RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3302
(123 letters)
>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 = 136 bits (344), Expect = 8e-40
Identities = 46/119 (38%), Positives = 67/119 (56%)
Query: 5 NVPYTICEVLVALGAVIGNSLVIVAFGREKRLRRRTNYYIVSLAVADLLVGLVGIPCALL 64
+ Y E+ +A+ A++GN LV A L+ TNY++VSLA AD+ VG++ IP A+
Sbjct: 31 SSVYITVELAIAVLAILGNVLVCWAVWLNSNLQNVTNYFVVSLAAADIAVGVLAIPFAIT 90
Query: 65 ASVGLPRHLYACLFTISLLVVLCTISIFCLVAVSVDRYWAILFPMGYARNVTTKIAVCK 123
S G + CLF ++VL SIF L+A+++DRY AI P+ Y VT A
Sbjct: 91 ISTGFCAACHGCLFIACFVLVLTQSSIFSLLAIAIDRYIAIRIPLRYNGLVTGTRAKGI 149
>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 = 134 bits (339), Expect = 9e-39
Identities = 46/115 (40%), Positives = 66/115 (57%)
Query: 8 YTICEVLVALGAVIGNSLVIVAFGREKRLRRRTNYYIVSLAVADLLVGLVGIPCALLASV 67
Y E+ +A+ A++GN LV A L+ TNY++VSLA AD+ VG++ IP A+ S
Sbjct: 24 YITVELAIAVLAILGNVLVCWAVWLNSNLQNVTNYFVVSLAAADIAVGVLAIPFAITIST 83
Query: 68 GLPRHLYACLFTISLLVVLCTISIFCLVAVSVDRYWAILFPMGYARNVTTKIAVC 122
G + CLF ++VL SIF L+A+++DRY AI P+ Y VT A
Sbjct: 84 GFCAACHGCLFIACFVLVLTQSSIFSLLAIAIDRYIAIRIPLRYNGLVTGTRAKG 138
>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 = 115 bits (290), Expect = 1e-31
Identities = 42/114 (36%), Positives = 57/114 (50%), Gaps = 6/114 (5%)
Query: 13 VLVALGAVIGNSLVIVAFGREKRLRRRTNYYIVSLAVADLLVGLVGIPCALLASVG---- 68
L+ L V GN LVI A + +RL+ TNY+I SLA ADL++GL +P +
Sbjct: 190 SLIVLAIVFGNVLVITAIAKFERLQTVTNYFITSLACADLVMGLAVVPFGAAHILTKTWT 249
Query: 69 LPRHLYACLFTISLLVVLCTISIFCLVAVSVDRYWAILFPMGYARNVTTKIAVC 122
C F S+ V+ T SI L ++VDRY+AI P Y +T A
Sbjct: 250 FGNFW--CEFWTSIDVLCVTASIETLCVIAVDRYFAITSPFKYQSLLTKNKARV 301
>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 = 115 bits (288), Expect = 2e-31
Identities = 23/114 (20%), Positives = 49/114 (42%), Gaps = 2/114 (1%)
Query: 6 VPYTICEVLVALGAVIGNSLVIVAFGREKRLRRRTNYYIVSLAVADLLVGLVGIPCALLA 65
++ +L+ ++ N V++ + K+ R Y+I +LA++DLL G+ LL+
Sbjct: 64 KLTSVVFILICCFIILENIFVLLTIWKTKKFHRPMYYFIGNLALSDLLAGVAYTANLLLS 123
Query: 66 SVGLPR-HLYACLFTISLLVVLCTISIFCLVAVSVDRYWAILFPMGYARNVTTK 118
+ + V + S+F L+A++++RY + M
Sbjct: 124 GATTYKLTPAQWFLREGSMFVALSASVFSLLAIAIERYITM-LKMKLHNGSNNF 176
>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 = 113 bits (284), Expect = 5e-31
Identities = 44/121 (36%), Positives = 59/121 (48%), Gaps = 6/121 (4%)
Query: 6 VPYTICEVLVALGAVIGNSLVIVAFGREKRLRRRTNYYIVSLAVADLLVGLVGIPCALLA 65
V I L+ L V GN LVI A + +RL+ TNY+I SLA ADL++GL +P
Sbjct: 41 VGMGIVMSLIVLAIVFGNVLVITAIAKFERLQTVTNYFITSLACADLVMGLAVVPFGAAH 100
Query: 66 SVG----LPRHLYACLFTISLLVVLCTISIFCLVAVSVDRYWAILFPMGYARNVTTKIAV 121
+ C F S+ V+ T SI L ++VDRY+AI P Y +T A
Sbjct: 101 ILMKMWTFGNFW--CEFWTSIDVLCVTASIETLCVIAVDRYFAITSPFKYQSLLTKNKAR 158
Query: 122 C 122
Sbjct: 159 V 159
>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 = 112 bits (281), Expect = 1e-30
Identities = 43/122 (35%), Positives = 63/122 (51%), Gaps = 6/122 (4%)
Query: 6 VPYTICEVLVALGAVIGNSLVIVAFGREKRLRRRTNYYIVSLAVADLLVGLVGIPCALLA 65
+P + + L V N LV+ A E++L N YIVSL+VADL+VG V +P +L
Sbjct: 9 MPLVVVLSTICLVTVGLNLLVLYAVRSERKLHTVGNLYIVSLSVADLIVGAVVMPMNILY 68
Query: 66 SVG----LPRHLYACLFTISLLVVLCTISIFCLVAVSVDRYWAILFPMGYARNVTTKIAV 121
+ L R L CLF +S+ V T SIF + + +DRY ++ P+ Y + T A
Sbjct: 69 LLMSKWSLGRPL--CLFWLSMDYVASTASIFSVFILCIDRYRSVQQPLRYLKYRTKTRAS 126
Query: 122 CK 123
Sbjct: 127 AT 128
>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 = 110 bits (276), Expect = 5e-30
Identities = 36/123 (29%), Positives = 62/123 (50%), Gaps = 6/123 (4%)
Query: 5 NVPYTICEVLVALGAVIGNSLVIVAFGREKRLRRRTNYYIVSLAVADLLVGLVGIPCALL 64
V + ++L +IGN LV+V+ + L+ NY++ SLA ADL++G+ + L
Sbjct: 23 VVFIVLVAGSLSLVTIIGNILVMVSIKVNRHLQTVNNYFLFSLACADLIIGVFSMNLYTL 82
Query: 65 ASVG----LPRHLYACLFTISLLVVLCTISIFCLVAVSVDRYWAILFPMGYARNVTTKIA 120
+V L + C ++L V+ S+ L+ +S DRY+ + P+ Y TTK+A
Sbjct: 83 YTVIGYWPLGPVV--CDLWLALDYVVSNASVMNLLIISFDRYFCVTKPLTYPVKRTTKMA 140
Query: 121 VCK 123
Sbjct: 141 GMM 143
>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 = 108 bits (271), Expect = 7e-30
Identities = 44/119 (36%), Positives = 58/119 (48%), Gaps = 2/119 (1%)
Query: 6 VPYTICEVLVALGAVIGNSLVIVAFGREKRLRRRTNYYIVSLAVADLLVGLVGIPCALLA 65
++ LV L V GN LVI A G +RL+ TN +I SLA ADL+VGL+ +P
Sbjct: 12 AGMSLLMALVVLLIVAGNVLVIAAIGSTQRLQTLTNLFITSLACADLVVGLLVVPFGATL 71
Query: 66 SVG--LPRHLYACLFTISLLVVLCTISIFCLVAVSVDRYWAILFPMGYARNVTTKIAVC 122
V + C SL V+ T SI L +++DRY AI P Y +T A
Sbjct: 72 VVRGTWLWGSFLCELWTSLDVLCVTASIETLCVIAIDRYLAITSPFRYQSLMTRARAKV 130
>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 = 107 bits (269), Expect = 6e-29
Identities = 42/117 (35%), Positives = 63/117 (53%), Gaps = 7/117 (5%)
Query: 5 NVPYTICEVLVALGAVIGNSLVIVAFGREKRLRRRTNYYIVSLAVADLLVGLVGIPCALL 64
+ Y + + L V GN LV +A +E+ L+ TNY +VSLAVADLLV + +P +
Sbjct: 38 HAYYALSYCALILAIVFGNGLVCMAVLKERALQTTTNYLVVSLAVADLLVATLVMPWVVY 97
Query: 65 ASVG-----LPRHLYACLFTISLLVVLCTISIFCLVAVSVDRYWAILFPMGYARNVT 116
V R C ++L V++CT SI+ L A+S+DRY A++ P+ Y
Sbjct: 98 LEVTGGVWNFSRIC--CDVFVTLDVMMCTASIWNLCAISIDRYTAVVMPVHYQHGTG 152
>2ks9_A Substance-P receptor; water, autodock, NK1, neuropeptide
receptor-NEU complex; NMR {Homo sapiens} PDB: 2ksa_A
2ksb_A
Length = 364
Score = 82.8 bits (205), Expect = 4e-20
Identities = 29/114 (25%), Positives = 53/114 (46%), Gaps = 6/114 (5%)
Query: 13 VLVALGAVIGNSLVIVAFGREKRLRRRTNYYIVSLAVADLLVGLVGIPCALLASVGLPRH 72
++ + +V+GN +V+ KR+R TNY++V+LA A+ + + + +
Sbjct: 40 TVIVVTSVVGNVVVMWIILAHKRMRTVTNYFLVNLAFAEASMAAFNTV--VNFTYAVHNE 97
Query: 73 ----LYACLFTISLLVVLCTISIFCLVAVSVDRYWAILFPMGYARNVTTKIAVC 122
L+ C F + SI+ + AV+ DRY AI+ P+ + T V
Sbjct: 98 WYYGLFYCKFHNFFPIAAVFASIYSMTAVAFDRYMAIIHPLQPRLSATATKVVI 151
>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 = 77.7 bits (191), Expect = 4e-18
Identities = 28/115 (24%), Positives = 50/115 (43%), Gaps = 11/115 (9%)
Query: 14 LVALGAVIGNSLVIVAFGREKRLRRRTNYYIVSLAVADLLVGLV-GIPCALLASVGLPRH 72
+ + GN +VI F + K L+ N +I++LA +D LV G P ++
Sbjct: 43 ICGIIGCGGNGIVIYLFTKTKSLQTPANMFIINLAFSDFTFSLVNGFPLMTISCF----L 98
Query: 73 LY------ACLFTISLLVVLCTISIFCLVAVSVDRYWAILFPMGYARNVTTKIAV 121
AC + + +SI + +S+DRY I PM ++ ++ + A
Sbjct: 99 KKWIFGFAACKVYGFIGGIFGFMSIMTMAMISIDRYNVIGRPMAASKKMSHRRAF 153
>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 = 75.9 bits (187), Expect = 9e-18
Identities = 28/106 (26%), Positives = 47/106 (44%), Gaps = 10/106 (9%)
Query: 14 LVALGAVIGNSLVIVAFGREKRLRRRTNYYIVSLAVADLLVGLVGIPCALLASVGLPRHL 73
L+ + N L + + K+LR NY +++LAVADL + G L S+ H
Sbjct: 47 LLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSL----HG 102
Query: 74 Y------ACLFTISLLVVLCTISIFCLVAVSVDRYWAILFPMGYAR 113
Y C + I+++ LV ++++RY + PM R
Sbjct: 103 YFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFR 148
>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 = 72.9 bits (179), Expect = 2e-16
Identities = 36/112 (32%), Positives = 53/112 (47%), Gaps = 5/112 (4%)
Query: 14 LVALGAVIGNSLVIVAFGREKRLRRRTNYYIVSLAVADLLVGLVGIPCALLASVGLPR-- 71
V +G ++GN LV+ R +++ TN YI +LA+AD LV L+ +P + L
Sbjct: 134 AVCVGGLLGNCLVMYVILRHTKMKTATNIYIFNLALADTLV-LLTLP-FQGTDILLGFWP 191
Query: 72 -HLYACLFTISLLVVLCTISIFCLVAVSVDRYWAILFPMGYARNVTTKIAVC 122
C I++ S F L A+SVDRY AI P+ T+ A
Sbjct: 192 FGNALCKTVIAIDYYNMFTSTFTLTAMSVDRYVAICHPIRALDVRTSSKAQA 243
>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 = 70.7 bits (173), Expect = 1e-15
Identities = 32/109 (29%), Positives = 53/109 (48%), Gaps = 2/109 (1%)
Query: 14 LVALGAVIGNSLVIVAFGREKRLRRRTNYYIVSLAVADLLVGLVGIP-CALLASVGLPRH 72
++ L ++GN LVI+ G +K+LR T+ Y + L+VADLL ++ +P A+ A
Sbjct: 57 IIFLTGIVGNGLVILVMGYQKKLRSMTDKYRLHLSVADLLF-VITLPFWAVDAVANWYFG 115
Query: 73 LYACLFTISLLVVLCTISIFCLVAVSVDRYWAILFPMGYARNVTTKIAV 121
+ C + V S++ L +S+DRY AI+ R
Sbjct: 116 NFLCKAVHVIYTVNLYSSVWILAFISLDRYLAIVHATNSQRPRKLLAEK 164
>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 = 70.8 bits (173), Expect = 1e-15
Identities = 32/111 (28%), Positives = 49/111 (44%), Gaps = 5/111 (4%)
Query: 14 LVALGAVIGNSLVIVAFGREKRLRRRTNYYIVSLAVADLLVGLVGIPCALLASVGLPR-- 71
+V + + GN LV+ R +++ TN YI +LA+AD L +P + +
Sbjct: 26 IVCVVGLFGNFLVMYVIVRYTKMKTATNIYIFNLALADALA-TSTLP-FQSVNYLMGTWP 83
Query: 72 -HLYACLFTISLLVVLCTISIFCLVAVSVDRYWAILFPMGYARNVTTKIAV 121
C IS+ SIF L +SVDRY A+ P+ T + A
Sbjct: 84 FGNILCKIVISIDYYNMFTSIFTLCTMSVDRYIAVCHPVKALDFRTPRNAK 134
>1hll_A Alpha-2A adrenergic receptor; helix-linker-helix, membrane protein;
NMR {Synthetic} SCOP: j.94.1.1 PDB: 1hof_A 1ho9_A 1hod_A
Length = 32
Score = 40.1 bits (94), Expect = 4e-06
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 88 TISIFCLVAVSVDRYWAILFPMGYARNVTTK 118
T SI L A+S+DRYW+I + Y T +
Sbjct: 1 TSSIVHLCAISLDRYWSITQAIEYNLKRTPR 31
>3ei3_A DNA damage-binding protein 1; UV-damage, DDB, nucleotide excision
repair, xeroderma pigmentosum, cytoplasm, DNA repair;
HET: DNA PG4; 2.30A {Homo sapiens} PDB: 3ei1_A* 3ei2_A*
3ei4_A* 4a0l_A* 3e0c_A* 3i7k_A* 3i7h_A* 3i7l_A* 3i7n_A*
3i7o_A* 3i7p_A* 3i89_A* 3i8c_A* 3i8e_A* 2b5l_A 2b5m_A
2hye_A* 4a11_A* 4a0k_C* 4a0a_A* ...
Length = 1158
Score = 28.8 bits (63), Expect = 0.53
Identities = 11/48 (22%), Positives = 19/48 (39%), Gaps = 4/48 (8%)
Query: 6 VPYTICEVLVALGAVIGNSLVIVAFGREKRLR----RRTNYYIVSLAV 49
Y++ E L A I +++ + + EK LR N + L
Sbjct: 887 AVYSMVEFNGKLLASINSTVRLYEWTTEKELRTECNHYNNIMALYLKT 934
>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 = 25.9 bits (56), Expect = 4.2
Identities = 3/31 (9%), Positives = 10/31 (32%)
Query: 78 FTISLLVVLCTISIFCLVAVSVDRYWAILFP 108
F + +L + + + + + P
Sbjct: 344 FWLPFGFILILVIFVTGLLLRKPNTYPKMIP 374
>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat,
asymmetric homodimer, glycoprotein, immune system; HET:
NAG FUC; 26.00A {Homo sapiens}
Length = 844
Score = 25.2 bits (55), Expect = 7.6
Identities = 6/31 (19%), Positives = 15/31 (48%)
Query: 77 LFTISLLVVLCTISIFCLVAVSVDRYWAILF 107
L +V T+++F + ++V ++ F
Sbjct: 616 LKFSLFIVCTVTLTLFLMTILTVTKFRGFCF 646
>4aq5_E Acetylcholine receptor gamma subunit; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_E
Length = 488
Score = 25.1 bits (54), Expect = 7.8
Identities = 13/61 (21%), Positives = 27/61 (44%), Gaps = 5/61 (8%)
Query: 36 LRRRTNYYIVSLAVADLLVGLVGIPCALLASVGLPRHLYACLFTISLLVVLCTISIFCLV 95
++R+ +YI++ ++ V I ++ LP T+S+ V+L L+
Sbjct: 214 IQRKPLFYIIN-----IIAPCVLISSLVVLVYFLPAQAGGQKCTLSISVLLAQTIFLFLI 268
Query: 96 A 96
A
Sbjct: 269 A 269
>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 = 25.4 bits (55), Expect = 8.0
Identities = 13/69 (18%), Positives = 20/69 (28%), Gaps = 29/69 (42%)
Query: 41 NYYIVSLAVADLLVGLVGIPCALLASVGLPR------------------HLYACLFTISL 82
N + + D L G+P +L+ L + + ISL
Sbjct: 316 NTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVE-----ISL 370
Query: 83 ------LVV 85
LVV
Sbjct: 371 VNGAKNLVV 379
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
0.333 0.145 0.445
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: 1,901,076
Number of extensions: 104745
Number of successful extensions: 336
Number of sequences better than 10.0: 1
Number of HSP's gapped: 321
Number of HSP's successfully gapped: 35
Length of query: 123
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 41
Effective length of database: 4,412,271
Effective search space: 180903111
Effective search space used: 180903111
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.5 bits)
S2: 51 (23.9 bits)