RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4254
(114 letters)
>2z73_A Rhodopsin; visual pigment, GQ-type, G-protein coupled receptor,
chromophore, glycoprotein, lipoprotein, membrane,
palmitate phosphorylation; HET: BOG RET PLM TWT PC1;
2.50A {Todarodes pacificus} PDB: 3aym_A* 3ayn_A* 2ziy_A*
Length = 448
Score = 55.3 bits (133), Expect = 2e-10
Identities = 21/48 (43%), Positives = 33/48 (68%)
Query: 55 RTAQILLMLVICFLLAWTPYAVITFIGQFGDASLITPWVSATPAIFAK 102
R A+I +++V FLL+W+PYAV+ + QFG +TP+ + P +FAK
Sbjct: 258 RLAKISIVIVSQFLLSWSPYAVVALLAQFGPLEWVTPYAAQLPVMFAK 305
>1u19_A Rhodopsin; G protein-coupled receptor, membrane protein, retinal
protei photoreceptor, signaling protein; HET: MAN NAG
BMA RET PLM HTO HTG; 2.20A {Bos taurus} SCOP: f.13.1.2
PDB: 1hzx_A* 1gzm_A* 1l9h_A* 2g87_A* 2hpy_A* 2i35_A*
2i36_A* 2i37_A* 2ped_A* 3oax_A* 3c9l_A* 1jfp_A* 1ln6_A*
1f88_A* 3cap_A* 3dqb_A* 3pqr_A* 3pxo_A* 3c9m_A* 2x72_A*
...
Length = 349
Score = 54.7 bits (132), Expect = 3e-10
Identities = 16/48 (33%), Positives = 24/48 (50%)
Query: 55 RTAQILLMLVICFLLAWTPYAVITFIGQFGDASLITPWVSATPAIFAK 102
++++++VI FL+ W PYA + F S P PA FAK
Sbjct: 250 EVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSDFGPIFMTIPAFFAK 297
>4ea3_A Fusion protein of nociceptin receptor and cytochr; PSI-biology GPCR
network, structural genomics, GPCR membrane 7TM NOP ORL1
cytochrome B562; HET: 0NN OLB OLA OLC; 3.01A {Homo
sapiens}
Length = 434
Score = 31.3 bits (71), Expect = 0.052
Identities = 16/83 (19%), Positives = 28/83 (33%), Gaps = 10/83 (12%)
Query: 20 PLTKICDCGGVVTNYTL-AYKL---AMPIHRATPLNSAVRTAQILLMLVICFLLAWTPYA 75
P+ I C Y+L +L + + R +++L++V F+ WTP
Sbjct: 301 PVLVISVC------YSLMIRRLRGVRLLSGSREKDRNLRRITRLVLVVVAVFVGCWTPVQ 354
Query: 76 VITFIGQFGDASLITPWVSATPA 98
V G V+
Sbjct: 355 VFVLAQGLGVQPSSETAVAILRF 377
>3pbl_A D(3) dopamine receptor, lysozyme chimera; structural genomics,
PSI-2, protein structure initiative, AC technologies
center for gene to 3D structure; HET: ETQ MAL; 2.89A
{Homo sapiens}
Length = 481
Score = 30.9 bits (69), Expect = 0.070
Identities = 5/49 (10%), Positives = 19/49 (38%)
Query: 45 HRATPLNSAVRTAQILLMLVICFLLAWTPYAVITFIGQFGDASLITPWV 93
+ Q++ +++ F++ W P+ + + ++P +
Sbjct: 388 DAYGVPLREKKATQMVAIVLGAFIVCWLPFFLTHVLNTHCQTCHVSPEL 436
>3sn6_R Lysozyme, beta-2 adrenergic receptor; seven transmembrane receptor,
nanobody, G protein-coupled RE GPCR, signal
transduction, G protein signaling; HET: P0G; 3.20A
{Enterobacteria phage T4} PDB: 3kj6_A 2r4s_A 2r4r_A
Length = 514
Score = 30.3 bits (68), Expect = 0.11
Identities = 10/82 (12%), Positives = 25/82 (30%), Gaps = 2/82 (2%)
Query: 13 RYQVRS-PPLTKICDCGGVVTNYTLAYKLAMPIHRATPLNSAVRTAQILLMLVICFLLAW 71
+ Q++ + + + + L +++ F L W
Sbjct: 376 KRQLQKIDKSEGRFHVQNLSQVEQDGRTGHGLRRSSKFCLKEHKALKTLGIIMGTFTLCW 435
Query: 72 TPYAVITFIGQFGDASLITPWV 93
P+ ++ + D +LI V
Sbjct: 436 LPFFIVNIVHVIQD-NLIRKEV 456
>3eml_A Human adenosine A2A receptor/T4 lysozyme chimera; caffeine, GPCR,
membrane protein, LCP, mesophase, structural genomics,
PSI-2; HET: ZMA STE; 2.60A {Homo sapiens} PDB: 3qak_A*
Length = 488
Score = 29.7 bits (66), Expect = 0.20
Identities = 14/50 (28%), Positives = 20/50 (40%), Gaps = 1/50 (2%)
Query: 45 HRATPLNSAVRTAQILLMLVICFLLAWTPYAVITFIGQF-GDASLITPWV 93
+ L V A+ L ++V F L W P +I F D S W+
Sbjct: 382 AYRSTLQKEVHAAKSLAIIVGLFALCWLPLHIINCFTFFCPDCSHAPLWL 431
>2rh1_A Beta-2-adrenergic receptor/T4-lysozyme chimera; GPCR, 7TM, fusion,
lipidic cubic phase, lipidic, mesophase, cholesterol,
membrane protein; HET: MAL CAU CLR PLM 12P; 2.40A {Homo
sapiens} PDB: 3p0g_A* 3d4s_A* 3ny8_A* 3ny9_A* 3nya_A*
3pds_A*
Length = 500
Score = 28.5 bits (63), Expect = 0.50
Identities = 9/49 (18%), Positives = 19/49 (38%), Gaps = 1/49 (2%)
Query: 45 HRATPLNSAVRTAQILLMLVICFLLAWTPYAVITFIGQFGDASLITPWV 93
+ + L +++ F L W P+ ++ + D +LI V
Sbjct: 395 DAYKFCLKEHKALKTLGIIMGTFTLCWLPFFIVNIVHVIQD-NLIRKEV 442
>4eiy_A Adenosine receptor A2A/soluble cytochrome B562 CH; novel protein
engineering, GPCR network, PSI-biology, struct genomics,
membrane protein, GPCR; HET: ZMA CLR OLA OLC OLB; 1.80A
{Homo sapiens} PDB: 3vg9_A* 3vga_A* 2ydv_A* 2ydo_A*
3uza_A* 3rey_A* 3rfm_A* 3pwh_A* 3uzc_A* 4er9_A
Length = 447
Score = 28.1 bits (62), Expect = 0.62
Identities = 14/83 (16%), Positives = 22/83 (26%)
Query: 10 PRRRYQVRSPPLTKICDCGGVVTNYTLAYKLAMPIHRATPLNSAVRTAQILLMLVICFLL 69
+ + + AY + L V A+ L ++V F L
Sbjct: 306 DDALKLANEGKVKEAQAAAEQLKTTRNAYIQKYLERARSTLQKEVHAAKSLAIIVGLFAL 365
Query: 70 AWTPYAVITFIGQFGDASLITPW 92
W P +I F P
Sbjct: 366 CWLPLHIINCFTFFCPDCSHAPL 388
>4dkl_A MU-type opioid receptor, lysozyme chimera; G-protein coupled
receptor, 7 transmembrane receptor, signal
protein-antagonist complex; HET: BF0 CLR MPG 1PE; 2.80A
{Mus musculus} PDB: 4ej4_A* 4djh_A*
Length = 464
Score = 28.0 bits (62), Expect = 0.67
Identities = 9/36 (25%), Positives = 17/36 (47%)
Query: 55 RTAQILLMLVICFLLAWTPYAVITFIGQFGDASLIT 90
R +++L++V F++ WTP + I T
Sbjct: 380 RITRMVLVVVAVFIVCWTPIHIYVIIKALITIPETT 415
>4amj_A Beta-1 adrenergic receptor; membrane protein, 7TMR
BETA1-adrenoceptor, stabilising mutat biased agonist;
HET: CVD 2CV; 2.30A {Meleagris gallopavo} PDB: 2y01_A*
2y02_A* 2y03_A* 2y04_A* 4ami_A* 2y00_A* 2vt4_A* 2ycw_A*
2ycx_A* 2ycy_A* 2ycz_A*
Length = 315
Score = 27.0 bits (60), Expect = 1.3
Identities = 6/31 (19%), Positives = 15/31 (48%)
Query: 55 RTAQILLMLVICFLLAWTPYAVITFIGQFGD 85
+ + L +++ F L W P+ ++ + F
Sbjct: 229 KALKTLGIIMGVFTLCWLPFFLVNIVNVFNR 259
>2ks9_A Substance-P receptor; water, autodock, NK1, neuropeptide
receptor-NEU complex; NMR {Homo sapiens} PDB: 2ksa_A
2ksb_A
Length = 364
Score = 26.9 bits (60), Expect = 1.4
Identities = 4/39 (10%), Positives = 18/39 (46%)
Query: 55 RTAQILLMLVICFLLAWTPYAVITFIGQFGDASLITPWV 93
+ ++++++V F + W P+ + + + ++
Sbjct: 245 KVVKMMIVVVCTFAICWLPFHIFFLLPYINPDLYLKKFI 283
>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 = 26.9 bits (59), Expect = 1.7
Identities = 20/90 (22%), Positives = 36/90 (40%), Gaps = 21/90 (23%)
Query: 32 TNYTLAYKLAMPIHRATPLNSAVRTAQILLMLVICFLLAWTPYAVITFI-GQFGDASLIT 90
+Y L+ ++ P+ Q+ +V LL +TP + +++ G G + +
Sbjct: 228 KDYLLSIPISCPLIGVI---------QLAHYVVTAKLLGFTPGELRSYLKGATGHSQGL- 277
Query: 91 PWVSATPAIFAK------FLVDSRIYILVL 114
V+A A+ F V R I VL
Sbjct: 278 --VTA--VAIAETDSWESFFVSVRKAITVL 303
>3odu_A C-X-C chemokine receptor type 4, lysozyme chimera; structural
genomics, PSI-2, protein structure initiative; HET: ITD
OLC OLA; 2.50A {Homo sapiens} PDB: 3oe8_A* 3oe6_A*
3oe0_A* 3oe9_A* 2k03_B* 2k04_B 2k05_B*
Length = 502
Score = 26.8 bits (59), Expect = 1.7
Identities = 8/54 (14%), Positives = 20/54 (37%)
Query: 38 YKLAMPIHRATPLNSAVRTAQILLMLVICFLLAWTPYAVITFIGQFGDASLITP 91
++ + + + + ++L++ F W PY + I F +I
Sbjct: 393 FRTGTWDAYGSKGHQKRKALKTTVILILAFFACWLPYYIGISIDSFILLEIIKQ 446
>2edb_A Netrin receptor DCC; tumor suppressor protein DCC, colorectal
cancer suppressor, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 116
Score = 25.9 bits (57), Expect = 2.0
Identities = 11/42 (26%), Positives = 17/42 (40%), Gaps = 4/42 (9%)
Query: 18 SPPLTKICDCGGVVTNYTLAYKLAMPIHRATPLNSAVRTAQI 59
+PPL + VV Y + Y + P ++S R I
Sbjct: 38 TPPL----NPNIVVRGYIIGYGVGSPYAETVRVDSKQRYYSI 75
>3uon_A Human M2 muscarinic acetylcholine, receptor T4 LY fusion protein; G
protein-coupled receptor, GPCR, SI protein-antagonist
complex; HET: QNB BGC; 3.00A {Homo sapiens} PDB: 4daj_A*
Length = 467
Score = 26.2 bits (57), Expect = 2.5
Identities = 9/52 (17%), Positives = 21/52 (40%)
Query: 45 HRATPLNSAVRTAQILLMLVICFLLAWTPYAVITFIGQFGDASLITPWVSAT 96
P + + + +L +++ F++ W PY V+ I F + +
Sbjct: 375 DAYPPPSREKKVTRTILAILLAFIITWAPYNVMVLINTFCAPCIPNTVWTIG 426
>3rag_A Uncharacterized protein; structural genomics, PSI-biology, midwest
center for structu genomics, MCSG, tructural genomics;
1.80A {Alicyclobacillus acidocaldarius subsp}
Length = 242
Score = 25.9 bits (56), Expect = 3.0
Identities = 12/52 (23%), Positives = 20/52 (38%)
Query: 52 SAVRTAQILLMLVICFLLAWTPYAVITFIGQFGDASLITPWVSATPAIFAKF 103
VR A L L + +VI F G+ +A+ + S+ + A
Sbjct: 152 PTVREAVRDLALSLKVRSGPLAVSVIAFPGKGEEATRLVQPFSSEVNVAALE 203
>3rze_A Histamine H1 receptor, lysozyme chimera; structural genomics,
PSI-biology, membrane protein, GPCR NET GPCR, hydrolase;
HET: 5EH D7V OLC; 3.10A {Homo sapiens}
Length = 452
Score = 25.8 bits (56), Expect = 4.4
Identities = 9/39 (23%), Positives = 17/39 (43%)
Query: 45 HRATPLNSAVRTAQILLMLVICFLLAWTPYAVITFIGQF 83
+N + A+ L ++ F+L W PY + + F
Sbjct: 360 DAYLHMNRERKAAKQLGFIMAAFILCWIPYFIFFMVIAF 398
>2i3y_A Epididymal secretory glutathione peroxidase; thioredoxin fold,
epididymal androgen related protein, struc genomics,
structural genomics consortium; 2.00A {Homo sapiens}
Length = 215
Score = 25.0 bits (55), Expect = 5.4
Identities = 8/29 (27%), Positives = 9/29 (31%), Gaps = 3/29 (10%)
Query: 81 GQFGDASLITPWVSATPAI---FAKFLVD 106
G I+ I F KFLV
Sbjct: 156 EILGTFKSISWDPVKVHDIRWNFEKFLVG 184
>1x5i_A Neogenin; RGM binding, fibronectin type III domain, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
SCOP: b.1.2.1
Length = 126
Score = 24.7 bits (54), Expect = 7.2
Identities = 9/42 (21%), Positives = 16/42 (38%), Gaps = 4/42 (9%)
Query: 18 SPPLTKICDCGGVVTNYTLAYKLAMPIHRATPLNSAVRTAQI 59
+PP + VV Y + Y + P + ++ R I
Sbjct: 48 TPPE----NQNIVVRGYAIGYGIGSPHAQTIKVDYKQRYYTI 85
>2r37_A Glutathione peroxidase 3; plasma, structural genomics consort
oxidoreductase, secreted, selenium, selenocysteine;
1.85A {Homo sapiens}
Length = 207
Score = 24.6 bits (54), Expect = 8.3
Identities = 7/29 (24%), Positives = 9/29 (31%), Gaps = 3/29 (10%)
Query: 81 GQFGDASLITPWVSATPAI---FAKFLVD 106
G + + I F KFLV
Sbjct: 138 ELLGTSDRLFWEPMKVHDIRWNFEKFLVG 166
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
0.330 0.143 0.450
Gapped
Lambda K H
0.267 0.0536 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,712,208
Number of extensions: 85282
Number of successful extensions: 197
Number of sequences better than 10.0: 1
Number of HSP's gapped: 197
Number of HSP's successfully gapped: 24
Length of query: 114
Length of database: 6,701,793
Length adjustment: 77
Effective length of query: 37
Effective length of database: 4,551,876
Effective search space: 168419412
Effective search space used: 168419412
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 (21.9 bits)
S2: 51 (23.9 bits)