RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14107
(151 letters)
>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 = 171 bits (435), Expect = 6e-54
Identities = 40/129 (31%), Positives = 68/129 (52%)
Query: 4 NWKHKKVCLDEVFKGAVLFLEAAMMEPSSQVAGAQVIFDMDGLSLQQAWQFTPTFAKRIV 63
NW+ +++ DE+ + LE + +Q+ G +I + G ++QQA + +++V
Sbjct: 164 NWQSQEITFDEILQAYCFILEKLLENEETQINGFCIIENFKGFTMQQAASLRTSDLRKMV 223
Query: 64 DWLQDSIPLRVKGIHVVNQPTIFNMVFALFKPLLREKLRNRIFFHSTDRDSLHKYLNPEC 123
D LQDS P K IH ++QP F + + KP L+ KL R+F H D ++ ++
Sbjct: 224 DMLQDSFPAWFKAIHFIHQPWYFTTTYNVVKPFLKSKLLERVFVHGDDLSGFYQEIDENI 283
Query: 124 LPEHYKGTL 132
LP + GTL
Sbjct: 284 LPSDFGGTL 292
>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 = 163 bits (415), Expect = 2e-51
Identities = 47/130 (36%), Positives = 73/130 (56%)
Query: 4 NWKHKKVCLDEVFKGAVLFLEAAMMEPSSQVAGAQVIFDMDGLSLQQAWQFTPTFAKRIV 63
+W K +VF+ +++ E + E +Q G + IFD++G A+Q TP+ AK+I
Sbjct: 105 HWDPKVFTAYDVFRVSLITSELIVQEVETQRNGIKAIFDLEGWQFSHAFQITPSVAKKIA 164
Query: 64 DWLQDSIPLRVKGIHVVNQPTIFNMVFALFKPLLREKLRNRIFFHSTDRDSLHKYLNPEC 123
L DS PL+V+GIH++N+P IF+ VF++ KP L EK++ RI H + P+
Sbjct: 165 AVLTDSFPLKVRGIHLINEPVIFHAVFSMIKPFLTEKIKERIHMHGNNYKQSLLQHFPDI 224
Query: 124 LPEHYKGTLD 133
LP Y G
Sbjct: 225 LPLEYGGEEF 234
>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 = 119 bits (299), Expect = 4e-33
Identities = 30/141 (21%), Positives = 60/141 (42%), Gaps = 8/141 (5%)
Query: 1 MDQNWKHKKVCLDEVFKGAVLFLEAAM--MEPSSQVAGAQV-----IFDMDGLSLQQAWQ 53
+D ++ + + E + + G +V I+D +GL L+ W+
Sbjct: 106 LDAKGLLFSASKQDLLRTKMRECELLLQECAHQTTKLGRKVETITIIYDCEGLGLKHLWK 165
Query: 54 FTPTFAKRIVDWLQDSIPLRVKGIHVVNQPTIFNMVFALFKPLLREKLRNRIFFHS-TDR 112
+ +++ P +K + VV P +F + + L KP L E R +I +
Sbjct: 166 PAVEAYGEFLCMFEENYPETLKRLFVVKAPKLFPVAYNLIKPFLSEDTRKKIMVLGANWK 225
Query: 113 DSLHKYLNPECLPEHYKGTLD 133
+ L K+++P+ +P Y GT+
Sbjct: 226 EVLLKHISPDQVPVEYGGTMT 246
>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 = 83.3 bits (206), Expect = 3e-20
Identities = 34/144 (23%), Positives = 63/144 (43%), Gaps = 10/144 (6%)
Query: 1 MDQNWKHKKVCLDEVFKGAVLFLEAA---MMEPSSQVAGAQV-----IFDMDGLSLQQAW 52
++ + +K + + K V E+ + S+ AG V I D+ G+S+ A+
Sbjct: 126 VNLHEMNKVTSEERMLKNLVWEYESVVQYRLPACSRAAGHLVETSCTIMDLKGISISSAY 185
Query: 53 QFTPTFAKRIVDWLQDSIPLRVKGIHVVNQPTIFNMVFALFKPLLREKLRNRIFFHSTD- 111
++ + Q+ P R+ +++N P F+ F LFKP L ++IF +
Sbjct: 186 SVM-SYVREASYISQNYYPERMGKFYIINAPFGFSTAFRLFKPFLDPVTVSKIFILGSSY 244
Query: 112 RDSLHKYLNPECLPEHYKGTLDVS 135
+ L K + E LP + G +V
Sbjct: 245 QKELLKQIPAENLPVKFGGKSEVD 268
>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 = 82.2 bits (203), Expect = 1e-19
Identities = 32/142 (22%), Positives = 62/142 (43%), Gaps = 10/142 (7%)
Query: 1 MDQNWKHKKVCLDEVFKGAVLFLEAA---MMEPSSQVAGAQV-----IFDMDGLSLQQAW 52
++ +K ++ + V E + S+ AG + + D+ G+SL A+
Sbjct: 141 INLKKMYKITTEKQMLRNLVKEYELFATYRVPACSRRAGYLIETSCTVLDLKGISLSNAY 200
Query: 53 QFTPTFAKRIVDWLQDSIPLRVKGIHVVNQPTIFNMVFALFKPLLREKLRNRIFFHSTD- 111
++ K + D Q+ P R+ ++++ P F+ +F + KP L ++IF +
Sbjct: 201 HVL-SYIKDVADISQNYYPERMGKFYIIHSPFGFSTMFKMVKPFLDPVTVSKIFILGSSY 259
Query: 112 RDSLHKYLNPECLPEHYKGTLD 133
+ L K + E LP Y GT
Sbjct: 260 KKELLKQIPIENLPVKYGGTSV 281
>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 = 31.9 bits (72), Expect = 0.070
Identities = 25/136 (18%), Positives = 39/136 (28%), Gaps = 56/136 (41%)
Query: 27 M-ME--PSSQVAGAQVIFD-MD-------GLSLQQ---------AWQFTPTFAKRI---- 62
M M+ +S+ A Q +++ D G S+ F KRI
Sbjct: 1631 MGMDLYKTSKAA--QDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENY 1688
Query: 63 ----VDWLQDSIPLRVKGIHVVN---------------------QPTIFNMVFALFKPLL 97
+ + D K +N QP + M A F+ L
Sbjct: 1689 SAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFE-DL 1747
Query: 98 REK--LRNRIFF--HS 109
+ K + F HS
Sbjct: 1748 KSKGLIPADATFAGHS 1763
Score = 31.9 bits (72), Expect = 0.073
Identities = 28/154 (18%), Positives = 44/154 (28%), Gaps = 63/154 (40%)
Query: 10 VCLDE------VFKGAV--LFLEAAMM--EPSSQVAGAQVIFDMDGLSLQQAWQFTPTFA 59
+E + V L +A E A+ +F GL+
Sbjct: 168 DYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFT-QGLN------------ 214
Query: 60 KRIVDWLQD-----------SIPLRVKGIHVVNQPTIFNMVFALFKPLLREKLRNRIFFH 108
I++WL++ SIP+ I V+ Q A + +
Sbjct: 215 --ILEWLENPSNTPDKDYLLSIPISCPLIGVI-Q-------LAHY----------VVTAK 254
Query: 109 STDRDSLHKYLNPECLPEHYKGTLDVS--LVTAI 140
P L + KG S LVTA+
Sbjct: 255 LLG-------FTPGELRSYLKGATGHSQGLVTAV 281
>1svv_A Threonine aldolase; structural genomics, structural genomics of
pathogenic proto SGPP, protein structure initiative,
PSI; 2.10A {Leishmania major} SCOP: c.67.1.1
Length = 359
Score = 29.5 bits (67), Expect = 0.36
Identities = 9/50 (18%), Positives = 19/50 (38%), Gaps = 7/50 (14%)
Query: 59 AKRIVDWLQDSIPLRVKGIHVVNQPTIFNMVFALFKPLLREKLRNRIFFH 108
A + L+ GI + P+ N +F + + + +L N +
Sbjct: 277 AAILKAGLEA------CGIRLA-WPSASNQLFPILENTMIAELNNDFDMY 319
>1te2_A Putative phosphatase; structural genomics, phosphates, PSI,
protein S initiative, midwest center for structural
genomics, MCSG; HET: MSE; 1.76A {Escherichia coli}
SCOP: c.108.1.6
Length = 226
Score = 29.1 bits (66), Expect = 0.50
Identities = 9/19 (47%), Positives = 10/19 (52%), Gaps = 2/19 (10%)
Query: 28 MEPSSQVAGAQVIFDMDGL 46
M Q+ IFDMDGL
Sbjct: 3 MSTPRQILA--AIFDMDGL 19
>2wf7_A Beta-PGM, beta-phosphoglucomutase; transition state analogue,
haloacid dehalogenase superfamily, isomerase,
phosphotransferase; HET: G7P; 1.05A {Lactococcus
lactis} PDB: 1o03_A* 1z4n_A* 1z4o_A* 1zol_A 2wf5_A*
2wf6_A* 1o08_A* 2wf8_A* 2wf9_A* 2wfa_A 2whe_A 1lvh_A*
3fm9_A
Length = 221
Score = 28.7 bits (65), Expect = 0.58
Identities = 9/45 (20%), Positives = 21/45 (46%), Gaps = 8/45 (17%)
Query: 39 VIFDMDGLSL------QQAWQFTPTFAKRIVDWLQDSIPLRVKGI 77
V+FD+DG+ +AW+ + ++ + ++KG+
Sbjct: 5 VLFDLDGVITDTAEYHFRAWK--ALAEEIGINGVDRQFNEQLKGV 47
>3l5k_A Protein GS1, haloacid dehalogenase-like hydrolase domain-
containing protein 1A; HDHD1A, haloacid
dehalogenase-like hydrolase domain containing 1A; 2.00A
{Homo sapiens}
Length = 250
Score = 28.9 bits (65), Expect = 0.64
Identities = 10/22 (45%), Positives = 12/22 (54%), Gaps = 2/22 (9%)
Query: 25 AAMMEPSSQVAGAQVIFDMDGL 46
+M P V +IFDMDGL
Sbjct: 21 QSMAAPPQPVTH--LIFDMDGL 40
>3e58_A Putative beta-phosphoglucomutase; structu genomics, PSI-2,
protein structure initiative, midwest CENT structural
genomics; 1.86A {Streptococcus thermophilus lmg 18311}
Length = 214
Score = 27.9 bits (63), Expect = 1.2
Identities = 6/8 (75%), Positives = 8/8 (100%)
Query: 39 VIFDMDGL 46
+IFDMDG+
Sbjct: 8 IIFDMDGV 15
>3nas_A Beta-PGM, beta-phosphoglucomutase; PSI, structural genomics,
protein structure initiative, NEW research center for
structural genomics; 3.00A {Bacillus subtilis}
Length = 233
Score = 27.6 bits (62), Expect = 1.5
Identities = 8/21 (38%), Positives = 11/21 (52%), Gaps = 6/21 (28%)
Query: 39 VIFDMDGLSL------QQAWQ 53
VIFD+DG+ AW+
Sbjct: 5 VIFDLDGVITDTAEYHFLAWK 25
>4g9b_A Beta-PGM, beta-phosphoglucomutase; HAD, putative
phosphoglucomutase, enzyme function initiative
structural genomics, isomerase; 1.70A {Escherichia
coli}
Length = 243
Score = 27.6 bits (62), Expect = 1.5
Identities = 10/21 (47%), Positives = 12/21 (57%), Gaps = 6/21 (28%)
Query: 39 VIFDMDGLSL------QQAWQ 53
VIFD+DG+ QAWQ
Sbjct: 8 VIFDLDGVITDTAHLHFQAWQ 28
>2pib_A Phosphorylated carbohydrates phosphatase TM_1254; 3D-structure,
structural genomics, NPPSFA; HET: MSE GOL; 1.73A
{Thermotoga maritima MSB8} PDB: 3kbb_A*
Length = 216
Score = 27.6 bits (62), Expect = 1.5
Identities = 8/21 (38%), Positives = 13/21 (61%), Gaps = 6/21 (28%)
Query: 39 VIFDMDGLSL------QQAWQ 53
VIFDMDG+ + +A++
Sbjct: 4 VIFDMDGVLMDTEPLYFEAYR 24
>3iru_A Phoshonoacetaldehyde hydrolase like protein;
phosphonoacetaldehyde hydrolase like P structural
genomics, PSI-2, protein structure initiative; 2.30A
{Oleispira antarctica}
Length = 277
Score = 27.2 bits (60), Expect = 2.2
Identities = 5/22 (22%), Positives = 8/22 (36%), Gaps = 7/22 (31%)
Query: 39 VIFDMDG-------LSLQQAWQ 53
+I D G L+ A+
Sbjct: 17 LILDWAGTTIDFGSLAPVYAFM 38
>1v72_A Aldolase; PLP-dependent enzyme, lyase; HET: PLP; 2.05A {Pseudomonas
putida} SCOP: c.67.1.1
Length = 356
Score = 27.2 bits (61), Expect = 2.3
Identities = 9/56 (16%), Positives = 20/56 (35%), Gaps = 7/56 (12%)
Query: 59 AKRIVDWLQDSIPLRVKGIHVVNQPTIFNMVFALFKPLLREKLRNR-IFFHSTDRD 113
A+R+ L+ + G+ V+ N++F + + L F+
Sbjct: 273 AQRLAQGLEG-----LGGVEVLGGTEA-NILFCRLDSAMIDALLKAGFGFYHDRWG 322
>2bs2_A Quinol-fumarate reductase flavoprotein subunit A; 2Fe-2S, 3Fe-4S,
4Fe-4S, citric acid cycle, dihaem cytochrome B; HET: FAD
HEM LMT; 1.78A {Wolinella succinogenes} SCOP: a.7.3.1
c.3.1.4 d.168.1.1 PDB: 2bs3_A* 1e7p_A* 2bs4_A* 1qlb_A*
Length = 660
Score = 26.9 bits (60), Expect = 2.8
Identities = 9/33 (27%), Positives = 17/33 (51%)
Query: 98 REKLRNRIFFHSTDRDSLHKYLNPECLPEHYKG 130
+K+++ + DR ++ + L P LP YK
Sbjct: 616 IDKIQSELEAAGKDRHAIQEALMPYELPAKYKA 648
>3dv9_A Beta-phosphoglucomutase; structural genomics, APC60149, PSI-
protein structure initiative, midwest center for
structural genomics, MCSG; HET: MSE; 1.72A {Bacteroides
vulgatus}
Length = 247
Score = 26.9 bits (60), Expect = 2.9
Identities = 8/21 (38%), Positives = 13/21 (61%), Gaps = 6/21 (28%)
Query: 39 VIFDMDGL---SL---QQAWQ 53
V+FDMDG+ S+ ++W
Sbjct: 26 VLFDMDGVLFDSMPNHAESWH 46
>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 = 27.1 bits (59), Expect = 3.1
Identities = 16/98 (16%), Positives = 23/98 (23%), Gaps = 23/98 (23%)
Query: 54 FTPTFAKRI-VDWLQDSIPLRVKGI-------HVVNQPTIFNMVFALFKPLLREKLRNRI 105
F F +QD K I H++ + LF L K +
Sbjct: 25 FEDAFVDNFDCKDVQDMP----KSILSKEEIDHIIMSKDAVSGTLRLFW-TLLSKQEEMV 79
Query: 106 --FFHSTDR-------DSLHK-YLNPECLPEHYKGTLD 133
F R + P + Y D
Sbjct: 80 QKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRD 117
>2c8m_A Lipoate-protein ligase A; lipoylation; HET: LPA; 1.89A
{Thermoplasma acidophilum} SCOP: d.104.1.3 PDB: 2art_A*
2aru_A* 2c7i_A 2ars_A* 3r07_A
Length = 262
Score = 26.6 bits (59), Expect = 3.4
Identities = 8/48 (16%), Positives = 12/48 (25%), Gaps = 6/48 (12%)
Query: 102 RNRIFFH-----STDRDSLHKYLNPECLPEHYKGTLDV-SLVTAIGQY 143
+ +H TD D L L K V + +
Sbjct: 155 KGAKLWHAAMLVHTDLDMLSAVLKVPDEKFRDKIAKSTRERVANVTDF 202
>2e5a_A Lipoyltransferase 1; lipoyl-AMP, ligase; HET: LAQ; 2.10A {Bos
taurus} PDB: 3a7u_A
Length = 347
Score = 26.4 bits (58), Expect = 3.9
Identities = 10/49 (20%), Positives = 14/49 (28%), Gaps = 6/49 (12%)
Query: 102 RNRIFFH-----STDRDSLHKYLNPECLPEHYKGTLDV-SLVTAIGQYG 144
RN + H TD L L T +LV + +
Sbjct: 145 RNAAYHHCTLLCGTDGTFLSSLLKSPYQGIRSNATASTPALVKNLMEKD 193
>2fdr_A Conserved hypothetical protein; SAD, structural genomics,
agrobacter tumefaciens, HAD-superfamily hydrolase;
2.00A {Agrobacterium tumefaciens str} SCOP: c.108.1.6
Length = 229
Score = 26.1 bits (58), Expect = 4.2
Identities = 5/8 (62%), Positives = 7/8 (87%)
Query: 39 VIFDMDGL 46
+IFD DG+
Sbjct: 7 IIFDCDGV 14
>3qxg_A Inorganic pyrophosphatase; hydrolase, magnesium binding site, NEW
YORK research center for structural genomics; HET: TLA;
1.24A {Bacteroides thetaiotaomicron} PDB: 3qu2_A*
3qx7_A 3quq_A* 3r9k_A 3qut_A 3qu9_A* 3qu7_A 3qu5_A
3qyp_A 3quc_A 3qub_A 3qu4_A
Length = 243
Score = 26.1 bits (58), Expect = 4.4
Identities = 6/8 (75%), Positives = 8/8 (100%)
Query: 39 VIFDMDGL 46
V+FDMDG+
Sbjct: 27 VLFDMDGV 34
>2qlt_A (DL)-glycerol-3-phosphatase 1; APC7326, RHR2P, saccharom
cerevisiae, structural genomics, PSI-2, protein
structure initiative; 1.60A {Saccharomyces cerevisiae}
Length = 275
Score = 26.2 bits (58), Expect = 4.8
Identities = 4/8 (50%), Positives = 6/8 (75%)
Query: 39 VIFDMDGL 46
+FD+DG
Sbjct: 38 ALFDVDGT 45
>3tm4_A TRNA (guanine N2-)-methyltransferase TRM14; rossmann fold, thump
domain, tRNA methyltransferase; HET: SAM; 1.95A
{Pyrococcus furiosus} PDB: 3tlj_A* 3tm5_A*
Length = 373
Score = 25.9 bits (57), Expect = 5.3
Identities = 6/31 (19%), Positives = 11/31 (35%), Gaps = 4/31 (12%)
Query: 23 LEAAMMEPSSQVAGAQVIFDMDGLSLQQAWQ 53
+E A+ S ++ G + L A
Sbjct: 233 IELALRRYSGEIIG----IEKYRKHLIGAEM 259
>4eek_A Beta-phosphoglucomutase-related protein; hydrolase, magnesium
binding site, enzyme function initiativ; 1.60A
{Deinococcus radiodurans} PDB: 4eel_A* 4een_A
Length = 259
Score = 25.8 bits (57), Expect = 5.9
Identities = 5/8 (62%), Positives = 8/8 (100%)
Query: 39 VIFDMDGL 46
V+FD+DG+
Sbjct: 31 VLFDLDGV 38
>3s6j_A Hydrolase, haloacid dehalogenase-like family; structural
genomics, PSI-2; 2.20A {Pseudomonas syringae PV}
Length = 233
Score = 25.3 bits (56), Expect = 7.9
Identities = 5/7 (71%), Positives = 6/7 (85%)
Query: 39 VIFDMDG 45
IFD+DG
Sbjct: 9 FIFDLDG 15
>3dxi_A Putative aldolase; TIM barrel, 11107N, PSI2, NYSGXRC, structural
genomics, protein structure initiative; 2.04A
{Bacteroides vulgatus atcc 8482}
Length = 320
Score = 25.4 bits (56), Expect = 8.2
Identities = 7/44 (15%), Positives = 11/44 (25%), Gaps = 10/44 (22%)
Query: 40 IFDM---DGLSLQQAWQFTPTFAKRIVDWLQDSIPLRVKGIHVV 80
I D DG W F + + + I +
Sbjct: 5 ILDCTLRDG-GYYTNWDFNSKIVDAYILAMNEL------PIDYL 41
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
0.324 0.138 0.427
Gapped
Lambda K H
0.267 0.0735 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,360,765
Number of extensions: 129221
Number of successful extensions: 393
Number of sequences better than 10.0: 1
Number of HSP's gapped: 385
Number of HSP's successfully gapped: 33
Length of query: 151
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 66
Effective length of database: 4,328,508
Effective search space: 285681528
Effective search space used: 285681528
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 53 (24.2 bits)