RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1698
(258 letters)
>3r2p_A Apolipoprotein A-I; amphipathic alpha-helix, major protein of high
density lipop (HDL), lipid binding, plasma, lipid
transport; 2.20A {Homo sapiens} PDB: 1gw3_A 1gw4_A
Length = 185
Score = 34.3 bits (78), Expect = 0.020
Identities = 24/144 (16%), Positives = 46/144 (31%), Gaps = 4/144 (2%)
Query: 103 GQDLPTLRTGSEQDLPT----LRTGSEQDLSTLRTGSEQDLPTLRTGSGQDLPTLRTGSE 158
G+ L + + + LR E++ LR +DL ++ +
Sbjct: 40 GKQLNLKLLDNWDSVTSTFSKLREQLGPVTQEFWDNLEKETEGLRQEMSKDLEEVKAKVQ 99
Query: 159 QDLPTLRTGSEQDLPTLRTGSEQDLPTLRMGSEQDLSTLRMGSEQDLSTLRTGSEQDLST 218
L + ++++ R E L+ G+ Q L L+ +R + +
Sbjct: 100 PYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKLSPLGEEMRDRARAHVDA 159
Query: 219 LRMGSEQDLSTLRTGSEQDLPTLR 242
LR LR L L+
Sbjct: 160 LRTHLAPYSDELRQRLAARLEALK 183
Score = 33.9 bits (77), Expect = 0.030
Identities = 23/124 (18%), Positives = 40/124 (32%)
Query: 97 TLRTGSGQDLPTLRTGSEQDLPTLRTGSEQDLSTLRTGSEQDLPTLRTGSGQDLPTLRTG 156
LR G E++ LR +DL ++ + L + +++ R
Sbjct: 60 KLREQLGPVTQEFWDNLEKETEGLRQEMSKDLEEVKAKVQPYLDDFQKKWQEEMELYRQK 119
Query: 157 SEQDLPTLRTGSEQDLPTLRTGSEQDLPTLRMGSEQDLSTLRMGSEQDLSTLRTGSEQDL 216
E L+ G+ Q L L+ +R + + LR LR L
Sbjct: 120 VEPLRAELQEGARQKLHELQEKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARL 179
Query: 217 STLR 220
L+
Sbjct: 180 EALK 183
Score = 33.1 bits (75), Expect = 0.050
Identities = 22/124 (17%), Positives = 39/124 (31%)
Query: 20 TLRTGSEQDLSTLRTGSEQDLSTLRTGSEQDLPTLRTGLEQDLPTLRTGSGQGLPTLRTG 79
LR E++ LR +DL ++ ++ L + + + R
Sbjct: 60 KLREQLGPVTQEFWDNLEKETEGLRQEMSKDLEEVKAKVQPYLDDFQKKWQEEMELYRQK 119
Query: 80 SGQDLPTLRTGSGQGLPTLRTGSGQDLPTLRTGSEQDLPTLRTGSEQDLSTLRTGSEQDL 139
L+ G+ Q L L+ +R + + LRT LR L
Sbjct: 120 VEPLRAELQEGARQKLHELQEKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARL 179
Query: 140 PTLR 143
L+
Sbjct: 180 EALK 183
Score = 32.4 bits (73), Expect = 0.075
Identities = 23/129 (17%), Positives = 40/129 (31%)
Query: 26 EQDLSTLRTGSEQDLSTLRTGSEQDLPTLRTGLEQDLPTLRTGSGQGLPTLRTGSGQDLP 85
S LR E++ LR + +DL ++ L + +++
Sbjct: 55 TSTFSKLREQLGPVTQEFWDNLEKETEGLRQEMSKDLEEVKAKVQPYLDDFQKKWQEEME 114
Query: 86 TLRTGSGQGLPTLRTGSGQDLPTLRTGSEQDLPTLRTGSEQDLSTLRTGSEQDLPTLRTG 145
R L+ G+ Q L L+ +R + + LRT LR
Sbjct: 115 LYRQKVEPLRAELQEGARQKLHELQEKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQR 174
Query: 146 SGQDLPTLR 154
L L+
Sbjct: 175 LAARLEALK 183
Score = 31.2 bits (70), Expect = 0.22
Identities = 26/179 (14%), Positives = 55/179 (30%), Gaps = 5/179 (2%)
Query: 25 SEQDLSTLRTGSEQDLSTLRTGSEQDLPTLR-TGLEQDLPTLRTGSGQGLPT----LRTG 79
+ ++ + + L+ + + L + L + + + LR
Sbjct: 5 PQSPWDRVKDLATVYVDVLKDSGRDYVSQFEGSALGKQLNLKLLDNWDSVTSTFSKLREQ 64
Query: 80 SGQDLPTLRTGSGQGLPTLRTGSGQDLPTLRTGSEQDLPTLRTGSEQDLSTLRTGSEQDL 139
G + LR +DL ++ + L + ++++ R E
Sbjct: 65 LGPVTQEFWDNLEKETEGLRQEMSKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLR 124
Query: 140 PTLRTGSGQDLPTLRTGSEQDLPTLRTGSEQDLPTLRTGSEQDLPTLRMGSEQDLSTLR 198
L+ G+ Q L L+ +R + + LRT LR L L+
Sbjct: 125 AELQEGARQKLHELQEKLSPLGEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALK 183
Score = 29.3 bits (65), Expect = 0.86
Identities = 27/155 (17%), Positives = 44/155 (28%)
Query: 22 RTGSEQDLSTLRTGSEQDLSTLRTGSEQDLPTLRTGLEQDLPTLRTGSGQGLPTLRTGSG 81
S+ + S L L LR L + LR
Sbjct: 29 DYVSQFEGSALGKQLNLKLLDNWDSVTSTFSKLREQLGPVTQEFWDNLEKETEGLRQEMS 88
Query: 82 QDLPTLRTGSGQGLPTLRTGSGQDLPTLRTGSEQDLPTLRTGSEQDLSTLRTGSEQDLPT 141
+DL ++ L + +++ R E L+ G+ Q L L+
Sbjct: 89 KDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKLSPLGEE 148
Query: 142 LRTGSGQDLPTLRTGSEQDLPTLRTGSEQDLPTLR 176
+R + + LRT LR L L+
Sbjct: 149 MRDRARAHVDALRTHLAPYSDELRQRLAARLEALK 183
Score = 27.0 bits (59), Expect = 4.9
Identities = 16/94 (17%), Positives = 32/94 (34%)
Query: 152 TLRTGSEQDLPTLRTGSEQDLPTLRTGSEQDLPTLRMGSEQDLSTLRMGSEQDLSTLRTG 211
LR E++ LR +DL ++ + L + ++++ R
Sbjct: 60 KLREQLGPVTQEFWDNLEKETEGLRQEMSKDLEEVKAKVQPYLDDFQKKWQEEMELYRQK 119
Query: 212 SEQDLSTLRMGSEQDLSTLRTGSEQDLPTLRMGL 245
E + L+ G+ Q L L+ +R
Sbjct: 120 VEPLRAELQEGARQKLHELQEKLSPLGEEMRDRA 153
Score = 27.0 bits (59), Expect = 5.4
Identities = 19/96 (19%), Positives = 35/96 (36%)
Query: 4 GQDLPTLRTGSGQGLPTLRTGSEQDLSTLRTGSEQDLSTLRTGSEQDLPTLRTGLEQDLP 63
+DL ++ L + ++++ R E + L+ G+ Q L L+ L
Sbjct: 88 SKDLEEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAELQEGARQKLHELQEKLSPLGE 147
Query: 64 TLRTGSGQGLPTLRTGSGQDLPTLRTGSGQGLPTLR 99
+R + + LRT LR L L+
Sbjct: 148 EMRDRARAHVDALRTHLAPYSDELRQRLAARLEALK 183
>1gte_A Dihydropyrimidine dehydrogenase; electron transfer, flavin,
iron-sulfur clusters, pyrimidine catabolism,
5-fluorouracil degradation, oxidoreductase; HET: FMN
FAD; 1.65A {Sus scrofa} SCOP: a.1.2.2 c.1.4.1 c.3.1.1
c.4.1.1 d.58.1.5 PDB: 1gt8_A* 1gth_A* 1h7w_A* 1h7x_A*
Length = 1025
Score = 29.8 bits (67), Expect = 1.1
Identities = 21/110 (19%), Positives = 38/110 (34%), Gaps = 7/110 (6%)
Query: 56 TGL-----EQDLPTLRTGSGQGLPTLRTGSGQDLPTLRTGSGQGLPTLRTGSGQDLPTLR 110
TGL + + L+ GQ T G+ +P + G+ LP G +
Sbjct: 832 TGLKALLYLKSIEELQGWDGQSPGTESHQKGKPVPRIAELMGKKLP--NFGPYLEQRKKI 889
Query: 111 TGSEQDLPTLRTGSEQDLSTLRTGSEQDLPTLRTGSGQDLPTLRTGSEQD 160
E+ + + L ++ +P ++ G+ L L T E
Sbjct: 890 IAEEKMRLKEQNAAFPPLERKPFIPKKPIPAIKDVIGKALQYLGTFGELS 939
Score = 29.0 bits (65), Expect = 1.7
Identities = 17/101 (16%), Positives = 33/101 (32%), Gaps = 2/101 (1%)
Query: 71 QGLPTLRTGSGQDLPTLRTGSGQGLPTLRTGSGQDLPTLRTGSEQDLPTLRTGSEQDLST 130
+ + L+ GQ T G+ +P + G+ LP G + E+
Sbjct: 841 KSIEELQGWDGQSPGTESHQKGKPVPRIAELMGKKLP--NFGPYLEQRKKIIAEEKMRLK 898
Query: 131 LRTGSEQDLPTLRTGSGQDLPTLRTGSEQDLPTLRTGSEQD 171
+ + L + +P ++ + L L T E
Sbjct: 899 EQNAAFPPLERKPFIPKKPIPAIKDVIGKALQYLGTFGELS 939
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 29.6 bits (66), Expect = 1.2
Identities = 40/227 (17%), Positives = 67/227 (29%), Gaps = 74/227 (32%)
Query: 4 GQDLPTLR--TGSGQGLPT-LRTGSEQDLSTLRTGSEQDLSTL-RTGSE--QDLPTLRTG 57
G+ L+ TG QGL T + + + ++ L G + P T
Sbjct: 261 GELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYP--NTS 318
Query: 58 LEQDLPTLRTGS---GQGLPT----LRTGSGQDLPTLRTGSGQGLPTLR----------- 99
L P++ S +G+P+ + + + + + LP +
Sbjct: 319 LP---PSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAK 375
Query: 100 ----TGSGQDL----PTLR-----TGSEQD---------------LPT--------LRTG 123
+G Q L TLR +G +Q LP L
Sbjct: 376 NLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPA 435
Query: 124 SE---QDLSTLR---TGSEQDLPTLRTGSGQDLPTLRTGSEQDLPTL 164
S+ +DL + +P T G D LR S +
Sbjct: 436 SDLINKDLVKNNVSFNAKDIQIPVYDTFDGSD---LRVLSGSISERI 479
>3aii_A Glutamyl-tRNA synthetase; amino-acyl tRNA synthetase, ligase; 1.65A
{Methanothermobacter thermautotrophicusorganism_taxid}
Length = 553
Score = 28.0 bits (63), Expect = 4.0
Identities = 8/16 (50%), Positives = 9/16 (56%), Gaps = 3/16 (18%)
Query: 238 LPTLRMGLPARRRGIT 253
L TLR + RRGI
Sbjct: 352 LGTLR-AI--ARRGIR 364
>1nfn_A Apolipoprotein E3; lipid transport, heparin-binding, plasma
protein, HDL, VLDL; 1.80A {Homo sapiens} SCOP: a.24.1.1
PDB: 1h7i_A 1ea8_A 1b68_A 1nfo_A 2kc3_A 1ya9_A
Length = 191
Score = 27.4 bits (60), Expect = 4.1
Identities = 19/90 (21%), Positives = 31/90 (34%)
Query: 109 LRTGSEQDLPTLRTGSEQDLSTLRTGSEQDLPTLRTGSGQDLPTLRTGSEQDLPTLRTGS 168
R ++L + D+ + Q ++ GQ LR L LR
Sbjct: 89 TRARLSKELQAAQARLGADMEDVCGRLVQYRGEVQAMLGQSTEELRVRLASHLRKLRKRL 148
Query: 169 EQDLPTLRTGSEQDLPTLRMGSEQDLSTLR 198
+D L+ R G+E+ LS +R
Sbjct: 149 LRDADDLQKRLAVYQAGAREGAERGLSAIR 178
Score = 27.4 bits (60), Expect = 4.1
Identities = 26/123 (21%), Positives = 45/123 (36%), Gaps = 4/123 (3%)
Query: 15 GQGLPTLRTGSEQDLSTLRTGSEQDLS----TLRTGSEQDLPTLRTGLEQDLPTLRTGSG 70
Q L L + ++L ++ E+ L+ R ++L + L D+ +
Sbjct: 57 TQELRALMDETMKELKAYKSELEEQLTPVAEETRARLSKELQAAQARLGADMEDVCGRLV 116
Query: 71 QGLPTLRTGSGQDLPTLRTGSGQGLPTLRTGSGQDLPTLRTGSEQDLPTLRTGSEQDLST 130
Q ++ GQ LR L LR +D L+ R G+E+ LS
Sbjct: 117 QYRGEVQAMLGQSTEELRVRLASHLRKLRKRLLRDADDLQKRLAVYQAGAREGAERGLSA 176
Query: 131 LRT 133
+R
Sbjct: 177 IRE 179
Score = 27.4 bits (60), Expect = 4.1
Identities = 24/131 (18%), Positives = 47/131 (35%), Gaps = 7/131 (5%)
Query: 115 QDLPTLRTGSEQDLSTLRTGSEQDLPTLRTGSGQDLPTLRTGSEQDLPTLRTGSEQDLPT 174
Q+L L + ++L ++ E+ L + + L ++L + D+
Sbjct: 58 QELRALMDETMKELKAYKSELEEQLTPVAEETRARL-------SKELQAAQARLGADMED 110
Query: 175 LRTGSEQDLPTLRMGSEQDLSTLRMGSEQDLSTLRTGSEQDLSTLRMGSEQDLSTLRTGS 234
+ Q ++ Q LR+ L LR +D L+ + R G+
Sbjct: 111 VCGRLVQYRGEVQAMLGQSTEELRVRLASHLRKLRKRLLRDADDLQKRLAVYQAGAREGA 170
Query: 235 EQDLPTLRMGL 245
E+ L +R L
Sbjct: 171 ERGLSAIRERL 181
Score = 26.7 bits (58), Expect = 7.5
Identities = 17/90 (18%), Positives = 29/90 (32%)
Query: 98 LRTGSGQDLPTLRTGSEQDLPTLRTGSEQDLSTLRTGSEQDLPTLRTGSGQDLPTLRTGS 157
R ++L + D+ + Q ++ Q LR L LR
Sbjct: 89 TRARLSKELQAAQARLGADMEDVCGRLVQYRGEVQAMLGQSTEELRVRLASHLRKLRKRL 148
Query: 158 EQDLPTLRTGSEQDLPTLRTGSEQDLPTLR 187
+D L+ R G+E+ L +R
Sbjct: 149 LRDADDLQKRLAVYQAGAREGAERGLSAIR 178
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.308 0.129 0.356
Gapped
Lambda K H
0.267 0.0480 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,503,989
Number of extensions: 202428
Number of successful extensions: 231
Number of sequences better than 10.0: 1
Number of HSP's gapped: 214
Number of HSP's successfully gapped: 31
Length of query: 258
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 166
Effective length of database: 4,133,061
Effective search space: 686088126
Effective search space used: 686088126
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 56 (26.0 bits)