVSRCLERATLEKIVIVT 192
S + D+R M+ LQ +P R ++ +H P +F + + +V L+ LE++ +
Sbjct: 213 SLRTSDLRKMV---DMLQDSFPARFKAIHFIHQPWYFTTTYNVVKPFLKSKLLERVFV-- 267
Query: 193 NEEEMKNFVKDIGEEVLPEEYGG 215
+ +++ F ++I E +LP ++GG
Sbjct: 268 HGDDLSGFYQEIDENILPSDFGG 290
>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 = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 51/220 (23%), Positives = 93/220 (42%), Gaps = 42/220 (19%)
Query: 17 DPTLMRFLIARSMDSEKAARMFVQWQKWRATMVPNGFIADSEVPDELEPRKIFLQGLTKD 76
D L+RFL AR D + A R+ + KWRA E+ +L PR I GL K
Sbjct: 49 DSFLLRFLRARDFDLDLAWRLLKNYYKWRAEC--------PEISADLHPRSII--GLLKA 98
Query: 77 GLPLLVIQVRKHFPSKDPLQFKKFVVHL--LDKTIASSFRGSEVGNEKLTAILDLRQISY 134
G S+DP K + + D + +++ V +T+ L ++++
Sbjct: 99 G-------YHGVLRSRDPTGSKVLIYRIAHWDPKVFTAYDVFRVS--LITSELIVQEVET 149
Query: 135 KNVDVRGM--ITGFQFLQAY-----------------YPERLAKLYILHMPGFFVSVWRM 175
+ ++ + + G+QF A+ +P ++ +++++ P F +V+ M
Sbjct: 150 QRNGIKAIFDLEGWQFSHAFQITPSVAKKIAAVLTDSFPLKVRGIHLINEPVIFHAVFSM 209
Query: 176 VSRCLERATLEKIVIVTNEEEMKNFVKDIGEEVLPEEYGG 215
+ L E+I + N K + ++LP EYGG
Sbjct: 210 IKPFLTEKIKERIHMHGN--NYKQSLLQHFPDILPLEYGG 247
>pdb|3HX3|A Chain A, Crystal Structure Of Cralbp Mutant R234w
Length = 316
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/83 (24%), Positives = 44/83 (53%), Gaps = 5/83 (6%)
Query: 133 SYKNVDVRGMITGFQFLQAYYPERLAKLYILHMPGFFVSVWRMVSRCLERATLEKIVIVT 192
S + D+R + LQ +P ++ +H P +F + + +V L+ LE++ +
Sbjct: 213 SLRTSDLRKXVDX---LQDSFPAWFKAIHFIHQPWYFTTTYNVVKPFLKSKLLERVFV-- 267
Query: 193 NEEEMKNFVKDIGEEVLPEEYGG 215
+ +++ F ++I E +LP ++GG
Sbjct: 268 HGDDLSGFYQEIDENILPSDFGG 290
>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 = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 55/231 (23%), Positives = 97/231 (41%), Gaps = 22/231 (9%)
Query: 1 MRNSVQKLGSSTGKYGDPTLMRFLIARSMD---SEKAARMFVQWQK---------WRATM 48
R +VQ + + D L+R+L ARS D SE R V+++K W+
Sbjct: 19 FRENVQDVLPALPNPDDYFLLRWLRARSFDLQKSEAXLRKHVEFRKQKDIDNIISWQPPE 78
Query: 49 VPNGFIADSEVPDELEPRKIFLQGLTKDGLPLLVIQVRKHFPSKDPLQFKKFVVHLLDKT 108
V +++ +L+ ++ + L+ K +D L+ K LL +
Sbjct: 79 VIQQYLSGGXCGYDLDGCPVWYDIIGPLDAKGLLFSASK----QDLLRTKXRECELLLQE 134
Query: 109 IASSFRGSEVGNEKLTAILDLRQISYKNVDVRGMITGFQFLQAY---YPERLAKLYILHM 165
A E +T I D + K++ + +FL + YPE L +L+++
Sbjct: 135 CAHQTTKLGRKVETITIIYDCEGLGLKHLWKPAVEAYGEFLCXFEENYPETLKRLFVVKA 194
Query: 166 PGFFVSVWRMVSRCLERATLEKI-VIVTNEEEMKNFVKDIGEEVLPEEYGG 215
P F + ++ L T +KI V+ N +E+ +K I + +P EYGG
Sbjct: 195 PKLFPVAYNLIKPFLSEDTRKKIXVLGANWKEV--LLKHISPDQVPVEYGG 243
>pdb|1R5L|A Chain A, Crystal Structure Of Human Alpha-tocopherol Transfer
Protein Bound To Its Ligand
Length = 262
Score = 40.4 bits (93), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 51/219 (23%), Positives = 92/219 (42%), Gaps = 40/219 (18%)
Query: 17 DPTLMRFLIARSMDSEKAARMFVQWQKWRATMVPNGFIADSEVPDELEPRKIFLQGLTKD 76
D L+RFL AR D + A R+ + KWRA E+ +L PR I GL K
Sbjct: 33 DSFLLRFLRARDFDLDLAWRLLKNYYKWRAEC--------PEISADLHPRSII--GLLKA 82
Query: 77 GLPLLVIQVRKHFPSKDPLQFKKFVVHLLDKTIASSFRGSEVGNEKL-TAILDLRQISYK 135
G ++ S+DP K +++ + F +V L T+ L ++++ +
Sbjct: 83 GYHGVL-------RSRDPTG-SKVLIYRIAHWDPKVFTAYDVFRVSLITSELIVQEVETQ 134
Query: 136 NVDVRGM--ITGFQFLQAY-----------------YPERLAKLYILHMPGFFVSVWRMV 176
++ + + G+QF A+ +P ++ +++++ P F +V+ +
Sbjct: 135 RNGIKAIFDLEGWQFSHAFQITPSVAKKIAAVLTDSFPLKVRGIHLINEPVIFHAVFSXI 194
Query: 177 SRCLERATLEKIVIVTNEEEMKNFVKDIGEEVLPEEYGG 215
L E+I N K + ++LP EYGG
Sbjct: 195 KPFLTEKIKERIHXHGN--NYKQSLLQHFPDILPLEYGG 231
>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 = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 42/90 (46%), Gaps = 6/90 (6%)
Query: 146 FQFLQAYYPERLAKLYILHMPGFFVSVWRMVSRCLERATLEKIVIVTNEEEMKNFVKDIG 205
LQ +YPERL K + ++P + +++ ++ T EK+V + FVK +
Sbjct: 226 LHILQTHYPERLGKALLTNIPWLAWTFLKLIHPFIDPLTREKLVF------DEPFVKYVP 279
Query: 206 EEVLPEEYGGRAKLVAVQDVTLPQLEDASR 235
+ L YGG K DV P L + +R
Sbjct: 280 KNELDSLYGGDLKFKYNHDVYWPALVETAR 309
>pdb|2ZM5|A Chain A, Crystal Structure Of Trna Modification Enzyme Miaa In The
Complex With Trna(Phe)
pdb|2ZM5|B Chain B, Crystal Structure Of Trna Modification Enzyme Miaa In The
Complex With Trna(Phe)
Length = 316
Score = 31.2 bits (69), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 36/87 (41%), Gaps = 22/87 (25%)
Query: 65 PRKIFLQGLTKDGLPLLVIQVRKHFPSKDPLQFKKFVVHLLDKTIASSFRGSEVGNEKLT 124
P+ IFL G T G L I++RK P V L+ A ++G ++G K
Sbjct: 10 PKAIFLXGPTASGKTALAIELRKILP-----------VELISVDSALIYKGXDIGTAKPN 58
Query: 125 A---------ILDLRQIS--YKNVDVR 140
A +LD+R S Y D R
Sbjct: 59 AEELLAAPHRLLDIRDPSQAYSAADFR 85
>pdb|3FOZ|A Chain A, Structure Of E. Coli Isopentenyl-Trna Transferase In
Complex With E. Coli Trna(Phe)
pdb|3FOZ|B Chain B, Structure Of E. Coli Isopentenyl-Trna Transferase In
Complex With E. Coli Trna(Phe)
pdb|2ZXU|A Chain A, Crystal Structure Of Trna Modification Enzyme Miaa In The
Complex With Trna(Phe) And Dmaspp
pdb|2ZXU|B Chain B, Crystal Structure Of Trna Modification Enzyme Miaa In The
Complex With Trna(Phe) And Dmaspp
Length = 316
Score = 30.8 bits (68), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 36/87 (41%), Gaps = 22/87 (25%)
Query: 65 PRKIFLQGLTKDGLPLLVIQVRKHFPSKDPLQFKKFVVHLLDKTIASSFRGSEVGNEKLT 124
P+ IFL G T G L I++RK P V L+ A ++G ++G K
Sbjct: 10 PKAIFLMGPTASGKTALAIELRKILP-----------VELISVDSALIYKGMDIGTAKPN 58
Query: 125 A---------ILDLRQIS--YKNVDVR 140
A +LD+R S Y D R
Sbjct: 59 AEELLAAPHRLLDIRDPSQAYSAADFR 85
>pdb|2O9R|A Chain A, Beta-Glucosidase B Complexed With Thiocellobiose
Length = 452
Score = 26.9 bits (58), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 16/71 (22%), Positives = 34/71 (47%), Gaps = 7/71 (9%)
Query: 143 ITGFQFLQAYYPERLAKLYILHMPGFFVSVWRMVSRCLERATLEKIVIVTNEEEMKNFVK 202
+ G F+Q + ++ PG F+ + +R + R+T + ++ + M+ V
Sbjct: 276 LNGLDFVQP------GDMELIQQPGDFLGI-NYYTRSIIRSTNDASLLQVEQVHMEEPVT 328
Query: 203 DIGEEVLPEEY 213
D+G E+ PE +
Sbjct: 329 DMGWEIHPESF 339
>pdb|2O9P|A Chain A, Beta-Glucosidase B From Paenibacillus Polymyxa
pdb|2O9T|A Chain A, Beta-Glucosidase B From Bacillus Polymyxa Complexed With
Glucose
pdb|2Z1S|A Chain A, Beta-Glucosidase B From Paenibacillus Polymyxa Complexed
With Cellotetraose
Length = 454
Score = 26.9 bits (58), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 16/71 (22%), Positives = 34/71 (47%), Gaps = 7/71 (9%)
Query: 143 ITGFQFLQAYYPERLAKLYILHMPGFFVSVWRMVSRCLERATLEKIVIVTNEEEMKNFVK 202
+ G F+Q + ++ PG F+ + +R + R+T + ++ + M+ V
Sbjct: 278 LNGLDFVQP------GDMELIQQPGDFLGI-NYYTRSIIRSTNDASLLQVEQVHMEEPVT 330
Query: 203 DIGEEVLPEEY 213
D+G E+ PE +
Sbjct: 331 DMGWEIHPESF 341
>pdb|2JIE|A Chain A, Beta-Glucosidase B From Bacillus Polymyxa Complexed With
2- F-Glucose
Length = 454
Score = 26.9 bits (58), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 16/71 (22%), Positives = 34/71 (47%), Gaps = 7/71 (9%)
Query: 143 ITGFQFLQAYYPERLAKLYILHMPGFFVSVWRMVSRCLERATLEKIVIVTNEEEMKNFVK 202
+ G F+Q + ++ PG F+ + +R + R+T + ++ + M+ V
Sbjct: 278 LNGLDFVQP------GDMELIQQPGDFLGI-NYYTRSIIRSTNDASLLQVEQVHMEEPVT 330
Query: 203 DIGEEVLPEEY 213
D+G E+ PE +
Sbjct: 331 DMGWEIHPESF 341
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 0.137 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,900,909
Number of Sequences: 62578
Number of extensions: 272339
Number of successful extensions: 693
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 676
Number of HSP's gapped (non-prelim): 29
length of query: 235
length of database: 14,973,337
effective HSP length: 96
effective length of query: 139
effective length of database: 8,965,849
effective search space: 1246253011
effective search space used: 1246253011
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)