RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14122
(168 letters)
>1r5l_A Alpha-TTP, protein (alpha-tocopherol transfer protein); ataxia with
vitamin E deficiency, transport protein; HET: MSE VIV;
1.50A {Homo sapiens} SCOP: a.5.3.1 c.13.1.1 PDB: 1oiz_A*
1oip_A*
Length = 262
Score = 116 bits (292), Expect = 1e-32
Identities = 33/102 (32%), Positives = 59/102 (57%)
Query: 67 GPWDPKVLSTDQILRVLYLIHLAAIREPESQVRGGVIVLDFDGLSTKQALQFTPTFSYKL 126
WDPKV + + RV + ++E E+Q G + D +G A Q TP+ + K+
Sbjct: 104 AHWDPKVFTAYDVFRVSLITSELIVQEVETQRNGIKAIFDLEGWQFSHAFQITPSVAKKI 163
Query: 127 LTFIQDALPLRVKEVHIVKEPIYFNLVWRLFKPFIREKLQKR 168
+ D+ PL+V+ +H++ EP+ F+ V+ + KPF+ EK+++R
Sbjct: 164 AAVLTDSFPLKVRGIHLINEPVIFHAVFSMIKPFLTEKIKER 205
>3hx3_A Retinaldehyde-binding protein 1; lipid transfer protein,
11-CIS-retinal, bothnia dystrophy, acetylation,
cytoplasm, disease mutation; HET: RET; 1.69A {Homo
sapiens} PDB: 3hy5_A*
Length = 316
Score = 115 bits (290), Expect = 5e-32
Identities = 28/102 (27%), Positives = 53/102 (51%)
Query: 67 GPWDPKVLSTDQILRVLYLIHLAAIREPESQVRGGVIVLDFDGLSTKQALQFTPTFSYKL 126
W + ++ D+IL+ I + E+Q+ G I+ +F G + +QA + K+
Sbjct: 163 ENWQSQEITFDEILQAYCFILEKLLENEETQINGFCIIENFKGFTMQQAASLRTSDLRKM 222
Query: 127 LTFIQDALPLRVKEVHIVKEPIYFNLVWRLFKPFIREKLQKR 168
+ +QD+ P K +H + +P YF + + KPF++ KL +R
Sbjct: 223 VDMLQDSFPAWFKAIHFIHQPWYFTTTYNVVKPFLKSKLLER 264
Score = 37.0 bits (86), Expect = 0.001
Identities = 10/33 (30%), Positives = 22/33 (66%)
Query: 34 ELSEESKKVAEVELRETPERVQESLRQLKQMLK 66
+L + + A+ EL E E +E++R+L++M++
Sbjct: 38 QLPRHTLQKAKDELNEREETREEAVRELQEMVQ 70
>1olm_A SEC14-like protein 2; lipid-binding protein, cholesterol
biosynthesis, oxidized vitamin E, lipid-binding,
transport, transcription regulation; HET: VTQ; 1.95A
{Homo sapiens} SCOP: a.5.3.1 b.132.1.1 c.13.1.1 PDB:
1o6u_A* 1olm_E*
Length = 403
Score = 77.7 bits (191), Expect = 1e-17
Identities = 29/113 (25%), Positives = 46/113 (40%), Gaps = 11/113 (9%)
Query: 67 GPWDPKVL----STDQILRVLYLIHLAAIREPESQ-------VRGGVIVLDFDGLSTKQA 115
GP D K L S +LR ++E Q V I+ D +GL K
Sbjct: 104 GPLDAKGLLFSASKQDLLRTKMRECELLLQECAHQTTKLGRKVETITIIYDCEGLGLKHL 163
Query: 116 LQFTPTFSYKLLTFIQDALPLRVKEVHIVKEPIYFNLVWRLFKPFIREKLQKR 168
+ + L ++ P +K + +VK P F + + L KPF+ E +K+
Sbjct: 164 WKPAVEAYGEFLCMFEENYPETLKRLFVVKAPKLFPVAYNLIKPFLSEDTRKK 216
>3q8g_A CRAL-TRIO domain-containing protein YKL091C; string motif,
signaling protein, directed evoluti SEC14, phospholipid
transporter, lipid; HET: PEE; 1.80A {Saccharomyces
cerevisiae} PDB: 3b7n_A* 3b74_A* 3b7q_A* 3b7z_A*
Length = 320
Score = 44.1 bits (104), Expect = 5e-06
Identities = 22/110 (20%), Positives = 40/110 (36%), Gaps = 13/110 (11%)
Query: 67 GPWDPKVL-----STDQILRVLYLI-HLAAIREPESQVRGG------VIVLDFDGLSTKQ 114
G + K + + ++ A R P R G VLD G+S
Sbjct: 139 GGINLKKMYKITTEKQMLRNLVKEYELFATYRVPACSRRAGYLIETSCTVLDLKGISLSN 198
Query: 115 ALQFTPTFSYKLLTFIQDALPLRVKEVHIVKEPIYFNLVWRLFKPFIREK 164
A + Q+ P R+ + +I+ P F+ ++++ KPF+
Sbjct: 199 AYHVLSYIK-DVADISQNYYPERMGKFYIIHSPFGFSTMFKMVKPFLDPV 247
>1aua_A Phosphatidylinositol transfer protein SEC14P; phospholipid-binding
protein, peripheral golgi membrane protein, phospholipid
exchange; HET: BOG; 2.50A {Saccharomyces cerevisiae}
SCOP: a.5.3.1 c.13.1.1
Length = 296
Score = 44.0 bits (104), Expect = 7e-06
Identities = 21/112 (18%), Positives = 40/112 (35%), Gaps = 17/112 (15%)
Query: 67 GPWDPKVL-----STDQILRVLYLI-HLAAIREPESQVRGG------VIVLDFDGLSTKQ 114
G + + + +++ + R P G ++D G+S
Sbjct: 124 GAVNLHEMNKVTSEERMLKNLVWEYESVVQYRLPACSRAAGHLVETSCTIMDLKGISISS 183
Query: 115 ALQFTPTFSY--KLLTFIQDALPLRVKEVHIVKEPIYFNLVWRLFKPFIREK 164
SY + Q+ P R+ + +I+ P F+ +RLFKPF+
Sbjct: 184 ---AYSVMSYVREASYISQNYYPERMGKFYIINAPFGFSTAFRLFKPFLDPV 232
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 32.1 bits (72), Expect = 0.075
Identities = 18/83 (21%), Positives = 28/83 (33%), Gaps = 20/83 (24%)
Query: 105 LDFD----GLSTKQALQ-FTPTFSYKL-LTFIQDALP--LRVKEV-HIVKEPIYFNLVWR 155
+DF+ K L F F +QD L +E+ HI+ + R
Sbjct: 7 MDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLR 66
Query: 156 LF-----------KPFIREKLQK 167
LF + F+ E L+
Sbjct: 67 LFWTLLSKQEEMVQKFVEEVLRI 89
>3iup_A Putative NADPH:quinone oxidoreductase; YP_296108.1, structur
genomics, joint center for structural genomics, JCSG,
prote structure initiative; HET: MSE NDP; 1.70A
{Ralstonia eutropha}
Length = 379
Score = 28.7 bits (64), Expect = 0.79
Identities = 8/61 (13%), Positives = 18/61 (29%), Gaps = 9/61 (14%)
Query: 48 RETPERVQESLRQLKQMLKGPWDPKVLST---DQILRVLYLIHLAAIREPESQVRGGVIV 104
+ ER +++ LK + ++L L I + G +
Sbjct: 317 KIGRERANALKQRVVAELKTTFASHYSKEISLAEVLD------LDMIAVYNKRATGEKYL 370
Query: 105 L 105
+
Sbjct: 371 I 371
>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane
protein; HET: ADP; 2.11A {Methanothermobacter
thermautotrophicusorganism_taxid}
Length = 324
Score = 28.7 bits (64), Expect = 0.97
Identities = 16/67 (23%), Positives = 32/67 (47%), Gaps = 5/67 (7%)
Query: 11 LNKISPFSSVSIMADPRFRIEDGELSE-----ESKKVAEVELRETPERVQESLRQLKQML 65
+N++ P S + R +++ L + K VAEV L + + E+L ++ + L
Sbjct: 258 VNQVLPEESDCEFCNARRKLQQERLKQIREKFSDKVVAEVPLLKKEAKGIETLEKIAEQL 317
Query: 66 KGPWDPK 72
G +P+
Sbjct: 318 YGEPEPE 324
>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein,
targeting factor, ATP-bindi TRC40, ARSA,
nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus
jannaschii} PDB: 3ug6_A*
Length = 349
Score = 27.6 bits (61), Expect = 2.1
Identities = 14/66 (21%), Positives = 27/66 (40%), Gaps = 5/66 (7%)
Query: 11 LNKISPFSSVSIMADPRFRIEDGELSE-----ESKKVAEVELRETPERVQESLRQLKQML 65
+N++ P R ++ L K +A V L T + E+L+Q+ ++L
Sbjct: 273 VNQLIPEDVQCDFCRARRELQLKRLEMIKEKFGDKVIAYVPLLRTEAKGIETLKQIAKIL 332
Query: 66 KGPWDP 71
G +
Sbjct: 333 YGEEEK 338
>1zbt_A RF-1, peptide chain release factor 1; peptide chain release factor
1 (RF-1), structural joint center for structural
genomics, JCSG; 2.34A {Streptococcus mutans}
Length = 371
Score = 26.8 bits (60), Expect = 3.4
Identities = 13/45 (28%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 30 IEDGELSEESKKVAEVELRETPERVQESLRQLKQML--KGPWDPK 72
I+D E +++A+ EL+ + +E +L+ +L K P D K
Sbjct: 79 IKDASGDPELEEMAKEELKNSKVAKEEYEEKLRFLLLPKDPNDDK 123
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 26.5 bits (57), Expect = 3.7
Identities = 4/17 (23%), Positives = 11/17 (64%), Gaps = 1/17 (5%)
Query: 55 QESLRQLKQMLKGPWDP 71
+++L++L+ LK +
Sbjct: 19 KQALKKLQASLK-LYAD 34
>3blx_A Isocitrate dehydrogenase [NAD] subunit 1; TCA cycle, oxidative
metabolism, allostery, decarboxylase, allosteric
enzyme, magnesium; 2.70A {Saccharomyces cerevisiae}
PDB: 3blw_A 3blv_A*
Length = 349
Score = 26.8 bits (60), Expect = 4.1
Identities = 10/32 (31%), Positives = 17/32 (53%)
Query: 38 ESKKVAEVELRETPERVQESLRQLKQMLKGPW 69
E+ + + + +E ESL++ K LKG W
Sbjct: 50 ETINIKQTDHKEGVYEAVESLKRNKIGLKGLW 81
>1hqm_D DNA-directed RNA polymerase; transferase, transcription, 3D-
structure; 3.30A {Thermus aquaticus} SCOP: i.8.1.1 PDB:
1i6v_D* 2gho_D
Length = 1265
Score = 26.5 bits (59), Expect = 5.9
Identities = 6/13 (46%), Positives = 12/13 (92%)
Query: 156 LFKPFIREKLQKR 168
LFKPF+ +K++++
Sbjct: 392 LFKPFLLKKMEEK 404
>1wle_A Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bos taurus}
Length = 501
Score = 26.1 bits (58), Expect = 6.9
Identities = 13/37 (35%), Positives = 17/37 (45%)
Query: 47 LRETPERVQESLRQLKQMLKGPWDPKVLSTDQILRVL 83
L PE +L K L+ P ++ST Q LR L
Sbjct: 46 LCAYPEDAARALDLRKGELRSKDLPGIISTWQELRQL 82
>3g68_A Putative phosphosugar isomerase; SIS domain, double-SIS DOMA
protein, structural genomics, joint center for
structural G JCSG; HET: MSE CIT; 1.80A {Clostridium
difficile}
Length = 352
Score = 26.0 bits (58), Expect = 6.9
Identities = 6/34 (17%), Positives = 14/34 (41%)
Query: 33 GELSEESKKVAEVELRETPERVQESLRQLKQMLK 66
G +S E ++ + R + + KQ ++
Sbjct: 166 GIISSEKYNEEINKILDAINRFEAVYKLSKQWIE 199
>3lu0_D DNA-directed RNA polymerase subunit beta'; E. coli RNA polymerase,
nucleotidyltransferase, transcription, transferase;
11.20A {Escherichia coli} PDB: 3iyd_D*
Length = 1407
Score = 26.1 bits (58), Expect = 7.1
Identities = 9/13 (69%), Positives = 10/13 (76%)
Query: 156 LFKPFIREKLQKR 168
LFKPFI KL+ R
Sbjct: 376 LFKPFIYGKLELR 388
>2a6h_D DNA-directed RNA polymerase beta' chain; RNA polymerase holoenzyme,
streptolydigin, antibiotic, transcription regulation;
HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.2
PDB: 1smy_D* 1zyr_D* 1iw7_D* 2a69_D* 2a6e_D 2a68_D*
2be5_D* 2cw0_D 2o5i_D 2o5j_D* 2ppb_D* 3aoh_D* 3aoi_D*
3dxj_D* 3eql_D* 1ynj_D* 1l9z_D 1l9u_D* 1ynn_D* 2auj_D
Length = 1524
Score = 25.9 bits (57), Expect = 7.9
Identities = 6/13 (46%), Positives = 12/13 (92%)
Query: 156 LFKPFIREKLQKR 168
LFKPF+ +K++++
Sbjct: 652 LFKPFLLKKMEEK 664
>3knz_A Putative sugar binding protein; structural genomics, joint C
structural genomics, JCSG, protein structure initiative;
2.50A {Salmonella enterica subsp}
Length = 366
Score = 26.0 bits (58), Expect = 8.0
Identities = 3/34 (8%), Positives = 12/34 (35%)
Query: 33 GELSEESKKVAEVELRETPERVQESLRQLKQMLK 66
L E ++ + + +T + + + +
Sbjct: 181 QRLDGEQRRSLLLRMEKTFNHLPALVTASQAWAQ 214
>2j89_A Methionine sulfoxide reductase A; MSRA, poplar, oxidoreductase;
1.7A {Populus trichocarpa}
Length = 261
Score = 25.8 bits (57), Expect = 8.3
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 69 WDPKVLSTDQILRVLYLIH 87
+DPK S D ++ VL+ H
Sbjct: 152 YDPKECSFDTLIDVLWARH 170
>3pim_A Peptide methionine sulfoxide reductase; methionine-S-sulfoxide
reductase, oxidoreductase; 1.90A {Saccharomyces
cerevisiae} PDB: 3pil_A 3pin_B
Length = 187
Score = 25.3 bits (56), Expect = 9.2
Identities = 5/18 (27%), Positives = 11/18 (61%)
Query: 70 DPKVLSTDQILRVLYLIH 87
+PKV++ ++ + IH
Sbjct: 86 NPKVITLRELTDFFFRIH 103
>3bqh_A PILB, peptide methionine sulfoxide reductase MSRA/MSRB;
methionine sulfoxide reductase A, oxidized form, elect
transport; 1.95A {Neisseria meningitidis} PDB: 3bqe_A
3bqf_A* 3bqg_A
Length = 193
Score = 25.2 bits (56), Expect = 9.5
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 70 DPKVLSTDQILRVLYLIH 87
D LS D IL+ + +
Sbjct: 61 DADKLSLDDILQYFFRVV 78
>3ejj_A Colony stimulating factor-1; growth factor-receptor complex,
receptor tyrosine kinase, CY 4-helix bundle,
ATP-binding; HET: NAG; 2.40A {Mus musculus} PDB: 1hmc_A
Length = 155
Score = 25.1 bits (54), Expect = 9.9
Identities = 10/39 (25%), Positives = 17/39 (43%), Gaps = 4/39 (10%)
Query: 37 EESKKVAEVELRETP----ERVQESLRQLKQMLKGPWDP 71
EE K ETP E+++ + K +L+ W+
Sbjct: 96 EEQNKACVRTFHETPLQLLEKIKNFFNETKNLLEKDWNI 134
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
0.322 0.138 0.393
Gapped
Lambda K H
0.267 0.0611 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,538,927
Number of extensions: 144142
Number of successful extensions: 392
Number of sequences better than 10.0: 1
Number of HSP's gapped: 390
Number of HSP's successfully gapped: 36
Length of query: 168
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 81
Effective length of database: 4,272,666
Effective search space: 346085946
Effective search space used: 346085946
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (24.8 bits)