RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6126
(214 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 = 106 bits (266), Expect = 3e-27
Identities = 48/183 (26%), Positives = 80/183 (43%), Gaps = 5/183 (2%)
Query: 4 FRRPSTVRNATAVFIINLSVSDLMFCCFN-LPLAASTFWQRAWTHGHLLCQLFPLLRYGL 62
F + +++ +FIINL+ SD F N PL + + + W G C+++ +
Sbjct: 59 FTKTKSLQTPANMFIINLAFSDFTFSLVNGFPLMTISCFLKKWIFGFAACKVYGFIGGIF 118
Query: 63 LAVSLFTVLGITINRYVMIGHPTLYPKLYSSKFLAFMVACTWLFGFGALVPTWLGVWGRF 122
+S+ T+ I+I+RY +IG P K S + M+ WL+ + G WG +
Sbjct: 119 GFMSIMTMAMISIDRYNVIGRPMAASKKMSHRRAFIMIIFVWLWSVLWAIGPIFG-WGAY 177
Query: 123 GLEPSIGSCSI---LPDDYGHSPKEFLFLVAFVIPCISIVVCYARIFYIVRKTAMKSRAM 179
LE + +CS D S +F++ F P + I CY I V + AM
Sbjct: 178 TLEGVLCNCSFDYISRDSTTRSNILCMFILGFFGPILIIFFCYFNIVMSVSNHEKEMAAM 237
Query: 180 NMK 182
+
Sbjct: 238 AKR 240
>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 = 99.8 bits (249), Expect = 3e-25
Identities = 42/183 (22%), Positives = 73/183 (39%), Gaps = 8/183 (4%)
Query: 11 RNATAVFIINLSVSDLMFCCFNLPLAASTFWQRAWTHGHLLCQLFPLLRYGLLAVSLFTV 70
R ++NL+V+DL T + G C L ++L+++
Sbjct: 70 RTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSL 129
Query: 71 LGITINRYVMIGHPTLYPKLYSSKFLAFMVACTWLFGFGALVPTWLGVWGRFGLEPSIGS 130
+ + I RYV++ P + + VA TW+ P +G W R+ E S
Sbjct: 130 VVLAIERYVVVCKP-MSNFRFGENHAIMGVAFTWVMALACAAPPLVG-WSRYIPEGMQCS 187
Query: 131 CSI-----LPDDYGHSPKEFLFLVAFVIPCISIVVCYARIFYIVRKTAMKSRAMNMKNMN 185
C I + S ++F+V F+IP I I CY ++ + V++ A + +
Sbjct: 188 CGIDYYTPHEETNNESFVIYMFVVHFIIPLIVIFFCYGQLVFTVKEAA-AQQQESATTQK 246
Query: 186 ANK 188
A K
Sbjct: 247 AEK 249
>2ks9_A Substance-P receptor; water, autodock, NK1, neuropeptide
receptor-NEU complex; NMR {Homo sapiens} PDB: 2ksa_A
2ksb_A
Length = 364
Score = 94.0 bits (234), Expect = 4e-23
Identities = 28/176 (15%), Positives = 64/176 (36%), Gaps = 11/176 (6%)
Query: 11 RNATAVFIINLSVSDLMFCCFNLPLAASTFWQRAWTHGHLLCQLFPLLRYGLLAVSLFTV 70
R T F++NL+ ++ FN + + W +G C+ + S++++
Sbjct: 64 RTVTNYFLVNLAFAEASMAAFNTVVNFTYAVHNEWYYGLFYCKFHNFFPIAAVFASIYSM 123
Query: 71 LGITINRYVMIGHPTLYPKLYSSKFLAFMV-ACTWLFGFGALVPTWLGVWGRFGLEPSIG 129
+ +RY+ I HP + S +V W+ P + PS
Sbjct: 124 TAVAFDRYMAIIHPL---QPRLSATATKVVICVIWVLALLLAFPQG--YYSTTETMPSRV 178
Query: 130 SCSIL-PDDYGHSPKE----FLFLVAFVIPCISIVVCYARIFYIVRKTAMKSRAMN 180
C I P+ ++ + ++ + +P + I Y + + + + + +
Sbjct: 179 VCMIEWPEHPNKIYEKVYHICVTVLIYFLPLLVIGYAYTVVGITLWASEIPGDSSD 234
>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 = 92.3 bits (229), Expect = 6e-22
Identities = 40/205 (19%), Positives = 80/205 (39%), Gaps = 13/205 (6%)
Query: 11 RNATAVFIINLSVSDLMFCCFNLPLAASTFWQRAWTHGHLLCQLFPLLRYGLLAVSLFTV 70
+ T FI +L+ +DL+ +P A+ + WT G+ C+ + + + S+ T+
Sbjct: 214 QTVTNYFITSLACADLVMGLAVVPFGAAHILTKTWTFGNFWCEFWTSIDVLCVTASIETL 273
Query: 71 LGITINRYVMIGHPTLYPKLYSSKFLAFMVACTWLFGFG-ALVPTWLGVWGRFGLEPSI- 128
I ++RY I P Y L + ++ W+ + +P + W R + +I
Sbjct: 274 CVIAVDRYFAITSPFKYQSLLTKNKARVIILMVWIVSGLTSFLPIQMH-WYRATHQEAIN 332
Query: 129 -----GSCSILPD-DYGHSPKEFLFLVAFVIPCISIVVCYARIFYIVRKTAMKSRAMNMK 182
C + Y +V+F +P + +V Y+R+F ++ K +
Sbjct: 333 CYAEETCCDFFTNQAYA----IASSIVSFYVPLVIMVFVYSRVFQEAKRQLQKIDKSEGR 388
Query: 183 NMNANKGQYDTMKPPGYGKKYMKAT 207
N Q + G+G +
Sbjct: 389 FHVQNLSQVEQDGRTGHGLRRSSKF 413
>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 = 90.6 bits (224), Expect = 2e-21
Identities = 38/214 (17%), Positives = 73/214 (34%), Gaps = 12/214 (5%)
Query: 11 RNATAVFIINLSVSDLMFCCFNLPLAASTFWQRAWTHGHLLCQLFPLLRYGLLAVSLFTV 70
+N T F+++L+ +D+ +P A + + C L S+F++
Sbjct: 53 QNVTNYFVVSLAAADIAVGVLAIPFAITI--STGFCAACHGCLFIACFVLVLTQSSIFSL 110
Query: 71 LGITINRYVMIGHPTLYPKLYSSKFLAFMVACTWLFGFGALVPTWLGVWGRFGLEPSIGS 130
L I I+RY+ I P Y L + ++A W+ F + LG +
Sbjct: 111 LAIAIDRYIAIRIPLRYNGLVTGTRAKGIIAICWVLSFAIGLTPMLGWNNCGQPKEGKNH 170
Query: 131 CSILPDDYGHSPKE----------FLFLVAFVIPCISIVVCYARIFYIVRKTAMKSRAMN 180
+ E F F ++P + ++ Y RIF R+ +
Sbjct: 171 SQGCGEGQVACLFEDVVPMNYMVYFNFFACVLVPLLLMLGVYLRIFLAARRQLNIFEMLR 230
Query: 181 MKNMNANKGQYDTMKPPGYGKKYMKATVSTDDSP 214
+ K DT G ++ + ++
Sbjct: 231 IDEGLRLKIYKDTEGYYTIGIGHLLTKSPSLNAA 264
>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 = 90.1 bits (223), Expect = 3e-21
Identities = 32/176 (18%), Positives = 72/176 (40%), Gaps = 7/176 (3%)
Query: 11 RNATAVFIINLSVSDLMFCCFNLPLAASTFWQRAWTHGHLLCQLFPLLRYGLLAVSLFTV 70
+ AT ++I NL+++D + LP + + W G++LC++ + Y + S+FT+
Sbjct: 49 KTATNIYIFNLALADALATST-LPFQSVNYLMGTWPFGNILCKIVISIDYYNMFTSIFTL 107
Query: 71 LGITINRYVMIGHPTLYPKLYSSKFLAFMVACTWLFGFGALVPTWLGVWGRFGLEPSIGS 130
++++RY+ + HP + + + C W+ +P
Sbjct: 108 CTMSVDRYIAVCHPVKALDFRTPRNAKIVNVCNWILSSAIGLPVM--FMATTKYRQGSID 165
Query: 131 CSI-LPDDYGHSPKEFL---FLVAFVIPCISIVVCYARIFYIVRKTAMKSRAMNMK 182
C++ + F+ AF++P + I VCY + ++ + +
Sbjct: 166 CTLTFSHPTWYWENLLKICVFIFAFIMPVLIITVCYGLMILRLKSVRNIFEMLRID 221
>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 = 89.8 bits (222), Expect = 4e-21
Identities = 41/210 (19%), Positives = 76/210 (36%), Gaps = 12/210 (5%)
Query: 11 RNATAVFIINLSVSDLMFCCFNLPLAASTFWQRAWTHGHLLCQLFPLLRYGLLAVSLFTV 70
+ F+ +L+ +DL+ F++ L W G ++C L+ L Y + S+ +
Sbjct: 55 QTVNNYFLFSLACADLIIGVFSMNLYTLYTVIGYWPLGPVVCDLWLALDYVVSNASVMNL 114
Query: 71 LGITINRYVMIGHPTLYPKLYSSKFLAFMVACTWLFGFGALVPT---WLGVWGRFGLEPS 127
L I+ +RY + P YP ++K M+A W+ F P W + G +E
Sbjct: 115 LIISFDRYFCVTKPLTYPVKRTTKMAGMMIAAAWVLSFILWAPAILFWQFIVGVRTVEDG 174
Query: 128 IGSCSILPDDYGHSPKEFLF---LVAFVIPCISIVVCYARIFYIVRKTAMKSRAMNMKNM 184
+ F + AF +P I + V Y I + + +
Sbjct: 175 ECYIQFFSNAA------VTFGTAIAAFYLPVIIMTVLYWHISRASKSRINIFEMLRIDEG 228
Query: 185 NANKGQYDTMKPPGYGKKYMKATVSTDDSP 214
K DT G ++ + ++
Sbjct: 229 LRLKIYKDTEGYYTIGIGHLLTKSPSLNAA 258
>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 = 87.5 bits (216), Expect = 2e-20
Identities = 38/211 (18%), Positives = 78/211 (36%), Gaps = 11/211 (5%)
Query: 11 RNATAVFIINLSVSDLMFCCFNLPLAASTFWQRAWTHGHLLCQLFPLLRYGLLAVSLFTV 70
+ T FI +L+ +DL+ +P A+ + WT G+ C+ + + + S+ T+
Sbjct: 72 QTVTNYFITSLACADLVMGLAVVPFGAAHILMKMWTFGNFWCEFWTSIDVLCVTASIETL 131
Query: 71 LGITINRYVMIGHPTLYPKLYSSKFLAFMVACTWLFGFGALVPTWLGVWGRFGLEPSI-- 128
I ++RY I P Y L + ++ W+ W R + +I
Sbjct: 132 CVIAVDRYFAITSPFKYQSLLTKNKARVIILMVWIVSGLTSFLPIQMHWYRATHQEAINC 191
Query: 129 ----GSCSILPD-DYGHSPKEFLFLVAFVIPCISIVVCYARIFYIVRKTAMKSRAMNMKN 183
C + Y +V+F +P + +V Y+R+F ++ + +
Sbjct: 192 YAEETCCDFFTNQAY----AIASSIVSFYVPLVIMVFVYSRVFQEAKRQLNIFEMLRIDE 247
Query: 184 MNANKGQYDTMKPPGYGKKYMKATVSTDDSP 214
K DT G ++ + ++
Sbjct: 248 GLRLKIYKDTEGYYTIGIGHLLTKSPSLNAA 278
>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 = 86.4 bits (214), Expect = 4e-20
Identities = 41/172 (23%), Positives = 75/172 (43%), Gaps = 7/172 (4%)
Query: 11 RNATAVFIINLSVSDLMFCCFNLPLAASTFWQRAWTHGHLLCQLFPLLRYGLLAVSLFTV 70
+ AT ++I NL+++D + LP + W G+ LC+ + Y + S FT+
Sbjct: 157 KTATNIYIFNLALADTLVL-LTLPFQGTDILLGFWPFGNALCKTVIAIDYYNMFTSTFTL 215
Query: 71 LGITINRYVMIGHPTLYPKLYSSKFLAFMVACTWLFGFGALVPTWLGVWGRFGLEPSIGS 130
++++RYV I HP + +S + W VP + G +E
Sbjct: 216 TAMSVDRYVAICHPIRALDVRTSSKAQAVNVAIWALASVVGVPVA--IMGSAQVEDEEIE 273
Query: 131 CSIL-PDDYGHSPKEF---LFLVAFVIPCISIVVCYARIFYIVRKTAMKSRA 178
C + P + F +FL +F++P + I VCY+ + +R + S +
Sbjct: 274 CLVEIPTPQDYWGPVFAICIFLFSFIVPVLVISVCYSLMIRRLRGVRLLSGS 325
>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 = 86.7 bits (214), Expect = 4e-20
Identities = 36/210 (17%), Positives = 75/210 (35%), Gaps = 12/210 (5%)
Query: 11 RNATAVFIINLSVSDLMFCCFNLPLAASTFWQRAWTHGHLLCQLFPLLRYGLLAVSLFTV 70
++I++LSV+DL+ +P+ W+ G LC + + Y S+F+V
Sbjct: 40 HTVGNLYIVSLSVADLIVGAVVMPMNILYLLMSKWSLGRPLCLFWLSMDYVASTASIFSV 99
Query: 71 LGITINRYVMIGHPTLYPKLYSSKFLAFMVACTWLFGFGALVPT---WLGVWGRFGLEPS 127
+ I+RY + P Y K + + + W F ++P +
Sbjct: 100 FILCIDRYRSVQQPLRYLKYRTKTRASATILGAWFLSFLWVIPILGWNHFMQQTSVRRED 159
Query: 128 IGSCSILPDDYGHSPKEFLF---LVAFVIPCISIVVCYARIFYIVRKTAMKSRAMNMKNM 184
+ F ++ F +P + ++ YA+I+ VR+ + +
Sbjct: 160 KCETDFYDVTW------FKVMTAIINFYLPTLLMLWFYAKIYKAVRQHCNIFEMLRIDEG 213
Query: 185 NANKGQYDTMKPPGYGKKYMKATVSTDDSP 214
K DT G ++ + ++
Sbjct: 214 LRLKIYKDTEGYYTIGIGHLLTKSPSLNAA 243
>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 = 82.0 bits (202), Expect = 2e-18
Identities = 35/188 (18%), Positives = 64/188 (34%), Gaps = 12/188 (6%)
Query: 11 RNATAVFIINLSVSDLMFCCFNLPLAASTFWQRAWTHGHLLCQLFPLLRYGLLAVSLFTV 70
+N T F+++L+ +D+ +P A + + C L S+F++
Sbjct: 63 QNVTNYFVVSLAAADIAVGVLAIPFAIT--ISTGFCAACHGCLFIACFVLVLTQSSIFSL 120
Query: 71 LGITINRYVMIGHPTLYPKLYSSKFLAFMVACTW----------LFGFGALVPTWLGVWG 120
L I I+RY+ I P Y L + ++A W + G+ G
Sbjct: 121 LAIAIDRYIAIRIPLRYNGLVTGTRAKGIIAICWVLSFAIGLTPMLGWNNCGQPKEGKNH 180
Query: 121 RFGLEPSIGSCSILPDDYGHSPKEFLFLVAFVIPCISIVVCYARIFYIVRKTAMKSRAMN 180
G +C + F F ++P + ++ Y RIF R+
Sbjct: 181 SQGCGEGQVACLFEDVVPMNYMVYFNFFACVLVPLLLMLGVYLRIFLAARRQLADLEDNW 240
Query: 181 MKNMNANK 188
+ K
Sbjct: 241 ETLNDNLK 248
>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 = 81.7 bits (201), Expect = 2e-18
Identities = 38/184 (20%), Positives = 76/184 (41%), Gaps = 12/184 (6%)
Query: 11 RNATAVFIINLSVSDLMFCCFNLPLAAST-FWQRAWTHGHLLCQLFPLLRYGLLAVSLFT 69
+ T +++L+V+DL+ +P W + C +F L + S++
Sbjct: 70 QTTTNYLVVSLAVADLLVATLVMPWVVYLEVTGGVWNFSRICCDVFVTLDVMMCTASIWN 129
Query: 70 VLGITINRYVMIGHPTLYPKLY---SSKFLAFMVACTWLFGFGALVPTWLGVWGRFGLEP 126
+ I+I+RY + P Y S + +A M+ W+ F P G + G
Sbjct: 130 LCAISIDRYTAVVMPVHYQHGTGQSSCRRVALMITAVWVLAFAVSCPLLFG-FNTTGDP- 187
Query: 127 SIGSCSILPDDYGHSPKEFLFLVAFVIPCISIVVCYARIFYIVRKTAMKSRAMNMKNMNA 186
CSI D+ + +V+F +P V+ YARI+ ++++ K+ ++
Sbjct: 188 --TVCSISNPDF----VIYSSVVSFYLPFGVTVLVYARIYVVLKQRRRKNIFEMLRIDEG 241
Query: 187 NKGQ 190
+ +
Sbjct: 242 LRLK 245
>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 = 78.2 bits (193), Expect = 1e-17
Identities = 35/182 (19%), Positives = 72/182 (39%), Gaps = 11/182 (6%)
Query: 11 RNATAVFIINLSVSDLMFCCFNLPLAASTFWQRAWTHGHLLCQLFPLLRYGLLAVSLFTV 70
+ T +FI +L+ +DL+ +P A+ + W G LC+L+ L + S+ T+
Sbjct: 43 QTLTNLFITSLACADLVVGLLVVPFGATLVVRGTWLWGSFLCELWTSLDVLCVTASIETL 102
Query: 71 LGITINRYVMIGHPTLYPKLYSSKFLAFMVACTWLFGFG-ALVPTWLGVW-----GRFGL 124
I I+RY+ I P Y L + ++ W + +P + W
Sbjct: 103 CVIAIDRYLAITSPFRYQSLMTRARAKVIICTVWAISALVSFLPIMMHWWRDEDPQALKC 162
Query: 125 EPSIGSCSILPD-DYGHSPKEFLFLVAFVIPCISIVVCYARIFYIVRKTAMKSRAMNMKN 183
G C + + Y +++F IP + ++ R++ ++ K + +
Sbjct: 163 YQDPGCCDFVTNRAYAI----ASSIISFYIPLLIMIFVALRVYREAKEQIRKIDRASKRK 218
Query: 184 MN 185
+
Sbjct: 219 TS 220
>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 = 78.8 bits (193), Expect = 2e-17
Identities = 32/177 (18%), Positives = 62/177 (35%), Gaps = 7/177 (3%)
Query: 11 RNATAVFIINLSVSDLMFCCFNLPLAASTFWQRAWTHGHLLCQLFPLLRYGLLAVSLFTV 70
FI NL++SDL+ + + L + L+ S+F++
Sbjct: 95 HRPMYYFIGNLALSDLLAGVAYTANLLLSGA-TTYKLTPAQWFLREGSMFVALSASVFSL 153
Query: 71 LGITINRYVMIGHPTLYPKLYSSKFLAFMVACTWLFGFGALVPTWLGVWGRFGLEPSIGS 130
L I I RY+ + L+ ++ L +++ W+ +G W S +
Sbjct: 154 LAIAIERYITMLKMKLHNGS-NNFRLFLLISACWVISLILGGLPIMG-WNCISALSSCST 211
Query: 131 CSILPDDYGHSPKEFLFLVAFVIPCISIVVCYARIFYIVRKTAMKSRAMNMKNMNAN 187
L + F + +SIV+ Y RI+ +VR + + +
Sbjct: 212 VLPLYHKH----YILFCTTVFTLLLLSIVILYCRIYSLVRTRNIFEMLRIDEGLRLK 264
>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 = 78.4 bits (193), Expect = 3e-17
Identities = 37/174 (21%), Positives = 69/174 (39%), Gaps = 6/174 (3%)
Query: 11 RNATAVFIINLSVSDLMFCCFNLPLAASTFWQRAWTHGHLLCQLFPLLRYGLLAVSLFTV 70
R+ T + ++LSV+DL+F LP A W G+ LC+ ++ L S++ +
Sbjct: 80 RSMTDKYRLHLSVADLLFVIT-LPFWAVDAVAN-WYFGNFLCKAVHVIYTVNLYSSVWIL 137
Query: 71 LGITINRYVMIGHPTLYPKLYSSKFLAFMVACTWLFGFGALVPTWLGVWGRFGLEPSIGS 130
I+++RY+ I H T + + W+ +P + ++
Sbjct: 138 AFISLDRYLAIVHATNSQRPRKLLAEKVVYVGVWIPALLLTIPDF--IFANVSEADDRYI 195
Query: 131 CSIL-PDDYGHSPKEFL-FLVAFVIPCISIVVCYARIFYIVRKTAMKSRAMNMK 182
C P+D +F +V ++P I I+ CY I + + M
Sbjct: 196 CDRFYPNDLWVVVFQFQHIMVGLILPGIVILSCYCIIISKLSHSGSNIFEMLRI 249
>3b9w_A Ammonium transporter family; membrane protein, ammonia transport,
rhesus protein, transpo protein; HET: BOG; 1.30A
{Nitrosomonas europaea} PDB: 3bhs_A 3b9y_A* 3b9z_A*
Length = 407
Score = 34.3 bits (79), Expect = 0.022
Identities = 11/68 (16%), Positives = 20/68 (29%), Gaps = 2/68 (2%)
Query: 95 FLAFMVACT--WLFGFGALVPTWLGVWGRFGLEPSIGSCSILPDDYGHSPKEFLFLVAFV 152
+ F +GF A T+L V L + + I + + F
Sbjct: 28 LVGFGFLMVFVRRYGFSATTGTYLVVATGLPLYILLRANGIFGHALTPHSVDAVIYAEFA 87
Query: 153 IPCISIVV 160
+ I +
Sbjct: 88 VATGLIAM 95
>1bbh_A Cytochrome C'; electron transport(heme protein); HET: HEM; 1.80A
{Allochromatium vinosum} SCOP: a.24.3.2
Length = 131
Score = 28.1 bits (62), Expect = 1.4
Identities = 7/24 (29%), Positives = 13/24 (54%), Gaps = 1/24 (4%)
Query: 170 RKTAMKSRAMNMKNMNAN-KGQYD 192
R+ + NM + AN +G+Y+
Sbjct: 12 RQAGYEFMGWNMGKIKANLEGEYN 35
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
0.329 0.141 0.466
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: 3,354,628
Number of extensions: 191148
Number of successful extensions: 395
Number of sequences better than 10.0: 1
Number of HSP's gapped: 364
Number of HSP's successfully gapped: 20
Length of query: 214
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 124
Effective length of database: 4,188,903
Effective search space: 519423972
Effective search space used: 519423972
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: 55 (25.4 bits)