RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14658
(306 letters)
>3h90_A Ferrous-iron efflux pump FIEF; membrane protein, zinc transporter,
cell inner membrane, cell membrane, ION transport, iron
transport; 2.90A {Escherichia coli k-12} PDB: 2qfi_A
Length = 283
Score = 98.8 bits (247), Expect = 2e-24
Identities = 37/236 (15%), Positives = 92/236 (38%), Gaps = 20/236 (8%)
Query: 19 ARRKLWFASILCLVFMICEIVGGYFSGSLAIATDAAHLLTDFASFMISLIALWVASRPAT 78
R A+ + + ++ +I +++GS++I L D + + +L+ + + +PA
Sbjct: 2 VSRAAIAATAMASLLLLIKIFAWWYTGSVSILAALVDSLVDIGASLTNLLVVRYSLQPAD 61
Query: 79 KQMPFGWYRAE-----------VVTGI-LLYIAIERVITKNFDIEPTIMLYTSVFGLIVN 126
FG +AE + + L I+ +I+ +P + + ++ LI
Sbjct: 62 DNHSFGHGKAESLAALAQSMFISGSALFLFLTGIQHLISPTPMTDPGVGVIVTIVALICT 121
Query: 127 VLMGCTLHQHSHSHGGVREDVNVNVRAAFIHVLGDFLQSFGVFVAAVVIYFKPEWVLVDP 186
+++ + VRA +H D + + + +A + ++ W D
Sbjct: 122 IILVSFQRWVVRRTQ------SQAVRADMLHYQSDVMMNGAILLALGLSWYG--WHRADA 173
Query: 187 ICTFLFALLVLATTFTILRDIMIVLMEGIPRGVEFTDVLNTFLDIEGVEKVHNLRI 242
+ + +L + + + + L++ E ++++ GV H+LR
Sbjct: 174 LFALGIGIYILYSALRMGYEAVQSLLDRALPDEERQEIIDIVTSWPGVSGAHDLRT 229
>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 = 46.8 bits (110), Expect = 6e-06
Identities = 39/317 (12%), Positives = 83/317 (26%), Gaps = 92/317 (29%)
Query: 5 DHCHRERKNKNDKKARRKLWFASILCLVFMICEIVGGYFSG--SLAIATDAAHLLTDFAS 62
+ R + ++A +L A + + + G SG +A+
Sbjct: 129 YNVSRLQPYLKLRQALLELRPAKNVLIDGV-----LG--SGKTWVALDV----------- 170
Query: 63 FMISLIALWVASRPATKQMPFGWYRAEVVTGILLYIAIERVITKNFDIEPTIMLYTSVFG 122
S +M F + ++ ++ + +E L +
Sbjct: 171 ---------CLSYKVQCKMDFKIF----------WLNLKNCNSPETVLEMLQKLLYQI-- 209
Query: 123 LIVNVLMGCTLHQHSHSHGGVREDVNVNVRAAFIH--------VLGDFLQSFGVFVAAVV 174
+ HS + + +R VL + V A
Sbjct: 210 ----DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLN------VQNAKAW 259
Query: 175 IYFKPEWVLVDPICTFLFALLVLATTFTILRDIMI--VLMEGIPRGVEFTDVLNTFLDIE 232
F + C +L TT R + L + T E
Sbjct: 260 NAF-------NLSCK------ILLTT----RFKQVTDFLSAATTTHISLDHHSMTLTPDE 302
Query: 233 GVE---KVHNLRIWALSLDKAALSAH-LAVKPGTDAGLILKQASRLVHTKFDFFEMTLQI 288
K + R L + L+ + + +I + + T +D ++ +
Sbjct: 303 VKSLLLKYLDCRPQDLP--REVLTTNPRRL------SIIAESIRDGLAT-WDNWKH-VNC 352
Query: 289 EEFNATMEACDQCQSPA 305
++ +E+ PA
Sbjct: 353 DKLTTIIESSLNVLEPA 369
Score = 28.7 bits (63), Expect = 3.4
Identities = 16/102 (15%), Positives = 34/102 (33%), Gaps = 15/102 (14%)
Query: 205 RDIMIVLMEGIPRGVEFTDVLNTFLDIEGVEKVHNLRIWALSLDKAALSAHLAVKPGTDA 264
+DI+ V + + DV + I E++ ++ + A
Sbjct: 19 KDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHI----IMSKDAVSGTLRLF------ 68
Query: 265 GLILKQASRLVHTKFDFFEMTLQIEEFNATMEAC-DQCQSPA 305
+L + +V F E L+I + M + + P+
Sbjct: 69 WTLLSKQEEMVQ---KFVEEVLRI-NYKFLMSPIKTEQRQPS 106
>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 = 32.3 bits (73), Expect = 0.23
Identities = 38/230 (16%), Positives = 75/230 (32%), Gaps = 64/230 (27%)
Query: 73 ASRPATKQMPFGWYRAEVVTGILLYIAIERVITKNFDIEPTIMLYTSVFGLIVNVLMGCT 132
+ A + + W RA+ +I ++ N P + T FG G
Sbjct: 1637 KTSKAAQDV---WNRADNHFKDTYGFSILDIVINN----PVNL--TIHFGGE----KGKR 1683
Query: 133 LHQHSHSHGGVREDVNVNVRAAFIHVLGDFLQSFGVFVAAVVIYFKPEWVLVD-----PI 187
+ ++ + + + V+ + + + + + + + +L P
Sbjct: 1684 IREN---YSAMIFETIVDGKLKTEKIFKEINEH-----STSYTFRSEKGLLSATQFTQP- 1734
Query: 188 CTFLFALLVLA-TTFTILRDIMIVLMEG-IPRGV--------EFT------DVLNTFLDI 231
AL ++ F L+ +G IP E+ DV + I
Sbjct: 1735 -----ALTLMEKAAFEDLKS------KGLIPADATFAGHSLGEYAALASLADV----MSI 1779
Query: 232 E-GVEKVH---NLRIWALSLDKAALSAH--LAVKPGTDAGLILKQASRLV 275
E VE V A+ D+ S + +A+ PG A ++A + V
Sbjct: 1780 ESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYV 1829
Score = 27.3 bits (60), Expect = 7.5
Identities = 15/78 (19%), Positives = 25/78 (32%), Gaps = 23/78 (29%)
Query: 43 FSGSLAIATDA----------AHLLTDFASFMISLIALWVASRPATKQMPFGWYRAEVVT 92
F+ L T+ A L+ F ++ SL+ +K F +V+
Sbjct: 37 FNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLV-------EPSKVGQF----DQVLN 85
Query: 93 GILLYIAIERVITKNFDI 110
L E + DI
Sbjct: 86 --LCLTEFENCYLEGNDI 101
>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP,
cyclic peptide, membrane protein; 3.80A {Mus musculus}
PDB: 3g61_A* 3g60_A*
Length = 1284
Score = 30.0 bits (68), Expect = 1.3
Identities = 13/60 (21%), Positives = 23/60 (38%), Gaps = 10/60 (16%)
Query: 145 EDVNVNVRAAFIHVLGDFLQSFGVFVAAVVIYFKPEWVLVDPICTFLFALLVLATTFTIL 204
+DV+ + +G F Q+ F +I F W L L++LA + +
Sbjct: 173 DDVSK-INEGIGDKIGMFFQAMATFFGGFIIGFTRGWKL---------TLVILAISPVLG 222
Score = 27.3 bits (61), Expect = 7.5
Identities = 11/50 (22%), Positives = 16/50 (32%), Gaps = 9/50 (18%)
Query: 150 NVRAAFIHVLGDFLQSFGVFVAAVVIYFKPEWVLVDPICTFLFALLVLAT 199
V+ A L Q+ ++I W L LL+LA
Sbjct: 820 QVKGATGSRLAVIFQNIANLGTGIIISLIYGWQL---------TLLLLAI 860
>3fij_A LIN1909 protein; 11172J, uncharacterized protein, nysgrc, PSI-II,
structural genomics, protein structure initiative; 2.30A
{Listeria innocua}
Length = 254
Score = 28.0 bits (63), Expect = 3.4
Identities = 7/19 (36%), Positives = 10/19 (52%)
Query: 124 IVNVLMGCTLHQHSHSHGG 142
+VNV +G TL+Q
Sbjct: 120 LVNVALGGTLYQDISQVET 138
>1rz2_A Conserved hypothetical protein BA4783; sortase B protein, B.
anthracis, structural genomics, PSI, P structure
initiative; 1.60A {Bacillus anthracis} SCOP: b.100.1.1
PDB: 2oqz_A* 2oqw_A*
Length = 254
Score = 28.0 bits (62), Expect = 3.4
Identities = 9/33 (27%), Positives = 18/33 (54%)
Query: 14 KNDKKARRKLWFASILCLVFMICEIVGGYFSGS 46
++K+ ++K++F IL +VF+ Y G
Sbjct: 2 SSEKERKKKIFFQRILTVVFLGTFFYSVYELGD 34
>1gmu_A UREE; metallochaperone; 1.5A {Klebsiella aerogenes} SCOP: b.107.1.1
d.58.38.1 PDB: 1gmw_A 1gmw_D 1gmv_A
Length = 143
Score = 27.5 bits (61), Expect = 3.5
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 157 HVLGDFLQSFGVFVAAVVIYFKPE 180
HVL D L+ FG+ V + F+PE
Sbjct: 112 HVLDDMLRQFGLTVTFGQLPFEPE 135
>2e7z_A Acetylene hydratase AHY; tungstoprotein, DMSO reductase family,
iron-sulfur-cluster, lyase; HET: MGD; 1.26A {Pelobacter
acetylenicus}
Length = 727
Score = 28.0 bits (63), Expect = 4.4
Identities = 7/14 (50%), Positives = 9/14 (64%)
Query: 255 HLAVKPGTDAGLIL 268
L ++ GTDA L L
Sbjct: 210 WLPLRYGTDAALFL 223
>2vpz_A Thiosulfate reductase; oxidoreductase, molybdopterin guanine
dinucleotide, iron-sulfur, metal-binding, molybdopterin;
HET: MGD; 2.40A {Thermus thermophilus} PDB: 2vpx_A*
2vpw_A* 2vpy_A*
Length = 765
Score = 27.6 bits (62), Expect = 5.7
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 255 HLAVKPGTDAGLIL 268
L +KPGTD L+L
Sbjct: 249 WLPIKPGTDTALLL 262
>1g8k_A Arsenite oxidase; molybdopterin, [3Fe-4S] cluster, [2Fe-2S] rieske,
oxidoreductase; HET: MGD; 1.64A {Alcaligenes faecalis}
SCOP: b.52.2.2 c.81.1.1 PDB: 1g8j_A*
Length = 825
Score = 27.7 bits (62), Expect = 6.2
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 255 HLAVKPGTDAGLI 267
HLA++PGTD L
Sbjct: 298 HLAIEPGTDTALF 310
>3owq_A LIN1025 protein; structural genomics, PSI-biology, protein
structure initiati northeast structural genomics
consortium, NESG, unknown FUN; 2.61A {Listeria innocua}
PDB: 3nro_A
Length = 321
Score = 27.4 bits (61), Expect = 6.4
Identities = 4/35 (11%), Positives = 12/35 (34%)
Query: 9 RERKNKNDKKARRKLWFASILCLVFMICEIVGGYF 43
R + K+ + + L+ ++ + G
Sbjct: 5 RTETKQKKPSTFTKVMKIASVTLLGILFFSITGLA 39
>1tmo_A TMAO reductase, trimethylamine N-oxide reductase; oxidoreductase,
oxotransferase, molybdoenzyme, MO-cofactor, molybdenum;
HET: 2MD; 2.50A {Shewanella massilia} SCOP: b.52.2.2
c.81.1.1
Length = 829
Score = 27.5 bits (61), Expect = 6.5
Identities = 7/14 (50%), Positives = 8/14 (57%)
Query: 255 HLAVKPGTDAGLIL 268
L V P TD L+L
Sbjct: 272 QLYVNPQTDVTLML 285
>1eu1_A Dimethyl sulfoxide reductase; molybdenum, molybdenum cofactor,
DMSO, molybdopte oxidoreductase; HET: GLC MGD EPE; 1.30A
{Rhodobacter sphaeroides} SCOP: b.52.2.2 c.81.1.1 PDB:
4dmr_A* 1dmr_A* 1e5v_A* 1h5n_A* 2dmr_A* 3dmr_A* 1e61_A*
1e60_A* 1e18_A* 1dms_A*
Length = 780
Score = 27.4 bits (61), Expect = 7.1
Identities = 5/14 (35%), Positives = 9/14 (64%)
Query: 255 HLAVKPGTDAGLIL 268
++ +P TD L+L
Sbjct: 235 VVSPRPQTDVALML 248
>3bso_A RNA dependent RNA polymerase; RNA-dependent RNA polymerase, viral
replication, antiviral E inhibitor, helicase, hydrolase;
HET: CTP; 1.74A {Norwalk virus} PDB: 3bsn_A* 3h5x_A*
3h5y_A* 1sh0_A 1sh2_A 1sh3_A 2b43_A
Length = 510
Score = 27.1 bits (59), Expect = 8.5
Identities = 14/58 (24%), Positives = 24/58 (41%), Gaps = 5/58 (8%)
Query: 170 VAAVVIYFKPEWVLVDPICTFLFALLVLATTFTILRDIMIVLMEGIPRGVEFTDVLNT 227
+++ F E L + L L+ + + D I + EG+P GV T N+
Sbjct: 258 ALEIMVKFSSEPHLAQVVAEDL-----LSPSVVDVGDFTISINEGLPSGVPCTSQWNS 310
>2nap_A Protein (periplasmic nitrate reductase); nitrogenous acceptor,
dissimilatory nitrate reductase; HET: MGD MES; 1.90A
{Desulfovibrio desulfuricans} SCOP: b.52.2.2 c.81.1.1
PDB: 2jim_A* 2jir_A* 2jip_A* 2v45_A* 2v3v_A* 2jiq_A*
2jio_A*
Length = 723
Score = 27.2 bits (61), Expect = 9.0
Identities = 6/13 (46%), Positives = 9/13 (69%)
Query: 255 HLAVKPGTDAGLI 267
H+A +PGTD +
Sbjct: 217 HVAFRPGTDLAFM 229
>3hd7_B Syntaxin-1A; membrane protein, coiled-coil, 4-helical bundle, cell
juncti cytoplasmic vesicle, membrane, phosphoprotein;
HET: GGG; 3.40A {Rattus norvegicus} PDB: 3hd9_B 3ipd_B
Length = 109
Score = 25.9 bits (57), Expect = 9.8
Identities = 12/32 (37%), Positives = 15/32 (46%), Gaps = 2/32 (6%)
Query: 14 KNDKKARRKLWFASILCLVFM--ICEIVGGYF 43
K KARRK I C++ I +GG F
Sbjct: 77 KYQSKARRKKIMIIICCVILGIIIASTIGGIF 108
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
0.328 0.140 0.430
Gapped
Lambda K H
0.267 0.0466 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,826,355
Number of extensions: 296554
Number of successful extensions: 878
Number of sequences better than 10.0: 1
Number of HSP's gapped: 872
Number of HSP's successfully gapped: 29
Length of query: 306
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 213
Effective length of database: 4,105,140
Effective search space: 874394820
Effective search space used: 874394820
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 57 (26.4 bits)