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= 023474
(281 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 = 67.8 bits (164), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 56/203 (27%), Positives = 97/203 (47%), Gaps = 29/203 (14%)
Query: 1 MLVDCLRWRIENDIDNILAKPILPAELYRAVRDSQLVGVSGY--------SKEGLPVIAV 52
M V+ RWR E + I+ E + D + + ++ K+G P+
Sbjct: 81 MFVETERWREEYGANTIIED----YENNKEAEDKERIKLAKMYPQYYHHVDKDGRPLYFA 136
Query: 53 ---GVGLS-----THDKASVNYYVQSHIQMNEYRDRVVLPSASKKHGRYIGTSLKVLDMT 104
G+ L T +K + V+ + YR +P+ S++ G I TS VLD+
Sbjct: 137 ELGGINLKKMYKITTEKQMLRNLVKEYELFATYR----VPACSRRAGYLIETSCTVLDLK 192
Query: 105 GLKLSALNQIKLMTVITTIDDLN---YPEKTETYYIVNAPYIFSACWKVVKPLLQERTRR 161
G+ LS N +++ I + D++ YPE+ +YI+++P+ FS +K+VKP L T
Sbjct: 193 GISLS--NAYHVLSYIKDVADISQNYYPERMGKFYIIHSPFGFSTMFKMVKPFLDPVTVS 250
Query: 162 KMQVLQGNGRDELLKIMDYASLP 184
K+ +L + + ELLK + +LP
Sbjct: 251 KIFILGSSYKKELLKQIPIENLP 273
>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 = 66.6 bits (161), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 56/203 (27%), Positives = 97/203 (47%), Gaps = 29/203 (14%)
Query: 1 MLVDCLRWRIENDIDNILAKPILPAELYRAVRDSQLVGVSGY--------SKEGLPVIAV 52
M V+ RWR E + I+ E + D + + ++ K+G P+
Sbjct: 81 MFVETERWREEYGANTIIED----YENNKEAEDKERIKLAKMYPQYYHHVDKDGRPLYFE 136
Query: 53 ---GVGLS-----THDKASVNYYVQSHIQMNEYRDRVVLPSASKKHGRYIGTSLKVLDMT 104
G+ L T +K + V+ + YR +P+ S++ G I TS VLD+
Sbjct: 137 ELGGINLKKMYKITTEKQMLRNLVKEYELFATYR----VPACSRRAGYLIETSCTVLDLK 192
Query: 105 GLKLSALNQIKLMTVITTIDDLN---YPEKTETYYIVNAPYIFSACWKVVKPLLQERTRR 161
G+ LS N +++ I + D++ YPE+ +YI+++P+ FS +K+VKP L T
Sbjct: 193 GISLS--NAYHVLSYIKDVADISQNYYPERMGKFYIIHSPFGFSTMFKMVKPFLDPVTVS 250
Query: 162 KMQVLQGNGRDELLKIMDYASLP 184
K+ +L + + ELLK + +LP
Sbjct: 251 KIFILGSSYKKELLKQIPIENLP 273
>pdb|1AUA|A Chain A, Phosphatidylinositol Transfer Protein Sec14p From
Saccharomyces Cerevisiae
Length = 296
Score = 66.6 bits (161), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 52/195 (26%), Positives = 94/195 (48%), Gaps = 19/195 (9%)
Query: 1 MLVDCLRWRIENDIDNIL------AKPIL----PAELYRAVRDSQLVGVSGYSKEGLPVI 50
M +C +WR + D IL KP++ P ++ +D + V Y +E V
Sbjct: 72 MFENCEKWRKDYGTDTILQDFHYDEKPLIAKFYPQYYHKTDKDGRPV----YFEELGAVN 127
Query: 51 AVGVGLSTHDKASVNYYVQSHIQMNEYRDRVVLPSASKKHGRYIGTSLKVLDMTGLKLS- 109
+ T ++ + V + + +YR LP+ S+ G + TS ++D+ G+ +S
Sbjct: 128 LHEMNKVTSEERMLKNLVWEYESVVQYR----LPACSRAAGHLVETSCTIMDLKGISISS 183
Query: 110 ALNQIKLMTVITTIDDLNYPEKTETYYIVNAPYIFSACWKVVKPLLQERTRRKMQVLQGN 169
A + + + + I YPE+ +YI+NAP+ FS +++ KP L T K+ +L +
Sbjct: 184 AYSVMSYVREASYISQNYYPERMGKFYIINAPFGFSTAFRLFKPFLDPVTVSKIFILGSS 243
Query: 170 GRDELLKIMDYASLP 184
+ ELLK + +LP
Sbjct: 244 YQKELLKQIPAENLP 258
>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 = 60.5 bits (145), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 63/247 (25%), Positives = 109/247 (44%), Gaps = 18/247 (7%)
Query: 1 MLVDCLRWRIENDIDNILAKPILPAELYRAVRDSQLVGVSGYSKEGLPVIAVGVGLSTHD 60
ML + +R + DIDNI++ P E+ + G+ GY +G PV +G
Sbjct: 55 MLRKHVEFRKQKDIDNIIS--WQPPEVIQQYLSG---GMCGYDLDGCPVWYDIIGPLDAK 109
Query: 61 KASVNYYVQSHIQMNEYRDRVVLPSA---SKKHGRYIGTSLKVLDMTGLKLSALNQ--IK 115
+ Q ++ ++L + K GR + T + D GL L L + ++
Sbjct: 110 GLLFSASKQDLLRTKMRECELLLQECAHQTTKLGRKVETITIIYDCEGLGLKHLWKPAVE 169
Query: 116 LMTVITTIDDLNYPEKTETYYIVNAPYIFSACWKVVKPLLQERTRRKMQVLQGNGRDELL 175
+ + NYPE + ++V AP +F + ++KP L E TR+K+ VL N ++ LL
Sbjct: 170 AYGEFLCMFEENYPETLKRLFVVKAPKLFPVAYNLIKPFLSEDTRKKIMVLGANWKEVLL 229
Query: 176 KIMDYASLPHFCRKEGSGSSRHIGNGTTENCFSLDHAFHQRLY--NYIKQQAVLTESVVP 233
K + +P + G + GN ++ + ++ Y + +KQQ E V
Sbjct: 230 KHISPDQVP---VEYGGTMTDPDGNPKCKSKINYGGDIPRKYYVRDQVKQQ---YEHSVQ 283
Query: 234 IRQGSFH 240
I +GS H
Sbjct: 284 ISRGSSH 290
>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 = 60.5 bits (145), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 63/247 (25%), Positives = 109/247 (44%), Gaps = 18/247 (7%)
Query: 1 MLVDCLRWRIENDIDNILAKPILPAELYRAVRDSQLVGVSGYSKEGLPVIAVGVGLSTHD 60
ML + +R + DIDNI++ P E+ + G+ GY +G PV +G
Sbjct: 55 MLRKHVEFRKQKDIDNIIS--WQPPEVIQQYLSG---GMCGYDLDGCPVWYDIIGPLDAK 109
Query: 61 KASVNYYVQSHIQMNEYRDRVVLPSA---SKKHGRYIGTSLKVLDMTGLKLSALNQ--IK 115
+ Q ++ ++L + K GR + T + D GL L L + ++
Sbjct: 110 GLLFSASKQDLLRTKMRECELLLQECAHQTTKLGRKVETITIIYDCEGLGLKHLWKPAVE 169
Query: 116 LMTVITTIDDLNYPEKTETYYIVNAPYIFSACWKVVKPLLQERTRRKMQVLQGNGRDELL 175
+ + NYPE + ++V AP +F + ++KP L E TR+K+ VL N ++ LL
Sbjct: 170 AYGEFLCMFEENYPETLKRLFVVKAPKLFPVAYNLIKPFLSEDTRKKIMVLGANWKEVLL 229
Query: 176 KIMDYASLPHFCRKEGSGSSRHIGNGTTENCFSLDHAFHQRLY--NYIKQQAVLTESVVP 233
K + +P + G + GN ++ + ++ Y + +KQQ E V
Sbjct: 230 KHISPDQVP---VEYGGTMTDPDGNPKCKSKINYGGDIPRKYYVRDQVKQQ---YEHSVQ 283
Query: 234 IRQGSFH 240
I +GS H
Sbjct: 284 ISRGSSH 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 = 58.5 bits (140), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 61/242 (25%), Positives = 105/242 (43%), Gaps = 18/242 (7%)
Query: 6 LRWRIENDIDNILAKPILPAELYRAVRDSQLVGVSGYSKEGLPVIAVGVGLSTHDKASVN 65
+ +R + DIDNI++ P E+ + G GY +G PV +G +
Sbjct: 60 VEFRKQKDIDNIIS--WQPPEVIQQYLSG---GXCGYDLDGCPVWYDIIGPLDAKGLLFS 114
Query: 66 YYVQSHIQMNEYRDRVVLPSA---SKKHGRYIGTSLKVLDMTGLKLSALNQ--IKLMTVI 120
Q ++ ++L + K GR + T + D GL L L + ++
Sbjct: 115 ASKQDLLRTKXRECELLLQECAHQTTKLGRKVETITIIYDCEGLGLKHLWKPAVEAYGEF 174
Query: 121 TTIDDLNYPEKTETYYIVNAPYIFSACWKVVKPLLQERTRRKMQVLQGNGRDELLKIMDY 180
+ NYPE + ++V AP +F + ++KP L E TR+K+ VL N ++ LLK +
Sbjct: 175 LCXFEENYPETLKRLFVVKAPKLFPVAYNLIKPFLSEDTRKKIXVLGANWKEVLLKHISP 234
Query: 181 ASLPHFCRKEGSGSSRHIGNGTTENCFSLDHAFHQRLY--NYIKQQAVLTESVVPIRQGS 238
+P + G + GN ++ + ++ Y + +KQQ E V I +GS
Sbjct: 235 DQVP---VEYGGTXTDPDGNPKCKSKINYGGDIPRKYYVRDQVKQQ---YEHSVQISRGS 288
Query: 239 FH 240
H
Sbjct: 289 SH 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 = 40.8 bits (94), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 42/83 (50%), Gaps = 10/83 (12%)
Query: 100 VLDMTGLKLSALNQI------KLMTVITTIDDLNYPEKTETYYIVNAPYIFSACWKVVKP 153
+ D+ G + S QI K+ V+T ++P K +++N P IF A + ++KP
Sbjct: 157 IFDLEGWQFSHAFQITPSVAKKIAAVLTD----SFPLKVRGIHLINEPVIFHAVFSMIKP 212
Query: 154 LLQERTRRKMQVLQGNGRDELLK 176
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 = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 40/83 (48%), Gaps = 10/83 (12%)
Query: 100 VLDMTGLKLSALNQI------KLMTVITTIDDLNYPEKTETYYIVNAPYIFSACWKVVKP 153
+ D+ G + S QI K+ V+T ++P K +++N P IF A + +KP
Sbjct: 141 IFDLEGWQFSHAFQITPSVAKKIAAVLTD----SFPLKVRGIHLINEPVIFHAVFSXIKP 196
Query: 154 LLQERTRRKMQVLQGNGRDELLK 176
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 = 0.70, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 27/57 (47%), Gaps = 4/57 (7%)
Query: 119 VITTIDDLNYPEKTETYYIVN-APYIFSA---CWKVVKPLLQERTRRKMQVLQGNGR 171
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 = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 33/62 (53%), Gaps = 9/62 (14%)
Query: 123 IDDLNYPEKTETY-YIVNAPYIFSACWKVVKPLLQERTRRKMQVLQGNGRDELLKIMDYA 181
+DDL +E + Y+V+ + CW+ L+Q++ R LQ GRD L+++D A
Sbjct: 99 LDDLIVTNTSEGHLYVVSN----AGCWEKDLALMQDKVRE----LQNQGRDVGLEVLDNA 150
Query: 182 SL 183
L
Sbjct: 151 LL 152
>pdb|3HY5|A Chain A, Crystal Structure Of Cralbp
Length = 316
Score = 29.3 bits (64), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 12/56 (21%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 103 MTGLKLSALNQIKLMTVITTIDDLNYPEKTETYYIVNAPYIFSACWKVVKPLLQER 158
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: 34 SQLVGVSGYSKEGLPVIAVGVGLSTHDKASVNYYVQSHIQMNEYRDRVVLPSASKKHGRY 93
S +GVS + L I V L++ +K S + +++ EY ++V+ +HGRY
Sbjct: 228 SSFIGVSPEFEFALYTI---VFLASQEKMS-----REVVRLEEYELQIVV----NRHGRY 275
Query: 94 IGTSLKVL 101
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 = 4.2, Method: Compositional matrix adjust.
Identities = 22/89 (24%), Positives = 41/89 (46%), Gaps = 7/89 (7%)
Query: 70 SHIQMNEYRDRVVLPSASKKHGRYIGTSLKVLDMTGLKLSALNQI-----KLMTVITTID 124
SH++ ++ + ++ SKKH Y K +D + L L + I L TV ++
Sbjct: 2 SHMEQLKHCNGILKELLSKKHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKME 61
Query: 125 DLNYPEKTETYYIVNAPYIFSACWKVVKP 153
+ +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
0.319 0.137 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,489,178
Number of Sequences: 62578
Number of extensions: 351095
Number of successful extensions: 787
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: 774
Number of HSP's gapped (non-prelim): 19
length of query: 281
length of database: 14,973,337
effective HSP length: 98
effective length of query: 183
effective length of database: 8,840,693
effective search space: 1617846819
effective search space used: 1617846819
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)