RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16470
(197 letters)
>2nr9_A Protein GLPG homolog; intramembrane peptidase, rhomboid protease,
membrane protein; HET: PA6 PQE; 2.20A {Haemophilus
influenzae} SCOP: f.51.1.1 PDB: 3odj_A
Length = 196
Score = 58.9 bits (143), Expect = 3e-11
Identities = 18/127 (14%), Positives = 37/127 (29%), Gaps = 19/127 (14%)
Query: 2 RDLEKLTGSFRIAIIYFGSGIGGNLASAIFVPYRADVGPAGAHFGLLACLIVEVGPAGAH 61
+E+ GS ++ ++Y + G +G
Sbjct: 78 GMIERTFGSVKLLMLYVVASAITGYVQNYVSGP------------------AFFGLSGVV 119
Query: 62 FGLLACLIVEVLNCWPLLKHPEQALMKLLTITFILLLFGLLPW-VDNFAHLFGFLFGFLL 120
+ +L + + L PE LL + + L + N AH+ G + G +
Sbjct: 120 YAVLGYVFIRDKLNHHLFDLPEGFFTMLLVGIALGFISPLFGVEMGNAAHISGLIVGLIW 179
Query: 121 SYALLPF 127
+
Sbjct: 180 GFIDSKL 186
>2xov_A Rhomboid protease GLPG; membrane protein, hydrolase, intramembrane
protease; HET: BNG; 1.65A {Escherichia coli} PDB:
2ic8_A* 2nrf_A 2xtu_A* 2irv_A* 3b45_A* 2o7l_A* 2xow_A*
3txt_A* 2xtv_A* 3b44_A*
Length = 181
Score = 57.3 bits (139), Expect = 7e-11
Identities = 19/122 (15%), Positives = 39/122 (31%), Gaps = 19/122 (15%)
Query: 2 RDLEKLTGSFRIAIIYFGSGIGGNLASAIFVPYRADVGPAGAHFGLLACLIVEVGPAGAH 61
+EK GS ++ +I S + F G +G
Sbjct: 73 GAVEKRLGSGKLIVITLISALLSGYVQQKFSGP------------------WFGGLSGVV 114
Query: 62 FGLLACLIVEVLNCWPLLKHPEQALMKLLTITFILLLFGLL-PWVDNFAHLFGFLFGFLL 120
+ L+ + + + ++ L+ I + F L + N AH+ G G +
Sbjct: 115 YALMGYVWLRGERDPQSGIYLQRGLIIFALIWIVAGWFDLFGMSMANGAHIAGLAVGLAM 174
Query: 121 SY 122
++
Sbjct: 175 AF 176
>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 = 33.2 bits (76), Expect = 0.016
Identities = 9/26 (34%), Positives = 15/26 (57%)
Query: 135 RQKKIFLIWVCLMFVIIFLVVLLLLF 160
R+KKI +I C++ II + +F
Sbjct: 83 RRKKIMIIICCVILGIIIASTIGGIF 108
>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 = 32.6 bits (73), Expect = 0.034
Identities = 12/56 (21%), Positives = 16/56 (28%), Gaps = 31/56 (55%)
Query: 2 RDLEKLTGSFRIAIIYFGSGIGGNLASAIFVPYRADVGPAGAHFGLLACLI---VE 54
+ L+KL S + Y D PA LA I +E
Sbjct: 20 QALKKLQASLK--------------------LYADDSAPA------LA--IKATME 47
>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 = 31.5 bits (72), Expect = 0.16
Identities = 15/78 (19%), Positives = 36/78 (46%), Gaps = 9/78 (11%)
Query: 86 LMKLLTITFILLLFGLLPWVDNFAHLFGF---LFGFLLSYALLPFVSFGPYDRQKKIFLI 142
++KL + + + G+ A + G F + S + F + GP + Q++ +
Sbjct: 696 ILKLNSTEWPYFVVGIF-----CAIINGGLQPAFSVIFSKVVGVFTNGGPPETQRQNSNL 750
Query: 143 WVCLMFVIIFLVVLLLLF 160
+ L+F+I+ ++ + F
Sbjct: 751 F-SLLFLILGIISFITFF 767
>1fft_B Ubiquinol oxidase; electron transport, cytochrome oxidase, membrane
protein, oxidoreductase; HET: HEM HEO; 3.50A
{Escherichia coli} SCOP: b.6.1.2 f.17.2.1
Length = 315
Score = 30.2 bits (68), Expect = 0.38
Identities = 9/64 (14%), Positives = 22/64 (34%), Gaps = 1/64 (1%)
Query: 104 WVDNFAHLFGFLFGFLLS-YALLPFVSFGPYDRQKKIFLIWVCLMFVIIFLVVLLLLFYL 162
+ + L F LLS G +++ ++ + +I+ + +L+
Sbjct: 6 YNKSLGWLSLFAGTVLLSGCNSALLDPKGQIGLEQRSLILTAFGLMLIVVIPAILMAVGF 65
Query: 163 IPIY 166
Y
Sbjct: 66 AWKY 69
>3lb6_C IL-13, interleukin-13 receptor subunit alpha-2; cytokine, decoy,
decoy receptor, glycoprotein; HET: MLY NAG; 3.05A {Homo
sapiens} PDB: 3lb6_D*
Length = 380
Score = 28.2 bits (62), Expect = 1.6
Identities = 11/51 (21%), Positives = 21/51 (41%), Gaps = 9/51 (17%)
Query: 128 VSFGPYDRQKKIFL-IWVCLMFVIIFLVVLLLLFY--------LIPIYDCE 169
+ D KK L W+ F++I ++ + L +IP + C+
Sbjct: 329 QCWEGEDLSKKTLLRFWLPFGFILILVIFVTGLLLRKPNTYPKMIPEFFCD 379
>2yev_B Cytochrome C oxidase subunit 2; electron transport; HET: FME 5PL
HAS 4AG 7E8 HEC 7E9; 2.36A {Thermus thermophilus}
Length = 337
Score = 26.6 bits (59), Expect = 5.5
Identities = 10/33 (30%), Positives = 16/33 (48%)
Query: 131 GPYDRQKKIFLIWVCLMFVIIFLVVLLLLFYLI 163
G ++++ WV +IFLVV L Y+
Sbjct: 29 GSFNQEVAFLFPWVYFFSFLIFLVVAGSLAYVT 61
>1zrt_D Cytochrome C1; cytochrome BC1, membrane protein, heme protein,
rieske iron sulfur protein; HET: HEM SMA HEC; 3.50A
{Rhodobacter capsulatus}
Length = 258
Score = 26.1 bits (57), Expect = 7.6
Identities = 4/16 (25%), Positives = 10/16 (62%)
Query: 147 MFVIIFLVVLLLLFYL 162
+ ++ L +L ++ YL
Sbjct: 229 LVAMVMLGLLSVMLYL 244
>2qjy_B Cytochrome C1; cytochrome B, 8 TM helixces cytochrome C1, 1 C-TERM
TM helix 1 N-TERM TM helix; HET: BGL HEM SMA LOP UQ2;
2.40A {Rhodobacter sphaeroides} PDB: 2fyn_B* 2qjp_B*
2qjk_B*
Length = 269
Score = 26.1 bits (57), Expect = 7.8
Identities = 7/16 (43%), Positives = 10/16 (62%)
Query: 147 MFVIIFLVVLLLLFYL 162
++FL VL +L YL
Sbjct: 231 FTAVMFLTVLSVLLYL 246
>3bzc_A TEX; helix-turn-helix, helix-hairpin-helix, S1 domain, YQGF domain,
transcription, RNA binding protein; 2.27A {Pseudomonas
aeruginosa} SCOP: a.60.2.6 a.60.2.6 a.294.1.1 b.40.4.5
c.55.3.13 PDB: 3bzk_A 2oce_A
Length = 785
Score = 26.4 bits (59), Expect = 7.9
Identities = 8/21 (38%), Positives = 10/21 (47%), Gaps = 1/21 (4%)
Query: 20 SGIGGNLASAIFVPYRADVGP 40
SG+ LA I V +R G
Sbjct: 514 SGLNSTLAQNI-VAHRDANGA 533
>2yiu_B Cytochrome C1, heme protein; oxidoreductase; HET: HEM SMA HEC;
2.70A {Paracoccus denitrificans}
Length = 263
Score = 26.1 bits (57), Expect = 8.7
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 147 MFVIIFLVVLLLLFYL 162
+IFL+VL L YL
Sbjct: 232 FVSVIFLIVLAALLYL 247
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
0.335 0.153 0.507
Gapped
Lambda K H
0.267 0.0616 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,101,660
Number of extensions: 182512
Number of successful extensions: 638
Number of sequences better than 10.0: 1
Number of HSP's gapped: 624
Number of HSP's successfully gapped: 48
Length of query: 197
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 108
Effective length of database: 4,216,824
Effective search space: 455416992
Effective search space used: 455416992
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.6 bits)
S2: 55 (25.2 bits)