RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15241
(117 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 = 118 bits (296), Expect = 7e-33
Identities = 40/115 (34%), Positives = 65/115 (56%), Gaps = 2/115 (1%)
Query: 1 MNVESLRSGQKEGQSSAEVRIAKTAITLCALFVASWTPYAVVALTGAFGDQSLLTPGLTM 60
+N + LR Q ++AE+R+AK +I + + F+ SW+PYAVVAL FG +TP
Sbjct: 241 LNAKELRKAQA--GANAEMRLAKISIVIVSQFLLSWSPYAVVALLAQFGPLEWVTPYAAQ 298
Query: 61 IPACTCKAVACLDPYVYAISHPRYRLELSKRIPCLGIKEKEPEKETASAQTEATT 115
+P KA A +P +Y++SHP++R +S+ P + + +KET + T
Sbjct: 299 LPVMFAKASAIHNPMIYSVSHPKFREAISQTFPWVLTCCQFDDKETEDDKDAETE 353
>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 = 114 bits (288), Expect = 2e-32
Identities = 26/114 (22%), Positives = 44/114 (38%), Gaps = 1/114 (0%)
Query: 2 NVESLRSGQKEGQSSAEVRIAKTAITLCALFVASWTPYAVVALTGAFGDQSLLTPGLTMI 61
+ + Q AE + + I + F+ W PYA VA S P I
Sbjct: 233 EAAAQQQESATTQK-AEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSDFGPIFMTI 291
Query: 62 PACTCKAVACLDPYVYAISHPRYRLELSKRIPCLGIKEKEPEKETASAQTEATT 115
PA K A +P +Y + + ++R + + C + E T ++TE +
Sbjct: 292 PAFFAKTSAVYNPVIYIMMNKQFRNCMVTTLCCGKNPLGDDEASTTVSKTETSQ 345
>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 = 49.6 bits (118), Expect = 2e-08
Identities = 16/91 (17%), Positives = 31/91 (34%), Gaps = 2/91 (2%)
Query: 14 QSSAEVRIAKTAITLCALFVASWTPYAVVALTGAFGDQSLLTPGLTMIPACTCKAVA--C 71
+ RI + + + A+F+ WTP + + A T C C
Sbjct: 374 KDRNLRRITRMVLVVVAVFIVCWTPIHIYVIIKALITIPETTFQTVSWHFCIALGYTNSC 433
Query: 72 LDPYVYAISHPRYRLELSKRIPCLGIKEKEP 102
L+P +YA ++ + ++P
Sbjct: 434 LNPVLYAFLDENFKRCFREFCIPTSSTIEQP 464
>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 = 48.3 bits (115), Expect = 7e-08
Identities = 22/111 (19%), Positives = 37/111 (33%), Gaps = 3/111 (2%)
Query: 9 GQKEGQSSAEVRIAKTAITLCALFVASWTPYAVVALTGAFGDQSLLTPGLTMIPACTCKA 68
+ RI + + + A+FV WTP V L G Q + ++ CT
Sbjct: 323 SGSREKDRNLRRITRLVLVVVAVFVGCWTPVQVFVLAQGLGVQPSSETAVAILRFCTALG 382
Query: 69 VA--CLDPYVYAISHPRYRLELSKRIPCLGIKEKEPEKETASAQTEATTPH 117
CL+P +YA ++ ++ C + E H
Sbjct: 383 YVNSCLNPILYAFLDENFKACF-RKFCCASALGRPLEVLFQGPHHHHHHHH 432
>2ks9_A Substance-P receptor; water, autodock, NK1, neuropeptide
receptor-NEU complex; NMR {Homo sapiens} PDB: 2ksa_A
2ksb_A
Length = 364
Score = 43.9 bits (104), Expect = 2e-06
Identities = 20/108 (18%), Positives = 36/108 (33%), Gaps = 3/108 (2%)
Query: 7 RSGQKEGQSSAEVRIAKTAITLCALFVASWTPYAVVALTGAFGDQSLLTPGLTMI-PACT 65
S + Q SA+ ++ K I + F W P+ + L L + + A
Sbjct: 232 SSDRYHEQVSAKRKVVKMMIVVVCTFAICWLPFHIFFLLPYINPDLYLKKFIQQVYLAIM 291
Query: 66 CKAVA--CLDPYVYAISHPRYRLELSKRIPCLGIKEKEPEKETASAQT 111
A++ +P +Y + R+RL C + T
Sbjct: 292 WLAMSSTMYNPIIYCCLNDRFRLGFKHAFRCCPFISAGDYEGLEMKST 339
>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 = 39.1 bits (91), Expect = 1e-04
Identities = 18/95 (18%), Positives = 32/95 (33%), Gaps = 9/95 (9%)
Query: 14 QSSAEVRIAKTAITLCALFVASWTPYAVVALTGAFGDQSLLTPG-------LTMIPACTC 66
+ + + KT + L F A W PY + +F ++ G I
Sbjct: 404 KGHQKRKALKTTVILILAFFACWLPYYIGISIDSFILLEIIKQGCEFENTVHKWISITEA 463
Query: 67 KAVA--CLDPYVYAISHPRYRLELSKRIPCLGIKE 99
A CL+P +YA +++ + E
Sbjct: 464 LAFFHCCLNPILYAFLGAKFKTSAQHALTSGRPLE 498
>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 = 38.1 bits (88), Expect = 3e-04
Identities = 21/88 (23%), Positives = 35/88 (39%), Gaps = 1/88 (1%)
Query: 18 EVRIAKTAITLCALFVASWTPYAVVALTGAFGDQSLLTPGLTMIPACTCKAV-ACLDPYV 76
EV AK+ + LF W P ++ F P M A + ++P++
Sbjct: 349 EVHAAKSLAIIVGLFALCWLPLHIINCFTFFCPDCSHAPLWLMYLAIVLSHTNSVVNPFI 408
Query: 77 YAISHPRYRLELSKRIPCLGIKEKEPEK 104
YA +R K I ++++EP K
Sbjct: 409 YAYRIREFRQTFRKIIRSHVLRQQEPFK 436
>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 = 37.8 bits (87), Expect = 3e-04
Identities = 19/106 (17%), Positives = 36/106 (33%), Gaps = 3/106 (2%)
Query: 1 MNVESLRSGQKEGQSSAEVRIAKTAITLCALFVASWTPYAVVALTGAFGDQSLLTPGLTM 60
+ EV AK+ + LF W P ++ F L +
Sbjct: 373 TTFRTGTWDAYRSTLQKEVHAAKSLAIIVGLFALCWLPLHIINCFTFFCP-DCSHAPLWL 431
Query: 61 IPACTCKAVA--CLDPYVYAISHPRYRLELSKRIPCLGIKEKEPEK 104
+ + ++P++YA +R K I ++++EP K
Sbjct: 432 MYLAIVLSHTNSVVNPFIYAYRIREFRQTFRKIIRSHVLRQQEPFK 477
>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 = 35.8 bits (82), Expect = 0.001
Identities = 15/76 (19%), Positives = 29/76 (38%), Gaps = 1/76 (1%)
Query: 10 QKEGQSSAEVRIAKTAITLCALFVASWTPYAVVALTGAFGDQSLLTPGLTMIPACTCKAV 69
+ E + AK + A F+ W PY + + AF + L M
Sbjct: 360 DAYLHMNRERKAAKQLGFIMAAFILCWIPYFIFFMVIAFCK-NCCNEHLHMFTIWLGYIN 418
Query: 70 ACLDPYVYAISHPRYR 85
+ L+P +Y + + ++
Sbjct: 419 STLNPLIYPLCNENFK 434
>3v2y_A Sphingosine 1-phosphate receptor 1, lysozyme CHIM; EDG receptor,
lipid receptor, multiple sclerosi autoimmunity,
structural genomics, PSI-biology; HET: ML5 NAG; 2.80A
{Homo sapiens} PDB: 3v2w_A*
Length = 520
Score = 36.0 bits (82), Expect = 0.001
Identities = 17/87 (19%), Positives = 33/87 (37%), Gaps = 3/87 (3%)
Query: 10 QKEGQSSAEVRIAKTAITLCALFVASWTPYAVVALTGAFGDQSLLTPGLTMIPACTCKAV 69
+SS V + KT I + ++F+A W P ++ L + L AV
Sbjct: 408 AYASRSSENVALLKTVIIVLSVFIACWAPLFILLLLDVGC-KVKTCDILFRAEYFLVLAV 466
Query: 70 A--CLDPYVYAISHPRYRLELSKRIPC 94
+P +Y +++ R + +
Sbjct: 467 LNSGTNPIIYTLTNKEMRRAFIRIMGR 493
>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 = 33.9 bits (77), Expect = 0.006
Identities = 16/79 (20%), Positives = 30/79 (37%), Gaps = 4/79 (5%)
Query: 10 QKEGQSSAEVRIAKTAITLCAL---FVASWTPYAVVALTGAFGDQSLLTPGLTMIPACTC 66
R K T+ A+ F+ +W PY V+ L F + + I C
Sbjct: 372 GTWDAYPPPSREKKVTRTILAILLAFIITWAPYNVMVLINTFCA-PCIPNTVWTIGYWLC 430
Query: 67 KAVACLDPYVYAISHPRYR 85
+ ++P YA+ + ++
Sbjct: 431 YINSTINPACYALCNATFK 449
>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 = 33.0 bits (75), Expect = 0.013
Identities = 11/68 (16%), Positives = 20/68 (29%), Gaps = 15/68 (22%)
Query: 18 EVRIAKTAITLCALFVASWTPYAVVALTGAFGDQSLLTPGLTMIPACTCKAVA------- 70
E + KT + F W P+ +V + D +I +
Sbjct: 417 EHKALKTLGIIMGTFTLCWLPFFIVNIVHVIQD--------NLIRKEVYILLNWIGYVNS 468
Query: 71 CLDPYVYA 78
+P +Y
Sbjct: 469 GFNPLIYC 476
>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 = 32.8 bits (74), Expect = 0.017
Identities = 11/76 (14%), Positives = 25/76 (32%)
Query: 10 QKEGQSSAEVRIAKTAITLCALFVASWTPYAVVALTGAFGDQSLLTPGLTMIPACTCKAV 69
G E + + + F+ W P+ + + ++P L
Sbjct: 388 DAYGVPLREKKATQMVAIVLGAFIVCWLPFFLTHVLNTHCQTCHVSPELYSATTWLGYVN 447
Query: 70 ACLDPYVYAISHPRYR 85
+ L+P +Y + +R
Sbjct: 448 SALNPVIYTTFNIEFR 463
>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 = 30.4 bits (68), Expect = 0.11
Identities = 8/44 (18%), Positives = 14/44 (31%)
Query: 7 RSGQKEGQSSAEVRIAKTAITLCALFVASWTPYAVVALTGAFGD 50
+ E + KT + F W P+ +V + D
Sbjct: 392 GTWDAYKFCLKEHKALKTLGIIMGTFTLCWLPFFIVNIVHVIQD 435
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 29.8 bits (67), Expect = 0.16
Identities = 14/82 (17%), Positives = 27/82 (32%), Gaps = 8/82 (9%)
Query: 39 YAVVALTGAFGDQSLLT---PGLTMIPACTCKAVACLDPYVYAISHPRYRLELSKRIPCL 95
Y +VA+ D+ + PG ++ + R R +++
Sbjct: 1202 YGIVAMAATATDKIGRSVPAPGKGILTTAREHHSSVKYASPNLNMKYRKRQLVTRE---A 1258
Query: 96 GIKEKEPEKETASAQTEAT-TP 116
IK+ E + + EA P
Sbjct: 1259 QIKDWVEN-ELEALKLEAEEIP 1279
>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 = 27.4 bits (61), Expect = 1.0
Identities = 18/83 (21%), Positives = 30/83 (36%), Gaps = 7/83 (8%)
Query: 20 RIAKTAITLCALFVASWTPYAVVALTGAFGDQSLLTPGLTMIPACTCKAVA--CLDPYVY 77
+ KT + +F W P+ +V + F P + A A ++P +Y
Sbjct: 229 KALKTLGIIMGVFTLCWLPFFLVNIVNVFNRDL--VPD-WLFVAFNWLGYANSAMNPIIY 285
Query: 78 AISHPRYRLELSKRIPCLGIKEK 100
S P +R KR+ K
Sbjct: 286 CRS-PDFRKAF-KRLLAFPRKAD 306
>3kop_A Uncharacterized protein; protein with A cyclophilin-like fold,
structural genomics, J center for structural genomics,
JCSG; 1.90A {Arthrobacter SP}
Length = 188
Score = 26.3 bits (57), Expect = 2.2
Identities = 14/43 (32%), Positives = 18/43 (41%), Gaps = 1/43 (2%)
Query: 65 TCKAVACLDPYVYAISHPRY-RLELSKRIPCLGIKEKEPEKET 106
T KAV P + H +Y R E+ +P KE E T
Sbjct: 47 TSKAVWDALPQSSQVFHGKYARNEIYNLVPAFAPKEPGAENTT 89
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
0.317 0.129 0.383
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: 1,630,740
Number of extensions: 84108
Number of successful extensions: 120
Number of sequences better than 10.0: 1
Number of HSP's gapped: 117
Number of HSP's successfully gapped: 20
Length of query: 117
Length of database: 6,701,793
Length adjustment: 80
Effective length of query: 37
Effective length of database: 4,468,113
Effective search space: 165320181
Effective search space used: 165320181
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (23.9 bits)