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= 023029
(288 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 37/105 (35%), Positives = 63/105 (60%), Gaps = 5/105 (4%)
Query: 90 LPSASKKHGRYIGTSLKVLDMTGLKLSALNQIKLMTVITTIDDLN---YPEKTETYYIVN 146
+P+ S++ G I TS VLD+ G+ LS N +++ I + D++ YPE+ +YI++
Sbjct: 171 VPACSRRAGYLIETSCTVLDLKGISLS--NAYHVLSYIKDVADISQNYYPERMGKFYIIH 228
Query: 147 APYIFSACWKVVKPLLQERTRRKMQVLQGNGRDELLKIMDYASLP 191
+P+ FS +K+VKP L T K+ +L + + ELLK + +LP
Sbjct: 229 SPFGFSTMFKMVKPFLDPVTVSKIFILGSSYKKELLKQIPIENLP 273
>pdb|3Q8G|A Chain A, Resurrection Of A Functional Phosphatidylinositol Transfer
Protein From A Pseudo-Sec14 Scaffold By Directed
Evolution
Length = 320
Score = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 37/105 (35%), Positives = 63/105 (60%), Gaps = 5/105 (4%)
Query: 90 LPSASKKHGRYIGTSLKVLDMTGLKLSALNQIKLMTVITTIDDLN---YPEKTETYYIVN 146
+P+ S++ G I TS VLD+ G+ LS N +++ I + D++ YPE+ +YI++
Sbjct: 171 VPACSRRAGYLIETSCTVLDLKGISLS--NAYHVLSYIKDVADISQNYYPERMGKFYIIH 228
Query: 147 APYIFSACWKVVKPLLQERTRRKMQVLQGNGRDELLKIMDYASLP 191
+P+ FS +K+VKP L T K+ +L + + ELLK + +LP
Sbjct: 229 SPFGFSTMFKMVKPFLDPVTVSKIFILGSSYKKELLKQIPIENLP 273
>pdb|1AUA|A Chain A, Phosphatidylinositol Transfer Protein Sec14p From
Saccharomyces Cerevisiae
Length = 296
Score = 62.0 bits (149), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 33/103 (32%), Positives = 58/103 (56%), Gaps = 1/103 (0%)
Query: 90 LPSASKKHGRYIGTSLKVLDMTGLKLS-ALNQIKLMTVITTIDDLNYPEKTETYYIVNAP 148
LP+ S+ G + TS ++D+ G+ +S A + + + + I YPE+ +YI+NAP
Sbjct: 156 LPACSRAAGHLVETSCTIMDLKGISISSAYSVMSYVREASYISQNYYPERMGKFYIINAP 215
Query: 149 YIFSACWKVVKPLLQERTRRKMQVLQGNGRDELLKIMDYASLP 191
+ FS +++ KP L T K+ +L + + ELLK + +LP
Sbjct: 216 FGFSTAFRLFKPFLDPVTVSKIFILGSSYQKELLKQIPAENLP 258
>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 = 54.7 bits (130), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 40/152 (26%), Positives = 69/152 (45%), Gaps = 5/152 (3%)
Query: 45 GVSGYSKEGLPVIAVGVGLSTHDKASVNYYVQSHIQMNEYRDRVVLPSAS---KKHGRYI 101
G+ GY +G PV +G + Q ++ ++L + K GR +
Sbjct: 87 GMCGYDLDGCPVWYDIIGPLDAKGLLFSASKQDLLRTKMRECELLLQECAHQTTKLGRKV 146
Query: 102 GTSLKVLDMTGLKLSALNQ--IKLMTVITTIDDLNYPEKTETYYIVNAPYIFSACWKVVK 159
T + D GL L L + ++ + + NYPE + ++V AP +F + ++K
Sbjct: 147 ETITIIYDCEGLGLKHLWKPAVEAYGEFLCMFEENYPETLKRLFVVKAPKLFPVAYNLIK 206
Query: 160 PLLQERTRRKMQVLQGNGRDELLKIMDYASLP 191
P L E TR+K+ VL N ++ LLK + +P
Sbjct: 207 PFLSEDTRKKIMVLGANWKEVLLKHISPDQVP 238
>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 = 54.7 bits (130), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 40/152 (26%), Positives = 69/152 (45%), Gaps = 5/152 (3%)
Query: 45 GVSGYSKEGLPVIAVGVGLSTHDKASVNYYVQSHIQMNEYRDRVVLPSAS---KKHGRYI 101
G+ GY +G PV +G + Q ++ ++L + K GR +
Sbjct: 87 GMCGYDLDGCPVWYDIIGPLDAKGLLFSASKQDLLRTKMRECELLLQECAHQTTKLGRKV 146
Query: 102 GTSLKVLDMTGLKLSALNQ--IKLMTVITTIDDLNYPEKTETYYIVNAPYIFSACWKVVK 159
T + D GL L L + ++ + + NYPE + ++V AP +F + ++K
Sbjct: 147 ETITIIYDCEGLGLKHLWKPAVEAYGEFLCMFEENYPETLKRLFVVKAPKLFPVAYNLIK 206
Query: 160 PLLQERTRRKMQVLQGNGRDELLKIMDYASLP 191
P L E TR+K+ VL N ++ LLK + +P
Sbjct: 207 PFLSEDTRKKIMVLGANWKEVLLKHISPDQVP 238
>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 = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 53/210 (25%), Positives = 90/210 (42%), Gaps = 13/210 (6%)
Query: 45 GVSGYSKEGLPVIAVGVGLSTHDKASVNYYVQSHIQMNEYRDRVVLPSAS---KKHGRYI 101
G GY +G PV +G + Q ++ ++L + K GR +
Sbjct: 87 GXCGYDLDGCPVWYDIIGPLDAKGLLFSASKQDLLRTKXRECELLLQECAHQTTKLGRKV 146
Query: 102 GTSLKVLDMTGLKLSALNQ--IKLMTVITTIDDLNYPEKTETYYIVNAPYIFSACWKVVK 159
T + D GL L L + ++ + NYPE + ++V AP +F + ++K
Sbjct: 147 ETITIIYDCEGLGLKHLWKPAVEAYGEFLCXFEENYPETLKRLFVVKAPKLFPVAYNLIK 206
Query: 160 PLLQERTRRKMQVLQGNGRDELLKIMDYASLPHFCRKEGSGSSRHIGNGTTENCFSLDHA 219
P L E TR+K+ VL N ++ LLK + +P + G + GN ++ +
Sbjct: 207 PFLSEDTRKKIXVLGANWKEVLLKHISPDQVP---VEYGGTXTDPDGNPKCKSKINYGGD 263
Query: 220 FHQRLY--NYIKQQAVLTESVVPIRQGSFH 247
++ Y + +KQQ E V I +GS H
Sbjct: 264 IPRKYYVRDQVKQQ---YEHSVQISRGSSH 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 = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 42/83 (50%), Gaps = 10/83 (12%)
Query: 107 VLDMTGLKLSALNQI------KLMTVITTIDDLNYPEKTETYYIVNAPYIFSACWKVVKP 160
+ D+ G + S QI K+ V+T ++P K +++N P IF A + ++KP
Sbjct: 157 IFDLEGWQFSHAFQITPSVAKKIAAVLTD----SFPLKVRGIHLINEPVIFHAVFSMIKP 212
Query: 161 LLQERTRRKMQVLQGNGRDELLK 183
L E+ + ++ + N + LL+
Sbjct: 213 FLTEKIKERIHMHGNNYKQSLLQ 235
>pdb|1R5L|A Chain A, Crystal Structure Of Human Alpha-tocopherol Transfer
Protein Bound To Its Ligand
Length = 262
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 40/83 (48%), Gaps = 10/83 (12%)
Query: 107 VLDMTGLKLSALNQI------KLMTVITTIDDLNYPEKTETYYIVNAPYIFSACWKVVKP 160
+ D+ G + S QI K+ V+T ++P K +++N P IF A + +KP
Sbjct: 141 IFDLEGWQFSHAFQITPSVAKKIAAVLTD----SFPLKVRGIHLINEPVIFHAVFSXIKP 196
Query: 161 LLQERTRRKMQVLQGNGRDELLK 183
L E+ + ++ N + LL+
Sbjct: 197 FLTEKIKERIHXHGNNYKQSLLQ 219
>pdb|2GB7|A Chain A, Metal-Depleted Ecl18ki In Complex With Uncleaved, Modified
Dna
pdb|2GB7|B Chain B, Metal-Depleted Ecl18ki In Complex With Uncleaved, Modified
Dna
pdb|2GB7|C Chain C, Metal-Depleted Ecl18ki In Complex With Uncleaved, Modified
Dna
pdb|2GB7|D Chain D, Metal-Depleted Ecl18ki In Complex With Uncleaved, Modified
Dna
pdb|2FQZ|A Chain A, Metal-Depleted Ecl18ki In Complex With Uncleaved Dna
pdb|2FQZ|B Chain B, Metal-Depleted Ecl18ki In Complex With Uncleaved Dna
pdb|2FQZ|C Chain C, Metal-Depleted Ecl18ki In Complex With Uncleaved Dna
pdb|2FQZ|D Chain D, Metal-Depleted Ecl18ki In Complex With Uncleaved Dna
Length = 305
Score = 31.2 bits (69), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 27/57 (47%), Gaps = 4/57 (7%)
Query: 126 VITTIDDLNYPEKTETYYIVN-APYIFSA---CWKVVKPLLQERTRRKMQVLQGNGR 178
V T DL Y +K Y++ N + YI + CWK +P +E T R + L R
Sbjct: 28 VYKTFCDLGYDQKNSDYFLNNPSEYIIAMRKNCWKEFEPFEKEFTTRMLSYLIDEER 84
>pdb|1WSR|A Chain A, Crystal Structure Of Human T-Protein Of Glycine Cleavage
System
pdb|1WSR|B Chain B, Crystal Structure Of Human T-Protein Of Glycine Cleavage
System
pdb|1WSV|A Chain A, Crystal Structure Of Human T-Protein Of Glycine Cleavage
System
pdb|1WSV|B Chain B, Crystal Structure Of Human T-Protein Of Glycine Cleavage
System
Length = 375
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 33/62 (53%), Gaps = 9/62 (14%)
Query: 130 IDDLNYPEKTETY-YIVNAPYIFSACWKVVKPLLQERTRRKMQVLQGNGRDELLKIMDYA 188
+DDL +E + Y+V+ + CW+ L+Q++ R LQ GRD L+++D A
Sbjct: 99 LDDLIVTNTSEGHLYVVSN----AGCWEKDLALMQDKVRE----LQNQGRDVGLEVLDNA 150
Query: 189 SL 190
L
Sbjct: 151 LL 152
>pdb|3HY5|A Chain A, Crystal Structure Of Cralbp
Length = 316
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 12/56 (21%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 110 MTGLKLSALNQIKLMTVITTIDDLNYPEKTETYYIVNAPYIFSACWKVVKPLLQER 165
T + ++L L ++ + D ++P + + + ++ P+ F+ + VVKP L+ +
Sbjct: 206 FTMQQAASLRTSDLRKMVDMLQD-SFPARFKAIHFIHQPWYFTTTYNVVKPFLKSK 260
>pdb|2C1W|A Chain A, The Structure Of Xendou: A Splicing Independent Snorna
Processing Endoribonuclease
pdb|2C1W|B Chain B, The Structure Of Xendou: A Splicing Independent Snorna
Processing Endoribonuclease
pdb|2C1W|C Chain C, The Structure Of Xendou: A Splicing Independent Snorna
Processing Endoribonuclease
Length = 292
Score = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 36/68 (52%), Gaps = 12/68 (17%)
Query: 41 SQLVGVSGYSKEGLPVIAVGVGLSTHDKASVNYYVQSHIQMNEYRDRVVLPSASKKHGRY 100
S +GVS + L I V L++ +K S + +++ EY ++V+ +HGRY
Sbjct: 228 SSFIGVSPEFEFALYTI---VFLASQEKMS-----REVVRLEEYELQIVV----NRHGRY 275
Query: 101 IGTSLKVL 108
IGT+ VL
Sbjct: 276 IGTAYPVL 283
>pdb|2DVV|A Chain A, Crystal Structure Of The Second Bromodomain Of The Human
Brd2 Protein
pdb|2E3K|A Chain A, Crystal Structure Of The Human Brd2 Second Bromodomain In
Complexed With The Acetylated Histone H4 Peptide
pdb|2E3K|B Chain B, Crystal Structure Of The Human Brd2 Second Bromodomain In
Complexed With The Acetylated Histone H4 Peptide
pdb|2E3K|C Chain C, Crystal Structure Of The Human Brd2 Second Bromodomain In
Complexed With The Acetylated Histone H4 Peptide
pdb|2E3K|D Chain D, Crystal Structure Of The Human Brd2 Second Bromodomain In
Complexed With The Acetylated Histone H4 Peptide
Length = 112
Score = 28.5 bits (62), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 22/89 (24%), Positives = 41/89 (46%), Gaps = 7/89 (7%)
Query: 77 SHIQMNEYRDRVVLPSASKKHGRYIGTSLKVLDMTGLKLSALNQI-----KLMTVITTID 131
SH++ ++ + ++ SKKH Y K +D + L L + I L TV ++
Sbjct: 2 SHMEQLKHCNGILKELLSKKHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKME 61
Query: 132 DLNYPEKTETYYIVNAPYIFSACWKVVKP 160
+ +Y + E + + +FS C+K P
Sbjct: 62 NRDYRDAQE--FAADVRLMFSNCYKYNPP 88
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
0.317 0.135 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,592,725
Number of Sequences: 62578
Number of extensions: 356894
Number of successful extensions: 843
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 830
Number of HSP's gapped (non-prelim): 19
length of query: 288
length of database: 14,973,337
effective HSP length: 98
effective length of query: 190
effective length of database: 8,840,693
effective search space: 1679731670
effective search space used: 1679731670
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)