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= 047851
(120 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 = 53.5 bits (127), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 50/87 (57%), Gaps = 3/87 (3%)
Query: 2 IRDIIYIFQNHYPERLAISILYNPPKFFESIWKAIRYFLDPRTTQKLKFIYPNNKESLAF 61
I+D+ I QN+YPER+ + + P F +++K ++ FLDP T K+ + + K+ L
Sbjct: 206 IKDVADISQNYYPERMGKFYIIHSPFGFSTMFKMVKPFLDPVTVSKIFILGSSYKKELL- 264
Query: 62 MKSSFDVENLPTEFGGKATLQYDHEEF 88
+ENLP ++GG + L +++F
Sbjct: 265 --KQIPIENLPVKYGGTSVLHNPNDKF 289
>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 = 53.5 bits (127), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 50/87 (57%), Gaps = 3/87 (3%)
Query: 2 IRDIIYIFQNHYPERLAISILYNPPKFFESIWKAIRYFLDPRTTQKLKFIYPNNKESLAF 61
I+D+ I QN+YPER+ + + P F +++K ++ FLDP T K+ + + K+ L
Sbjct: 206 IKDVADISQNYYPERMGKFYIIHSPFGFSTMFKMVKPFLDPVTVSKIFILGSSYKKELL- 264
Query: 62 MKSSFDVENLPTEFGGKATLQYDHEEF 88
+ENLP ++GG + L +++F
Sbjct: 265 --KQIPIENLPVKYGGTSVLHNPNDKF 289
>pdb|1AUA|A Chain A, Phosphatidylinositol Transfer Protein Sec14p From
Saccharomyces Cerevisiae
Length = 296
Score = 50.4 bits (119), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 44/80 (55%), Gaps = 3/80 (3%)
Query: 2 IRDIIYIFQNHYPERLAISILYNPPKFFESIWKAIRYFLDPRTTQKLKFIYPNNKESLAF 61
+R+ YI QN+YPER+ + N P F + ++ + FLDP T K+ + + ++ L
Sbjct: 191 VREASYISQNYYPERMGKFYIINAPFGFSTAFRLFKPFLDPVTVSKIFILGSSYQKELL- 249
Query: 62 MKSSFDVENLPTEFGGKATL 81
ENLP +FGGK+ +
Sbjct: 250 --KQIPAENLPVKFGGKSEV 267
>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 = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 33/99 (33%), Positives = 52/99 (52%), Gaps = 12/99 (12%)
Query: 3 RDIIYIFQNHYPERLAISILYNPPKFFESIWKAIRYFLDPRTTQKLKFIYPNNKESLAFM 62
+++++I Q HYPERL ++L N P + K I F+DP T +KL F P F+
Sbjct: 223 KEVLHILQTHYPERLGKALLTNIPWLAWTFLKLIHPFIDPLTREKLVFDEP-------FV 275
Query: 63 KSSFDVENLPTEFGGKATLQYDHEEFSRLMAQDDVKTAR 101
K E L + +GG +Y+H+ + + V+TAR
Sbjct: 276 KYVPKNE-LDSLYGGDLKFKYNHDVYWPAL----VETAR 309
>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 = 37.4 bits (85), Expect = 0.002, Method: Composition-based stats.
Identities = 22/77 (28%), Positives = 36/77 (46%), Gaps = 3/77 (3%)
Query: 4 DIIYIFQNHYPERLAISILYNPPKFFESIWKAIRYFLDPRTTQKLKFIYPNNKESLAFMK 63
+ + +F+ +YPE L + PK F + I+ FL T +K+ + N KE L
Sbjct: 173 EFLCMFEENYPETLKRLFVVKAPKLFPVAYNLIKPFLSEDTRKKIMVLGANWKEVLL--- 229
Query: 64 SSFDVENLPTEFGGKAT 80
+ +P E+GG T
Sbjct: 230 KHISPDQVPVEYGGTMT 246
>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 = 37.4 bits (85), Expect = 0.002, Method: Composition-based stats.
Identities = 22/77 (28%), Positives = 36/77 (46%), Gaps = 3/77 (3%)
Query: 4 DIIYIFQNHYPERLAISILYNPPKFFESIWKAIRYFLDPRTTQKLKFIYPNNKESLAFMK 63
+ + +F+ +YPE L + PK F + I+ FL T +K+ + N KE L
Sbjct: 173 EFLCMFEENYPETLKRLFVVKAPKLFPVAYNLIKPFLSEDTRKKIMVLGANWKEVLL--- 229
Query: 64 SSFDVENLPTEFGGKAT 80
+ +P E+GG T
Sbjct: 230 KHISPDQVPVEYGGTMT 246
>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 = 37.0 bits (84), Expect = 0.003, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 33/72 (45%), Gaps = 3/72 (4%)
Query: 9 FQNHYPERLAISILYNPPKFFESIWKAIRYFLDPRTTQKLKFIYPNNKESLAFMKSSFDV 68
F+ +YPE L + PK F + I+ FL T +K+ + N KE L
Sbjct: 178 FEENYPETLKRLFVVKAPKLFPVAYNLIKPFLSEDTRKKIXVLGANWKEVLL---KHISP 234
Query: 69 ENLPTEFGGKAT 80
+ +P E+GG T
Sbjct: 235 DQVPVEYGGTXT 246
>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 = 29.3 bits (64), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 39/76 (51%), Gaps = 4/76 (5%)
Query: 3 RDIIYIFQNHYPERLAISILYNPPKFFESIWKAIRYFLDPRTTQKLKFIYPNNKESLAFM 62
+ I + + +P ++ L N P F +++ I+ FL + +++ N K+SL +
Sbjct: 177 KKIAAVLTDSFPLKVRGIHLINEPVIFHAVFSMIKPFLTEKIKERIHMHGNNYKQSL--L 234
Query: 63 KSSFDVENLPTEFGGK 78
+ D+ LP E+GG+
Sbjct: 235 QHFPDI--LPLEYGGE 248
>pdb|1R5L|A Chain A, Crystal Structure Of Human Alpha-tocopherol Transfer
Protein Bound To Its Ligand
Length = 262
Score = 28.5 bits (62), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 39/76 (51%), Gaps = 4/76 (5%)
Query: 3 RDIIYIFQNHYPERLAISILYNPPKFFESIWKAIRYFLDPRTTQKLKFIYPNNKESLAFM 62
+ I + + +P ++ L N P F +++ I+ FL + +++ N K+SL +
Sbjct: 161 KKIAAVLTDSFPLKVRGIHLINEPVIFHAVFSXIKPFLTEKIKERIHXHGNNYKQSL--L 218
Query: 63 KSSFDVENLPTEFGGK 78
+ D+ LP E+GG+
Sbjct: 219 QHFPDI--LPLEYGGE 232
>pdb|2DT8|A Chain A, Fatty Acid Binding Of A Degv Family Protein From Thermus
Thermophilus
Length = 280
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 24/48 (50%)
Query: 27 KFFESIWKAIRYFLDPRTTQKLKFIYPNNKESLAFMKSSFDVENLPTE 74
K E I KA R + + R + F+Y +++++A ++ LP E
Sbjct: 206 KAREEILKAFRAWAEGRKRIRAYFLYSGDEDAVAALRQEVLASGLPVE 253
>pdb|2WN4|A Chain A, Structural Basis For Substrate Recognition In The
Enzymatic Component Of Adp-Ribosyltransferase Toxin Cdta
From Clostridium Difficile
pdb|2WN5|A Chain A, Structural Basis For Substrate Recognition In The
Enzymatic Component Of Adp-Ribosyltransferase Toxin Cdta
From Clostridium Difficile
pdb|2WN7|A Chain A, Structural Basis For Substrate Recognition In The
Enzymatic Component Of Adp-Ribosyltransferase Toxin Cdta
From Clostridium Difficile
pdb|2WN8|A Chain A, Structural Basis For Substrate Recognition In The
Enzymatic Component Of Adp-Ribosyltransferase Toxin Cdta
From Clostridium Difficile
Length = 463
Score = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 33/84 (39%), Gaps = 1/84 (1%)
Query: 22 LYNPPKFFESIWKAIRYFLDPRTTQKLKFIYPNNKESLAFMKSSFDVENLP-TEFGGKAT 80
LY P K E + + PR T L + NN +L S ++ + GK
Sbjct: 191 LYEPGKGDEKPTPLLMHLKLPRNTGMLPYTNTNNVSTLIEQGYSIKIDKIVRIVIDGKHY 250
Query: 81 LQYDHEEFSRLMAQDDVKTARFWG 104
++ + S L +DDV WG
Sbjct: 251 IKAEASVVSSLDFKDDVSKGDSWG 274
>pdb|2V8J|A Chain A, Structure Of A Family 2 Pectate Lyase In Complex With A
Transition Metal
Length = 535
Score = 26.2 bits (56), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 8/20 (40%), Positives = 17/20 (85%)
Query: 40 LDPRTTQKLKFIYPNNKESL 59
+DPRT Q+L++I+P+ + ++
Sbjct: 33 VDPRTGQQLEWIFPDGRRAV 52
>pdb|2V8I|A Chain A, Structure Of A Family 2 Pectate Lyase In A Native Form
pdb|2V8K|A Chain A, Structure Of A Family 2 Pectate Lyase In Complex With
Trigalacturonic Acid
Length = 543
Score = 26.2 bits (56), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 8/20 (40%), Positives = 17/20 (85%)
Query: 40 LDPRTTQKLKFIYPNNKESL 59
+DPRT Q+L++I+P+ + ++
Sbjct: 34 VDPRTGQQLEWIFPDGRRAV 53
>pdb|3KXW|A Chain A, The Crystal Structure Of Fatty Acid Amp Ligase From
Legionella Pneumophila
pdb|3LNV|A Chain A, The Crystal Structure Of Fatty Acyl-Adenylate Ligase From
L. Pneumophila In Complex With Acyl Adenylate And
Pyrophosphate
Length = 590
Score = 26.2 bits (56), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 19/25 (76%), Gaps = 1/25 (4%)
Query: 2 IRDIIYIF-QNHYPERLAISILYNP 25
I+D+I I+ +NHYP+ + S+ ++P
Sbjct: 457 IKDLIIIYGKNHYPQDIEFSLXHSP 481
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
0.323 0.140 0.427
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,795,340
Number of Sequences: 62578
Number of extensions: 136938
Number of successful extensions: 323
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 310
Number of HSP's gapped (non-prelim): 15
length of query: 120
length of database: 14,973,337
effective HSP length: 82
effective length of query: 38
effective length of database: 9,841,941
effective search space: 373993758
effective search space used: 373993758
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)