RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17917
(342 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 = 215 bits (550), Expect = 8e-67
Identities = 82/306 (26%), Positives = 132/306 (43%), Gaps = 9/306 (2%)
Query: 13 ALPDVTLKITAVCTVIIAVVGVVGNSLTVVALLRCPKIRNVAAAFIVSLCIADFFFCLL- 71
+PD + I ++G GN + + + ++ A FI++L +DF F L+
Sbjct: 28 QVPDAVYYSLGIFIGICGIIGCGGNGIVIYLFTKTKSLQTPANMFIINLAFSDFTFSLVN 87
Query: 72 VIPFSTTRFYFKTWIHGKFLCTVVPFIQYSNVGVSLSCIAMITINRYIMIAHHQMYNTIY 131
P T + K WI G C V FI +S+ +AMI+I+RY +I +
Sbjct: 88 GFPLMTISCFLKKWIFGFAACKVYGFIGGIFGFMSIMTMAMISIDRYNVIGRPMAASKKM 147
Query: 132 KPVWIGCMIAFCYALSFGMQIPTLAGQWGRFDLDTRLLTCSI---LPDENGRSSKRALFL 188
MI F + S I + G WG + L+ L CS D RS+ +F+
Sbjct: 148 SHRRAFIMIIFVWLWSVLWAIGPIFG-WGAYTLEGVLCNCSFDYISRDSTTRSNILCMFI 206
Query: 189 IGFVIPCVIIILCYAKIFWVVRSSEKRLRRHTSKIQSKKDQKELKAKRNDMRITKMVLVI 248
+GF P +II CY I V + EK + ++ +K+ +K +MR+ K+ +VI
Sbjct: 207 LGFFGPILIIFFCYFNIVMSVSNHEKEMAAMAKRLNAKELRKAQAGANAEMRLAKISIVI 266
Query: 249 FLSFLTCYLPITVVKTV----DSEVHFPGLHVISYIFLYLSACINPIIYVIMNKQYRVAY 304
FL + P VV + E P + +F SA NP+IY + + ++R A
Sbjct: 267 VSQFLLSWSPYAVVALLAQFGPLEWVTPYAAQLPVMFAKASAIHNPMIYSVSHPKFREAI 326
Query: 305 KTVLMC 310
Sbjct: 327 SQTFPW 332
>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 = 191 bits (486), Expect = 3e-58
Identities = 69/322 (21%), Positives = 133/322 (41%), Gaps = 23/322 (7%)
Query: 14 LPDVTLKITAVCTVIIAVVGVVGNSLTVVALLRCPKIRNVAAAFIVSLCIADFFFCLLVI 73
+ A ++ ++G N LT+ ++ K+R +++L +AD F
Sbjct: 33 AEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGF 92
Query: 74 PFSTTRFYFKTWIHGKFLCTVVPFIQYSNVGVSLSCIAMITINRYIMIAHHQMYNTIYKP 133
+ ++ G C + F ++L + ++ I RY+++ M N +
Sbjct: 93 TTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKP-MSNFRFGE 151
Query: 134 VWIGCMIAFCYALSFGMQIPTLAGQWGRFDLDTRLLTCSI-----LPDENGRSSKRALFL 188
+AF + ++ P L G W R+ + +C I + N S +F+
Sbjct: 152 NHAIMGVAFTWVMALACAAPPLVG-WSRYIPEGMQCSCGIDYYTPHEETNNESFVIYMFV 210
Query: 189 IGFVIPCVIIILCYAKIFWVVRSSEKRLRRHTSKIQSKKDQKELKAKRNDMRITKMVLVI 248
+ F+IP ++I CY ++ + V+ + + + + +++K +T+MV+++
Sbjct: 211 VHFIIPLIVIFFCYGQLVFTVKEAAAQQQESATTQKAEK------------EVTRMVIIM 258
Query: 249 FLSFLTCYLPITVVKTV----DSEVHFPGLHVISYIFLYLSACINPIIYVIMNKQYRVAY 304
++FL C+LP V P I F SA NP+IY++MNKQ+R
Sbjct: 259 VIAFLICWLPYAGVAFYIFTHQGSDFGPIFMTIPAFFAKTSAVYNPVIYIMMNKQFRNCM 318
Query: 305 KTVLMCEKNRLLSSIRRSGTQS 326
T L C KN L +
Sbjct: 319 VTTLCCGKNPLGDDEASTTVSK 340
>2ks9_A Substance-P receptor; water, autodock, NK1, neuropeptide
receptor-NEU complex; NMR {Homo sapiens} PDB: 2ksa_A
2ksb_A
Length = 364
Score = 166 bits (423), Expect = 6e-49
Identities = 59/323 (18%), Positives = 125/323 (38%), Gaps = 29/323 (8%)
Query: 2 ESDAYNATSILALPDVTLKITAVCTVIIAVVGVVGNSLTVVALLRCPKIRNVAAAFIVSL 61
S + + P + + A +I V VVGN + + +L ++R V F+V+L
Sbjct: 15 ISTNTSEPNQFVQPAWQIVLWAAAYTVIVVTSVVGNVVVMWIILAHKRMRTVTNYFLVNL 74
Query: 62 CIADFFFCLLVIPFSTTRFYFKTWIHGKFLCTVVPFIQYSNVGVSLSCIAMITINRYIMI 121
A+ + T W +G F C F + V S+ + + +RY+ I
Sbjct: 75 AFAEASMAAFNTVVNFTYAVHNEWYYGLFYCKFHNFFPIAAVFASIYSMTAVAFDRYMAI 134
Query: 122 AHH---QMYNTIYKPVWIGCMIAFCYALSFGMQIPTLAGQWGRFDLDTRLLTCSILPDEN 178
H ++ T K +I + L+ + P + +R++ P+
Sbjct: 135 IHPLQPRLSATATK-----VVICVIWVLALLLAFPQGYYS-TTETMPSRVVCMIEWPEHP 188
Query: 179 GRSSKRA----LFLIGFVIPCVIIILCYAKIFWVVRSSEKRLRRHTSKIQSKKDQKELKA 234
+ ++ + ++ + +P ++I Y + + S + +++ A
Sbjct: 189 NKIYEKVYHICVTVLIYFLPLLVIGYAYTVVGITLW------ASEIPGDSSDRYHEQVSA 242
Query: 235 KRNDMRITKMVLVIFLSFLTCYLPITVV-------KTVDSEVHFPGLHVISYIFLYLSAC 287
KR ++ KM++V+ +F C+LP + + + +++ S
Sbjct: 243 KR---KVVKMMIVVVCTFAICWLPFHIFFLLPYINPDLYLKKFIQQVYLAIMWLAMSSTM 299
Query: 288 INPIIYVIMNKQYRVAYKTVLMC 310
NPIIY +N ++R+ +K C
Sbjct: 300 YNPIIYCCLNDRFRLGFKHAFRC 322
>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 = 160 bits (406), Expect = 8e-46
Identities = 70/312 (22%), Positives = 126/312 (40%), Gaps = 32/312 (10%)
Query: 28 IIAVVGVVGNSLTVVALLRCPKIRNVAAAFIVSLCIADFFFCLLVIPFSTTRFYFKTWIH 87
+ V G++GN L + +LR K++ +I +L +AD LL +PF T W
Sbjct: 134 AVCVGGLLGNCLVMYVILRHTKMKTATNIYIFNLALADTLV-LLTLPFQGTDILLGFWPF 192
Query: 88 GKFLCTVVPFIQYSNVGVSLSCIAMITINRYIMIAH---HQMYNTIYKPVWIGCMIAFCY 144
G LC V I Y N+ S + ++++RY+ I H T K + I +
Sbjct: 193 GNALCKTVIAIDYYNMFTSTFTLTAMSVDRYVAICHPIRALDVRTSSKAQAVNVAI---W 249
Query: 145 ALSFGMQIPTLAGQWGRFDLDTRLLTCSILPDENGRSSKRAL----FLIGFVIPCVIIIL 200
AL+ + +P G ++ + C + FL F++P ++I +
Sbjct: 250 ALASVVGVPVAI--MGSAQVEDEEIECLVEIPTPQDYWGPVFAICIFLFSFIVPVLVISV 307
Query: 201 CYAKIFWVVRSSEKRLRRHTSKIQSKKDQKELKAKRNDMRITKMVLVIFLSFLTCYLPIT 260
CY+ + +RLR S+ + RN RIT++VLV+ F+ C+ P+
Sbjct: 308 CYSLMI-------RRLRGVRLLSGSR------EKDRNLRRITRLVLVVVAVFVGCWTPVQ 354
Query: 261 VVKTVDSEVHFPGLHVISYIFL------YLSACINPIIYVIMNKQYRVAYKTVLMCEKNR 314
V P I Y+++C+NPI+Y +++ ++ ++
Sbjct: 355 VFVLAQGLGVQPSSETAVAILRFCTALGYVNSCLNPILYAFLDENFKACFRKFCCASALG 414
Query: 315 LLSSIRRSGTQS 326
+ G
Sbjct: 415 RPLEVLFQGPHH 426
>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 = 145 bits (366), Expect = 2e-39
Identities = 64/353 (18%), Positives = 134/353 (37%), Gaps = 27/353 (7%)
Query: 3 SDAYNATSILALPDVTLKI-TAVCTVIIAVVGVVGNSLTVVALLRCPKIRNVAAAFIVSL 61
+ T D + + +I + V GN L + A+ + +++ V FI SL
Sbjct: 165 TTFRTGTWDAYAADEVWVVGMGIVMSLIVLAIVFGNVLVITAIAKFERLQTVTNYFITSL 224
Query: 62 CIADFFFCLLVIPFSTTRFYFKTWIHGKFLCTVVPFIQYSNVGVSLSCIAMITINRYIMI 121
AD L V+PF KTW G F C I V S+ + +I ++RY I
Sbjct: 225 ACADLVMGLAVVPFGAAHILTKTWTFGNFWCEFWTSIDVLCVTASIETLCVIAVDRYFAI 284
Query: 122 AHHQMYNTIYKPVWIGCMIAFCYALSFGMQIPTLAGQWGRFDLDTRLL------TCSILP 175
Y ++ +I + +S + W R + C
Sbjct: 285 TSPFKYQSLLTKNKARVIILMVWIVSGLTSFLPIQMHWYRATHQEAINCYAEETCCDFFT 344
Query: 176 DENGRSSKRALFLIGFVIPCVIIILCYAKIFWVVRSSEKRLRRHTSKIQSKKDQ------ 229
+ ++ A ++ F +P VI++ Y+++F + +++ + + +
Sbjct: 345 N---QAYAIASSIVSFYVPLVIMVFVYSRVFQEAKRQLQKIDKSEGRFHVQNLSQVEQDG 401
Query: 230 -------KELKAKRNDMRITKMVLVIFLSFLTCYLPITVVKTVDSEVHF---PGLHVISY 279
+ K + + K + +I +F C+LP +V V ++++
Sbjct: 402 RTGHGLRRSSKFCLKEHKALKTLGIIMGTFTLCWLPFFIVNIVHVIQDNLIRKEVYILLN 461
Query: 280 IFLYLSACINPIIYVIMNKQYRVAYKTVLMCEKNRLLSSIRRSGTQSKDGKNN 332
Y+++ NP+IY + +R+A++ +L ++ L + + G+ +
Sbjct: 462 WIGYVNSGFNPLIYC-RSPDFRIAFQELLCLRRSSLKAYGNGYSSNGNTGEQS 513
>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 = 134 bits (338), Expect = 6e-37
Identities = 71/301 (23%), Positives = 129/301 (42%), Gaps = 15/301 (4%)
Query: 21 ITAVCTVIIAVVGVVGNSLTVVALLRCPKIRNVAAAFIVSLCIADFFFCLLVIPFSTTRF 80
++ ++ ++ V GN L + A+ +++ + FI SL AD LLV+PF T
Sbjct: 13 GMSLLMALVVLLIVAGNVLVIAAIGSTQRLQTLTNLFITSLACADLVVGLLVVPFGATLV 72
Query: 81 YFKTWIHGKFLCTVVPFIQYSNVGVSLSCIAMITINRYIMIAHHQMYNTIYKPVWIGCMI 140
TW+ G FLC + + V S+ + +I I+RY+ I Y ++ +I
Sbjct: 73 VRGTWLWGSFLCELWTSLDVLCVTASIETLCVIAIDRYLAITSPFRYQSLMTRARAKVII 132
Query: 141 AFCYALSFGMQIPTLAGQWGRFDLDTRLLTCSILPDE----NGRSSKRALFLIGFVIPCV 196
+A+S + + W R D D + L C P R+ A +I F IP +
Sbjct: 133 CTVWAISALVSFLPIMMHWWR-DEDPQALKCYQDPGCCDFVTNRAYAIASSIISFYIPLL 191
Query: 197 IIILCYAKIFWVVRSSEKRLRRHTSKIQSKKDQKELKAKRNDMRITKMVLVIFLSFLTCY 256
I+I +++ + +++ R + + S+ + + K + +I F C+
Sbjct: 192 IMIFVALRVYREAKEQIRKIDRASKRKTSR------VMLMREHKALKTLGIIMGVFTLCW 245
Query: 257 LPITVVKTVDSEVHF---PGLHVISYIFLYLSACINPIIYVIMNKQYRVAYKTVLMCEKN 313
LP +V V+ L V Y ++ +NPIIY + +R A+K +L +
Sbjct: 246 LPFFLVNIVNVFNRDLVPDWLFVAFNWLGYANSAMNPIIYC-RSPDFRKAFKRLLAFPRK 304
Query: 314 R 314
Sbjct: 305 A 305
>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 = 115 bits (289), Expect = 6e-29
Identities = 46/237 (19%), Positives = 81/237 (34%), Gaps = 12/237 (5%)
Query: 2 ESDAYNATSILALPDVTLKITAVCTVIIAVVGVVGNSLTVVALLRCPKIRNVAAAFIVSL 61
+ D + A P + + + IAV+ ++GN L A+ ++NV F+VSL
Sbjct: 4 DDDDAMGQPVGAPPIMGSSVYITVELAIAVLAILGNVLVCWAVWLNSNLQNVTNYFVVSL 63
Query: 62 CIADFFFCLLVIPFSTTRFYFKTWIHGKFLCTVVPFIQYSNVGVSLSCIAMITINRYIMI 121
AD +L IPF+ T + C + S+ + I I+RYI I
Sbjct: 64 AAADIAVGVLAIPFAIT--ISTGFCAACHGCLFIACFVLVLTQSSIFSLLAIAIDRYIAI 121
Query: 122 AHHQMYNTIYKPVWIGCMIAFCYALSFGMQIPTLAGQWGRFDLDTRLLTCSILPDENGRS 181
YN + +IA C+ LSF + + + G +
Sbjct: 122 RIPLRYNGLVTGTRAKGIIAICWVLSFAIGLTPMLGWNNCGQPKEGKNHSQGCGEGQVAC 181
Query: 182 SKRAL----------FLIGFVIPCVIIILCYAKIFWVVRSSEKRLRRHTSKIQSKKD 228
+ F ++P ++++ Y +IF R +
Sbjct: 182 LFEDVVPMNYMVYFNFFACVLVPLLLMLGVYLRIFLAARRQLNIFEMLRIDEGLRLK 238
Score = 60.1 bits (145), Expect = 3e-10
Identities = 15/110 (13%), Positives = 43/110 (39%), Gaps = 5/110 (4%)
Query: 210 RSSEKRLRRHTSKIQSKKDQKELKAKRNDMRITKMVLVIFLSFLTCYLPITVVKTVDS-- 267
+ R +R + ++ + ++ K + +I F C+LP+ ++
Sbjct: 362 NQTPNRAKRVITTFRTGTWDAYRSTLQKEVHAAKSLAIIVGLFALCWLPLHIINCFTFFC 421
Query: 268 ---EVHFPGLHVISYIFLYLSACINPIIYVIMNKQYRVAYKTVLMCEKNR 314
L ++ + + ++ +NP IY +++R ++ ++ R
Sbjct: 422 PDCSHAPLWLMYLAIVLSHTNSVVNPFIYAYRIREFRQTFRKIIRSHVLR 471
>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 = 113 bits (283), Expect = 3e-28
Identities = 60/308 (19%), Positives = 107/308 (34%), Gaps = 15/308 (4%)
Query: 6 YNATSILALPDVTLKITAVCTVIIAVVGVVGNSLTVVALLRCPKIRNVAAAFIVSLCIAD 65
Y A P + + + IAV+ ++GN L A+ ++NV F+VSL AD
Sbjct: 18 YKDDDDGAPPIMGSSVYITVELAIAVLAILGNVLVCWAVWLNSNLQNVTNYFVVSLAAAD 77
Query: 66 FFFCLLVIPFSTTRFYFKTWIHGKFLCTVVPFIQYSNVGVSLSCIAMITINRYIMIAHHQ 125
+L IPF+ T + C + S+ + I I+RYI I
Sbjct: 78 IAVGVLAIPFAIT--ISTGFCAACHGCLFIACFVLVLTQSSIFSLLAIAIDRYIAIRIPL 135
Query: 126 MYNTIYKPVWIGCMIAFCYALSFGMQIPTLAGQWGRFDLDTRL----------LTCSILP 175
YN + +IA C+ LSF + + + G + C
Sbjct: 136 RYNGLVTGTRAKGIIAICWVLSFAIGLTPMLGWNNCGQPKEGKNHSQGCGEGQVACLFED 195
Query: 176 DENGRSSKRALFLIGFVIPCVIIILCYAKIFWVVRSSEKRLRRHTSKIQSKKDQKELKAK 235
F ++P ++++ Y +IF R ++L ++ D ++ K
Sbjct: 196 VVPMNYMVYFNFFACVLVPLLLMLGVYLRIFLAAR---RQLADLEDNWETLNDNLKVIEK 252
Query: 236 RNDMRITKMVLVIFLSFLTCYLPITVVKTVDSEVHFPGLHVISYIFLYLSACINPIIYVI 295
++ K L + T K D P + + F L I+ + +
Sbjct: 253 ADNAAQVKDALTKMRAAALDAQKATPPKLEDKSPDSPEMKDFRHGFDILVGQIDDALKLA 312
Query: 296 MNKQYRVA 303
+ + A
Sbjct: 313 NEGKVKEA 320
Score = 57.0 bits (137), Expect = 3e-09
Identities = 32/223 (14%), Positives = 80/223 (35%), Gaps = 10/223 (4%)
Query: 109 CIAMITINRYI-MIAHHQMYNTIYKPVWIGCMIAFCYALSFGMQIPTLAGQWGRFDLDTR 167
+ M+ + I + A Q+ + + + Q+ + LD +
Sbjct: 215 LLLMLGVYLRIFLAARRQLADLEDNWETLNDNLKVIEKADNAAQVKDALTKMRAAALDAQ 274
Query: 168 LLTCSILPDENGRSSKRALFLIGFVIP----CVIIILCYAKIFWVVRSSEKRLRRHTSKI 223
T L D++ S + F GF I + L +++ ++L+ +
Sbjct: 275 KATPPKLEDKSPDSPEMKDFRHGFDILVGQIDDALKLANEGKVKEAQAAAEQLKTTRNAY 334
Query: 224 QSKKDQKELKAKRNDMRITKMVLVIFLSFLTCYLPITVVKTV-----DSEVHFPGLHVIS 278
K ++ + ++ K + +I F C+LP+ ++ D L ++
Sbjct: 335 IQKYLERARSTLQKEVHAAKSLAIIVGLFALCWLPLHIINCFTFFCPDCSHAPLWLMYLA 394
Query: 279 YIFLYLSACINPIIYVIMNKQYRVAYKTVLMCEKNRLLSSIRR 321
+ + ++ +NP IY +++R ++ ++ R +
Sbjct: 395 IVLSHTNSVVNPFIYAYRIREFRQTFRKIIRSHVLRQQEPFKA 437
>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 = 108 bits (271), Expect = 1e-26
Identities = 43/196 (21%), Positives = 82/196 (41%), Gaps = 7/196 (3%)
Query: 28 IIAVVGVVGNSLTVVALLRCPKIRNVAAAFIVSLCIADFFFCLLVIPFSTTRFYFKTWIH 87
I+ VVG+ GN L + ++R K++ +I +L +AD +PF + + TW
Sbjct: 26 IVCVVGLFGNFLVMYVIVRYTKMKTATNIYIFNLALADALA-TSTLPFQSVNYLMGTWPF 84
Query: 88 GKFLCTVVPFIQYSNVGVSLSCIAMITINRYIMIAHHQMYNTIYKPVWIGCMIAFCYALS 147
G LC +V I Y N+ S+ + ++++RYI + H P + + LS
Sbjct: 85 GNILCKIVISIDYYNMFTSIFTLCTMSVDRYIAVCHPVKALDFRTPRNAKIVNVCNWILS 144
Query: 148 FGMQIPTLAGQWGRFDLDTRLLTCSILPDENGRSSKRAL----FLIGFVIPCVIIILCYA 203
+ +P + + C++ + L F+ F++P +II +CY
Sbjct: 145 SAIGLPVMF--MATTKYRQGSIDCTLTFSHPTWYWENLLKICVFIFAFIMPVLIITVCYG 202
Query: 204 KIFWVVRSSEKRLRRH 219
+ ++S
Sbjct: 203 LMILRLKSVRNIFEML 218
Score = 56.9 bits (137), Expect = 3e-09
Identities = 19/93 (20%), Positives = 45/93 (48%), Gaps = 6/93 (6%)
Query: 229 QKELKAKRNDMRITKMVLVIFLSFLTCYLPITVVKTVDSEVHFPGLHVISYIFL------ 282
+ RN RIT+MVLV+ F+ C+ PI + + + + P + +
Sbjct: 369 WDAYEKDRNLRRITRMVLVVVAVFIVCWTPIHIYVIIKALITIPETTFQTVSWHFCIALG 428
Query: 283 YLSACINPIIYVIMNKQYRVAYKTVLMCEKNRL 315
Y ++C+NP++Y +++ ++ ++ + + +
Sbjct: 429 YTNSCLNPVLYAFLDENFKRCFREFCIPTSSTI 461
>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 = 109 bits (272), Expect = 1e-26
Identities = 46/247 (18%), Positives = 86/247 (34%), Gaps = 9/247 (3%)
Query: 3 SDAYNATSILALPDVTLKITAVCTVIIAVVGVVGNSLTVVALLRCPKIRNVAAAFIVSLC 62
S A + +V + + +I + V GN L + A+ + +++ V FI SL
Sbjct: 24 SHAPDHDVTQQRDEVWVVGMGIVMSLIVLAIVFGNVLVITAIAKFERLQTVTNYFITSLA 83
Query: 63 IADFFFCLLVIPFSTTRFYFKTWIHGKFLCTVVPFIQYSNVGVSLSCIAMITINRYIMIA 122
AD L V+PF K W G F C I V S+ + +I ++RY I
Sbjct: 84 CADLVMGLAVVPFGAAHILMKMWTFGNFWCEFWTSIDVLCVTASIETLCVIAVDRYFAIT 143
Query: 123 HHQMYNTIYKPVWIGCMIAFCYALSFGMQIPTLAGQWGRFDLDTRLL------TCSILPD 176
Y ++ +I + +S + W R + C +
Sbjct: 144 SPFKYQSLLTKNKARVIILMVWIVSGLTSFLPIQMHWYRATHQEAINCYAEETCCDFFTN 203
Query: 177 ENGRSSKRALFLIGFVIPCVIIILCYAKIFWVVRSSEKRLRRHTSKIQSKKDQKELKAKR 236
++ A ++ F +P VI++ Y+++F + + +
Sbjct: 204 ---QAYAIASSIVSFYVPLVIMVFVYSRVFQEAKRQLNIFEMLRIDEGLRLKIYKDTEGY 260
Query: 237 NDMRITK 243
+ I
Sbjct: 261 YTIGIGH 267
Score = 50.5 bits (120), Expect = 4e-07
Identities = 19/125 (15%), Positives = 46/125 (36%), Gaps = 4/125 (3%)
Query: 211 SSEKRLRRHTSKIQSKKDQKELKAKRNDMRITKMVLVIFLSFLTCYLPITVVKTVDSEVH 270
+ + K + + K + +I +F C+LP +V V
Sbjct: 376 NQTPNRAKRVITTFRTGTWDAYKFCLKEHKALKTLGIIMGTFTLCWLPFFIVNIVHVIQD 435
Query: 271 FPGLHVISYIFL---YLSACINPIIYVIMNKQYRVAYKTVLMCEKNRLLSSIRRSGTQSK 327
+ + Y+++ NP+IY + +R+A++ +L ++ L + +
Sbjct: 436 NLIRKEVYILLNWIGYVNSGFNPLIYC-RSPDFRIAFQELLCLRRSSLKAYGNGYSSNGN 494
Query: 328 DGKNN 332
G+ +
Sbjct: 495 TGEQS 499
>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 = 102 bits (254), Expect = 2e-24
Identities = 37/226 (16%), Positives = 76/226 (33%), Gaps = 6/226 (2%)
Query: 21 ITAVCTVIIAVVGVVGNSLTVVALLRCPKIRNVAAAFIVSLCIADFFFCLLVIPFSTTRF 80
+ +++V ++GN L +V++ ++ V F+ SL AD + + T
Sbjct: 25 FIVLVAGSLSLVTIIGNILVMVSIKVNRHLQTVNNYFLFSLACADLIIGVFSMNLYTLYT 84
Query: 81 YFKTWIHGKFLCTVVPFIQYSNVGVSLSCIAMITINRYIMIAHHQMYNTIYKPVWIGCMI 140
W G +C + + Y S+ + +I+ +RY + Y G MI
Sbjct: 85 VIGYWPLGPVVCDLWLALDYVVSNASVMNLLIISFDRYFCVTKPLTYPVKRTTKMAGMMI 144
Query: 141 AFCYALSFGMQIPTLAGQW---GRFDLDTRLLTCSILPDENGRSSKRALFLIGFVIPCVI 197
A + LSF + P + G ++ + + + F +P +I
Sbjct: 145 AAAWVLSFILWAPAILFWQFIVGVRTVEDGECYIQFFSN---AAVTFGTAIAAFYLPVII 201
Query: 198 IILCYAKIFWVVRSSEKRLRRHTSKIQSKKDQKELKAKRNDMRITK 243
+ + Y I +S + + + I
Sbjct: 202 MTVLYWHISRASKSRINIFEMLRIDEGLRLKIYKDTEGYYTIGIGH 247
Score = 55.1 bits (132), Expect = 1e-08
Identities = 19/112 (16%), Positives = 43/112 (38%), Gaps = 3/112 (2%)
Query: 207 WVVRSSEKRLRRHTSKIQSKKDQKELKAKRNDMRITKMVLVIFLSFLTCYLPITVVKTVD 266
+ + + ++T+ +L I L+F+ + P V+ ++
Sbjct: 352 SRWYNQTPNRAKRVITTFRTGTWDAYPPPSREKKVTRTILAILLAFIITWAPYNVMVLIN 411
Query: 267 SEVHF---PGLHVISYIFLYLSACINPIIYVIMNKQYRVAYKTVLMCEKNRL 315
+ + I Y Y+++ INP Y + N ++ +K +LMC +
Sbjct: 412 TFCAPCIPNTVWTIGYWLCYINSTINPACYALCNATFKKTFKHLLMCHYKNI 463
>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 = 101 bits (252), Expect = 7e-24
Identities = 50/276 (18%), Positives = 102/276 (36%), Gaps = 18/276 (6%)
Query: 28 IIAVVGVVGNSLTVVALLRCPKIRNVAAAFIVSLCIADFFFCLLVIPFSTTRFYFKTWIH 87
II + G+VGN L ++ + K+R++ + + L +AD F ++ +PF W
Sbjct: 57 IIFLTGIVGNGLVILVMGYQKKLRSMTDKYRLHLSVADLLF-VITLPFWAV-DAVANWYF 114
Query: 88 GKFLCTVVPFIQYSNVGVSLSCIAMITINRYIMIAHHQMYNTIYKPVWIGCMIAFCYALS 147
G FLC V I N+ S+ +A I+++RY+ I H K + + + +
Sbjct: 115 GNFLCKAVHVIYTVNLYSSVWILAFISLDRYLAIVHATNSQRPRKLLAEKVVYVGVWIPA 174
Query: 148 FGMQIPTLAGQWGRFDLDTRLLTCSIL-PDENGRSSKRAL-FLIGFVIPCVIIILCYAKI 205
+ IP + C P++ + ++G ++P ++I+ CY I
Sbjct: 175 LLLTIPDFI--FANVSEADDRYICDRFYPNDLWVVVFQFQHIMVGLILPGIVILSCYCII 232
Query: 206 FWVVRSSEKRLRRHTSKIQSKKDQKELKAKRNDMRITKMVLVIFLSFLTCYLPIT--VVK 263
+ S + + + + T+ I + L P
Sbjct: 233 ISKLSHSGSNIFEMLRIDEGL--------RLKIYKDTEGYYTIGIGHLLTKSPSLNAAKS 284
Query: 264 TVDSEVHFPGLHVISY--IFLYLSACINPIIYVIMN 297
+D + VI+ + ++ + I+
Sbjct: 285 ELDKAIGRNTNGVITKDEAEKLFNQDVDAAVRGILR 320
Score = 41.8 bits (98), Expect = 2e-04
Identities = 17/114 (14%), Positives = 43/114 (37%), Gaps = 13/114 (11%)
Query: 210 RSSEKRLRRHTSKIQSKKDQKELKAKRNDMRITKMVLVIFLSFLTCYLPITVVKTVDSEV 269
+ R +R + ++ + K +++ L+F C+LP + ++DS +
Sbjct: 380 NQTPNRAKRVITTFRTGTWDAYGSKGHQKRKALKTTVILILAFFACWLPYYIGISIDSFI 439
Query: 270 HFPGLH-------------VISYIFLYLSACINPIIYVIMNKQYRVAYKTVLMC 310
+ I+ + C+NPI+Y + +++ + + L
Sbjct: 440 LLEIIKQGCEFENTVHKWISITEALAFFHCCLNPILYAFLGAKFKTSAQHALTS 493
>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 = 100 bits (249), Expect = 1e-23
Identities = 46/228 (20%), Positives = 83/228 (36%), Gaps = 12/228 (5%)
Query: 21 ITAVCTVIIAVVGVVGNSLTVVALLRCPKIRNVAAAFIVSLCIADFFFCLLVIPFSTTR- 79
A+ + + V GN L +A+L+ ++ +VSL +AD LV+P+
Sbjct: 40 YYALSYCALILAIVFGNGLVCMAVLKERALQTTTNYLVVSLAVADLLVATLVMPWVVYLE 99
Query: 80 FYFKTWIHGKFLCTVVPFIQYSNVGVSLSCIAMITINRYIMIAHHQMYNTIYK---PVWI 136
W + C V + S+ + I+I+RY + Y +
Sbjct: 100 VTGGVWNFSRICCDVFVTLDVMMCTASIWNLCAISIDRYTAVVMPVHYQHGTGQSSCRRV 159
Query: 137 GCMIAFCYALSFGMQIPTLAGQWGRFDLDTRLLTCSILPDENGRSSKRALFLIGFVIPCV 196
MI + L+F + P L G + T CSI + ++ F +P
Sbjct: 160 ALMITAVWVLAFAVSCPLLFG-FNTTGDPT---VCSI----SNPDFVIYSSVVSFYLPFG 211
Query: 197 IIILCYAKIFWVVRSSEKRLRRHTSKIQSKKDQKELKAKRNDMRITKM 244
+ +L YA+I+ V++ ++ +I K K I
Sbjct: 212 VTVLVYARIYVVLKQRRRKNIFEMLRIDEGLRLKIYKDTEGYYTIGIG 259
Score = 54.4 bits (130), Expect = 2e-08
Identities = 20/107 (18%), Positives = 48/107 (44%), Gaps = 5/107 (4%)
Query: 210 RSSEKRLRRHTSKIQSKKDQKELKAKRNDMRITKMVLVIFLSFLTCYLPITVVKTVDSEV 269
+ R +R + ++ + + T+MV ++ +F+ C+LP + +++
Sbjct: 369 NQTPNRAKRVITTFRTGT-WDAYGVPLREKKATQMVAIVLGAFIVCWLPFFLTHVLNTHC 427
Query: 270 HFPGLHVISYIFL----YLSACINPIIYVIMNKQYRVAYKTVLMCEK 312
+ Y Y+++ +NP+IY N ++R A+ +L C +
Sbjct: 428 QTCHVSPELYSATTWLGYVNSALNPVIYTTFNIEFRKAFLKILSCGR 474
>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 = 99.4 bits (247), Expect = 2e-23
Identities = 50/232 (21%), Positives = 81/232 (34%), Gaps = 6/232 (2%)
Query: 13 ALPDVTLKITAVCTVIIAVVGVVGNSLTVVALLRCPKIRNVAAAFIVSLCIADFFFCLLV 72
+ L V I +V V N L + A+ K+ V +IVSL +AD +V
Sbjct: 2 TMASPQLMPLVVVLSTICLVTVGLNLLVLYAVRSERKLHTVGNLYIVSLSVADLIVGAVV 61
Query: 73 IPFSTTRFYFKTWIHGKFLCTVVPFIQYSNVGVSLSCIAMITINRYIMIAHHQMYNTIYK 132
+P + W G+ LC + Y S+ + ++ I+RY + Y
Sbjct: 62 MPMNILYLLMSKWSLGRPLCLFWLSMDYVASTASIFSVFILCIDRYRSVQQPLRYLKYRT 121
Query: 133 PVWIGCMIAFCYALSFGMQIPTLAGQWGRFDLDTRLL---TCSILPDENGRSSKRALFLI 189
I + LSF IP L W F T + C + K +I
Sbjct: 122 KTRASATILGAWFLSFLWVIPILG--WNHFMQQTSVRREDKCETDFYDV-TWFKVMTAII 178
Query: 190 GFVIPCVIIILCYAKIFWVVRSSEKRLRRHTSKIQSKKDQKELKAKRNDMRI 241
F +P ++++ YAKI+ VR + + + I
Sbjct: 179 NFYLPTLLMLWFYAKIYKAVRQHCNIFEMLRIDEGLRLKIYKDTEGYYTIGI 230
Score = 54.7 bits (131), Expect = 2e-08
Identities = 16/111 (14%), Positives = 40/111 (36%), Gaps = 3/111 (2%)
Query: 207 WVVRSSEKRLRRHTSKIQSKKDQKELKAKRNDMRITKMVLVIFLSFLTCYLPITVVKTVD 266
+ + + + K + I +F+ C++P + V
Sbjct: 337 SRWYNQTPNRAKRVITTFRTGTWDAYLHMNRERKAAKQLGFIMAAFILCWIPYFIFFMVI 396
Query: 267 SEVHF---PGLHVISYIFLYLSACINPIIYVIMNKQYRVAYKTVLMCEKNR 314
+ LH+ + Y+++ +NP+IY + N+ ++ +K +L
Sbjct: 397 AFCKNCCNEHLHMFTIWLGYINSTLNPLIYPLCNENFKKTFKRILHIRSGE 447
>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 = 94.6 bits (234), Expect = 1e-21
Identities = 36/237 (15%), Positives = 81/237 (34%), Gaps = 10/237 (4%)
Query: 3 SDAYNATSILAL---PDVTLKITAVCTVIIAVVGVVGNSLTVVALLRCPKIRNVAAAFIV 59
YN T L + + ++K+T+V ++I ++ N ++ + + K FI
Sbjct: 44 VRHYNYTGKLNISADKENSIKLTSVVFILICCFIILENIFVLLTIWKTKKFHRPMYYFIG 103
Query: 60 SLCIADFFFCLLVIPFSTTRFYFKTWIHGKFLCTVVPFIQYSNVGVSLSCIAMITINRYI 119
+L ++D + T+ + + + S+ + I I RYI
Sbjct: 104 NLALSDLLAGVAYTANLLL-SGATTYKLTPAQWFLREGSMFVALSASVFSLLAIAIERYI 162
Query: 120 MIAHHQMYNTIYKPVWIGCMIAFCYALSFGMQIPTLAGQWGRFDLDTRLLTCSILPDENG 179
+ + + +I+ C+ +S + + G W + T L
Sbjct: 163 TMLKM-KLHNGSNNFRLFLLISACWVISLILGGLPIMG-WNCISALSSCSTVLPLYH--- 217
Query: 180 RSSKRALFLIGFVIPCVIIILCYAKIFWVVRSSEKRLRRHTSKIQSKKDQKELKAKR 236
F + + I++ Y +I+ +VR+ + K K+ +
Sbjct: 218 -KHYILFCTTVFTLLLLSIVILYCRIYSLVRTRNIFEMLRIDEGLRLKIYKDTEGYY 273
Score = 59.9 bits (144), Expect = 3e-10
Identities = 24/131 (18%), Positives = 52/131 (39%), Gaps = 8/131 (6%)
Query: 215 RLRRHTSKIQSKKDQKELKAKRNDMRITKMVLVIFLSFLTCYLPITVVKTVD---SEVHF 271
R +R + ++ ++ + K V+++ F+ C+ P+ ++ +D
Sbjct: 393 RAKRVITTFRTGTWDAYASRSSENVALLKTVIIVLSVFIACWAPLFILLLLDVGCKVKTC 452
Query: 272 PGLHVISYIFL--YLSACINPIIYVIMNKQYRVAYKTVLMCEKNRLLSSIRRSGTQSKDG 329
L Y + L++ NPIIY + NK+ R A+ ++ L +
Sbjct: 453 DILFRAEYFLVLAVLNSGTNPIIYTLTNKEMRRAFIRIMGR---PLEVLFQGPHHHHHHH 509
Query: 330 KNNEYKLKSTK 340
+++YK K
Sbjct: 510 HHHDYKDDDDK 520
>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 = 55.1 bits (132), Expect = 2e-08
Identities = 47/310 (15%), Positives = 88/310 (28%), Gaps = 116/310 (37%)
Query: 28 IIAVVGVVGNSLTVVALLRCPKIRNVAAAFIVSLC--IADFFFCLLVIPFSTTRFY---- 81
++A+ G GN+ LR + + L A+ L+ + +
Sbjct: 156 LVAIFGGQGNTDDYFEELR--DLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGL 213
Query: 82 -FKTWIHGK-------FLCTV---VPFI------QYSNV----------------GVSLS 108
W+ +L ++ P I Y G +
Sbjct: 214 NILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGH 273
Query: 109 CIAMITINRYIMIAH----HQMYNTIYKPV----WIG--CMIAF-CYALSF--------- 148
++T + IA + ++ K + +IG C A+ +L
Sbjct: 274 SQGLVTA---VAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLEN 330
Query: 149 GMQIPT--LA--GQWGRFDLDTRL-LTCSILPDE--------NGRSSKRALFLIGFVI-- 193
+P+ L+ + + + T S LP NG + V+
Sbjct: 331 NEGVPSPMLSISNL-TQEQVQDYVNKTNSHLPAGKQVEISLVNGAKN--------LVVSG 381
Query: 194 -PCVIIILCYAKIFWVVRSSEKRLRRHTSKIQSKKDQKELK-AKRNDMRITKMVLVIFLS 251
P + L LR+ +K S DQ + ++R K L
Sbjct: 382 PPQSLYGLN------------LTLRK--AKAPSGLDQSRIPFSER------K------LK 415
Query: 252 FLTCYLPITV 261
F +LP+
Sbjct: 416 FSNRFLPVAS 425
Score = 35.4 bits (81), Expect = 0.033
Identities = 31/170 (18%), Positives = 59/170 (34%), Gaps = 50/170 (29%)
Query: 169 LTCSILPDENGRSSKRALFLIGFVIPCVIIILCY--AKIFWVVRSSEKRLRRHTSK-IQS 225
L +L + + K +I Y A+I + ++ S ++
Sbjct: 104 LAAKLLQENDTTLVKTKE-----------LIKNYITARIM----AKRPFDKKSNSALFRA 148
Query: 226 KKD-----------Q-------KELKAKRNDMRITKMVLVIFLSFLTCYLPITVVKTVDS 267
+ Q +EL R+ + +++ + F L + T+D+
Sbjct: 149 VGEGNAQLVAIFGGQGNTDDYFEEL---RDLYQTYHVLVGDLIKFSAETLSELIRTTLDA 205
Query: 268 EVHFP-GLHVISYI--------FLYL-SACIN-PIIYVIMNKQYRVAYKT 306
E F GL+++ ++ YL S I+ P+I VI Y V K
Sbjct: 206 EKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKL 255
Score = 32.3 bits (73), Expect = 0.25
Identities = 23/108 (21%), Positives = 39/108 (36%), Gaps = 33/108 (30%)
Query: 8 ATSILALPDVTLK-----ITAVCT-------VIIAVV-G----VV-GNSLTVVALLRCPK 49
+ +L++ ++T + + + V I++V G VV G ++ L
Sbjct: 335 PSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGL--NLT 392
Query: 50 IRNVAAAFIVSLCIADFFFCLLVIPFSTTRFYFKTWIHGKFLCTVVPF 97
+R A L + IPFS R K +FL PF
Sbjct: 393 LRKAKAP--SGLDQSR-------IPFSE-R---KLKFSNRFLPVASPF 427
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 42.1 bits (98), Expect = 2e-04
Identities = 41/289 (14%), Positives = 78/289 (26%), Gaps = 103/289 (35%)
Query: 35 VGNSLTVVAL-LRCPKI----RNVA-AAFIVSLCIADFFFCLLVIPFST--TRFYFKTWI 86
V N+ A L C KI R F+ + + + + ++
Sbjct: 253 VQNAKAWNAFNLSC-KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL 311
Query: 87 HGKF------LCTVVPFIQYSNVGVSLSCIAMI---------TINRYIMIAHHQMYNTIY 131
+ + T P +++I T + + + ++ I
Sbjct: 312 DCRPQDLPREVLTTNPRR-----------LSIIAESIRDGLATWDNWKHVNCDKLTTII- 359
Query: 132 KPVWIGCMIAFCYALSFGMQIPTLAGQWGRFDLDTRLLTCSILPDENGRSSKRALFLIGF 191
S + P + S+ P S+
Sbjct: 360 -------------ESSLNVLEPA--------EYRKMFDRLSVFPP----SAH-------- 386
Query: 192 VIPCVIIILCYAKIFWV--------------VRSS--EKRLRRHTSKIQSKKDQKELKAK 235
IP I+L + W + S EK+ + T I S ELK K
Sbjct: 387 -IP--TILLS---LIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI--YLELKVK 438
Query: 236 RNDMRITKMVLVIFLSFLTCYLPITVVKTVDSEVHFPGLHVISYIFLYL 284
+ + S + Y + KT DS+ ++ Y + ++
Sbjct: 439 LENEY------ALHRSIVDHY---NIPKTFDSD-DLIPPYLDQYFYSHI 477
Score = 29.1 bits (64), Expect = 2.8
Identities = 26/159 (16%), Positives = 49/159 (30%), Gaps = 37/159 (23%)
Query: 169 LTCSI--LPDENGRSSKRALFLIGFVI---PCVIIILCYAKIFWVVRSSEKRLRRHTSKI 223
L C LP E ++ R L +I I W + +K T+ I
Sbjct: 311 LDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWD-------NWKHVNCDK----LTTII 359
Query: 224 QSKKDQ---KELKAK-------RNDMRITKMVLVIFLSFLTCYLPITVVKTVDSEVHFPG 273
+S + E + I ++L + + + + V V +++H
Sbjct: 360 ESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSL----IWFDVIKSDVMVVVNKLHKYS 415
Query: 274 L-------HVISYIFLYLSACINPIIYVIMNKQYRVAYK 305
L IS +YL + +++ Y
Sbjct: 416 LVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYN 454
Score = 27.1 bits (59), Expect = 9.9
Identities = 25/180 (13%), Positives = 60/180 (33%), Gaps = 57/180 (31%)
Query: 204 KIFWVVRSSEKR---------LRRH----TSKIQSKKDQKELKAKR---------NDMRI 241
++FW + S ++ LR + S I++++ Q + + ND ++
Sbjct: 66 RLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQV 125
Query: 242 -TKMVLVIFLSFLTCYLPITVVKTVDSEVHFPGLHVISYIFLY-----------LSACIN 289
K ++ P ++ E L + + L C++
Sbjct: 126 FAKY-------NVSRLQPYLKLRQALLE-----LRPAKNVLIDGVLGSGKTWVALDVCLS 173
Query: 290 PIIYVIMNKQYRVAYKTVLMCEK--------NRLLSSIRRSGTQSKDG-KNNEYKLKSTK 340
+ M+ +++ + + C +LL I + T D N + ++ S +
Sbjct: 174 YKVQCKMD--FKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQ 231
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.1 bits (67), Expect = 0.65
Identities = 7/32 (21%), Positives = 15/32 (46%), Gaps = 3/32 (9%)
Query: 207 WVVRSSEKRLRRHTSKIQSKKDQKELKAKRND 238
W R SE+ + + +KI ++ K + +
Sbjct: 123 WNQRQSEQ-VEK--NKINNRIADKAFYQQPDA 151
>2okt_A OSB synthetase, O-succinylbenzoic acid synthetase; enolase,
structural genom protein structure initiative, PSI,
nysgrc; 1.30A {Staphylococcus aureus subsp} PDB: 2ola_A
3h70_A
Length = 342
Score = 28.9 bits (65), Expect = 2.6
Identities = 8/52 (15%), Positives = 14/52 (26%), Gaps = 4/52 (7%)
Query: 133 PVWIGCMIAFCYALSFGMQIPTLAGQWGRFDLDTRLLTCSILPD----ENGR 180
V IG M + + F + G ++ + GR
Sbjct: 267 KVVIGGMYEYGLSRYFTAMLARKGDYPGDVTPAGYYFEQDVVAHSGILKEGR 318
>3u9i_A Mandelate racemase/muconate lactonizing enzyme, C domain protein;
structural genomics, PSI-biology; 2.90A {Roseiflexus SP}
Length = 393
Score = 28.5 bits (64), Expect = 3.1
Identities = 10/37 (27%), Positives = 15/37 (40%)
Query: 133 PVWIGCMIAFCYALSFGMQIPTLAGQWGRFDLDTRLL 169
+ IG M+ A++ G + DLDT L
Sbjct: 322 HLMIGGMVESLLAMTVSACFAAGQGGFRFVDLDTPLF 358
>3ik4_A Mandelate racemase/muconate lactonizing protein; structural
genomics, enolase, epimerase, PSI-2, protein STRU
initiative; 2.10A {Herpetosiphon aurantiacus atcc 23779}
Length = 365
Score = 28.4 bits (64), Expect = 3.5
Identities = 12/37 (32%), Positives = 17/37 (45%)
Query: 133 PVWIGCMIAFCYALSFGMQIPTLAGQWGRFDLDTRLL 169
+ IG M+ A+SF + G + DLDT L
Sbjct: 292 GLMIGGMVESILAMSFSANLAAGNGGFDFIDLDTPLF 328
>2yxl_A PH0851 protein, 450AA long hypothetical FMU protein; FMU-homolog,
methyltransferase, structural genomics, NPPSFA; HET:
SFG; 2.55A {Pyrococcus horikoshii}
Length = 450
Score = 28.0 bits (63), Expect = 4.8
Identities = 9/14 (64%), Positives = 10/14 (71%), Gaps = 2/14 (14%)
Query: 167 RLL--TCSILPDEN 178
RLL TCSI +EN
Sbjct: 384 RLLYTTCSIFKEEN 397
>3s5s_A Mandelate racemase/muconate lactonizing enzyme FA protein;
PSI-biology, structural genomics, NEW YORK structural
genomi research consortium; 2.40A {Sorangium cellulosum}
Length = 389
Score = 27.7 bits (62), Expect = 5.6
Identities = 10/37 (27%), Positives = 15/37 (40%)
Query: 133 PVWIGCMIAFCYALSFGMQIPTLAGQWGRFDLDTRLL 169
+ IG M+ A++ G + DLDT L
Sbjct: 293 GLMIGGMVESVLAMTASACFAAGLGGFSFVDLDTPLF 329
>3t0p_A DNA polymerase III, beta subunit; DNA clamp, structural genomics,
joint center for structural JCSG, protein structure
initiative; HET: DNA MSE; 2.26A {Eubacterium rectale}
Length = 371
Score = 27.5 bits (62), Expect = 5.9
Identities = 9/34 (26%), Positives = 13/34 (38%)
Query: 304 YKTVLMCEKNRLLSSIRRSGTQSKDGKNNEYKLK 337
Y T + K LL I R+ K+G +
Sbjct: 253 YDTKVRINKRELLDCIDRATLLVKEGDKKPIIMN 286
>3q45_A Mandelate racemase/muconate lactonizing enzyme FA possible
chloromuconate cycloisomerase...; (beta/alpha)8-barrel;
3.00A {Cytophaga hutchinsonii} PDB: 3q4d_A
Length = 368
Score = 27.6 bits (62), Expect = 6.3
Identities = 7/37 (18%), Positives = 15/37 (40%)
Query: 133 PVWIGCMIAFCYALSFGMQIPTLAGQWGRFDLDTRLL 169
PV +G + + + ++ +D DT L+
Sbjct: 288 PVQVGGFLESRLGFTAAAHVALVSKTICYYDFDTPLM 324
>2avt_A DNA polymerase III beta subunit; beta clamp, sliding clamp,
replication, transferase; HET: DNA; 2.00A {Streptococcus
pyogenes} PDB: 2awa_A*
Length = 378
Score = 27.2 bits (61), Expect = 7.6
Identities = 7/34 (20%), Positives = 16/34 (47%)
Query: 304 YKTVLMCEKNRLLSSIRRSGTQSKDGKNNEYKLK 337
++T ++ L ++ R+ S +N KL+
Sbjct: 260 FETEVVFNTQSLRHAMERAFLISNATQNGTVKLE 293
>1sqg_A SUN protein, FMU protein; rossmann-fold, mixed beta sheet,
methyltransferase-fold, RNA-binding domain; 1.65A
{Escherichia coli} SCOP: a.79.1.3 c.66.1.38 PDB: 1sqf_A
Length = 429
Score = 27.5 bits (62), Expect = 7.7
Identities = 8/14 (57%), Positives = 11/14 (78%), Gaps = 2/14 (14%)
Query: 167 RLL--TCSILPDEN 178
L+ TCS+LP+EN
Sbjct: 369 TLVYATCSVLPEEN 382
>2pge_A MENC; OSBS, NYSGXRC, PSI-II, structural genomics, protein structure
initiative; 1.60A {Desulfotalea psychrophila LSV54}
Length = 377
Score = 27.4 bits (61), Expect = 8.0
Identities = 11/52 (21%), Positives = 15/52 (28%), Gaps = 4/52 (7%)
Query: 133 PVWIGCMIAFCYALSFGMQIPTLAGQWGRFDLDTRLLTCSILPD----ENGR 180
WI + L+ Q L L T L + LP + G
Sbjct: 314 GFWITSALESNLGLAAIAQWTALYQPTMPQGLGTGQLYTNNLPSNLAVDGGL 365
>2b9e_A NOL1/NOP2/SUN domain family, member 5 isoform 2; methytransferase,
structural genomics, structural genomics consortium,
SGC; HET: SAM; 1.65A {Homo sapiens} SCOP: c.66.1.38
Length = 309
Score = 26.9 bits (60), Expect = 9.0
Identities = 5/9 (55%), Positives = 7/9 (77%)
Query: 170 TCSILPDEN 178
TCS+ +EN
Sbjct: 234 TCSLCQEEN 242
>3ijl_A Muconate cycloisomerase; enolase superfamily, dipeptide epimerase,
L-Pro-D-Glu, nonpr binding; HET: DGL; 1.50A {Bacteroides
thetaiotaomicron} PDB: 3iji_A* 3ijq_A*
Length = 338
Score = 27.2 bits (61), Expect = 9.7
Identities = 12/37 (32%), Positives = 15/37 (40%), Gaps = 3/37 (8%)
Query: 133 PVWIGCMIAFCYALSFGMQIPTLAGQWGRFDLDTRLL 169
V +GCM A+S Q + DLD LL
Sbjct: 276 RVMVGCMTETSCAISAASQ---FSPAVDFADLDGNLL 309
>3mwc_A Mandelate racemase/muconate lactonizing protein; enolase,
structural genomics, protein structure initiative,
nysgrc; 1.80A {Kosmotoga olearia}
Length = 400
Score = 27.0 bits (60), Expect = 9.8
Identities = 6/33 (18%), Positives = 11/33 (33%)
Query: 133 PVWIGCMIAFCYALSFGMQIPTLAGQWGRFDLD 165
+W G M F + + + G D+
Sbjct: 308 KLWGGTMPESGLGARFLISLASFRGFVFPADVA 340
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 0.141 0.435
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: 5,135,875
Number of extensions: 301899
Number of successful extensions: 752
Number of sequences better than 10.0: 1
Number of HSP's gapped: 696
Number of HSP's successfully gapped: 54
Length of query: 342
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 248
Effective length of database: 4,077,219
Effective search space: 1011150312
Effective search space used: 1011150312
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: 58 (26.6 bits)