RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy918
(504 letters)
>1w63_M Adaptor-related protein complex 1, MU 1 subunit; endocytosis,
clathrin adaptor, transport, coated PITS; 4.0A {Mus
musculus} SCOP: i.23.1.1
Length = 423
Score = 397 bits (1020), Expect = e-135
Identities = 337/408 (82%), Positives = 375/408 (91%), Gaps = 1/408 (0%)
Query: 98 MSASALYILDVKGKVLISRNYRGDVEMGVIEKFMPLLMEKEEEGMLTPLLQTSDCTFAYI 157
MSASA+Y+LD+KGKVLI RNYRGDV+M +E FMP+LMEKEEEGML+P+L F +I
Sbjct: 1 MSASAVYVLDLKGKVLICRNYRGDVDMSEVEHFMPILMEKEEEGMLSPILAHGGVRFMWI 60
Query: 158 KYNNLFIVSTTKKNANIALVFVFLNKIVRVFTEYFKEIEEESIRDNFVVIYELLDELIDF 217
K+NNL++V+T+KKNA ++LVF FL K+V+VF+EYFKE+EEESIRDNFV+IYELLDEL+DF
Sbjct: 61 KHNNLYLVATSKKNACVSLVFSFLYKVVQVFSEYFKELEEESIRDNFVIIYELLDELMDF 120
Query: 218 GYPQTTDSKILQEYITQEGHKLEIQPRIPMA-VTNAVSWRSEGIKYRKNEVFLDVIESVN 276
GYPQTTDSKILQE+ITQEGHKLE P A VTNAVSWRSEGIKYRKNEVFLDVIE+VN
Sbjct: 121 GYPQTTDSKILQEFITQEGHKLETGAPRPPATVTNAVSWRSEGIKYRKNEVFLDVIEAVN 180
Query: 277 LLANSNGNVLRSEIVGAIKMRVYLSGMPELRLGLNDKVLFESTGRGKSKSVELEDVKFHQ 336
LL ++NGNVLRSEIVG+IKMRV+LSGMPELRLGLNDKVLF++TGRGKSKSVELEDVKFHQ
Sbjct: 181 LLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRGKSKSVELEDVKFHQ 240
Query: 337 CVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIERFVHSRVEYMIKAKSQ 396
CVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIE+ HSR+EYM+KAKSQ
Sbjct: 241 CVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIEKHSHSRIEYMVKAKSQ 300
Query: 397 FKRRSTANNVEIVIPVPADADSPKFKTTIGSVKYTPEQSAITWTIKSFPGGKEYLMRAHF 456
FKRRSTANNVEI IPVP DADSPKFKTT+GSVK+ PE S I W++KSFPGGKEYLMRAHF
Sbjct: 301 FKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVPENSEIVWSVKSFPGGKEYLMRAHF 360
Query: 457 GLPSVENEDAEGKPPIQVKFEIPYFTTSGIQVRYLKIIEKSGYQALPW 504
GLPSVE ED EGKPPI VKFEIPYFTTSGIQVRYLKIIEKSGYQA+PW
Sbjct: 361 GLPSVEAEDKEGKPPISVKFEIPYFTTSGIQVRYLKIIEKSGYQAIPW 408
>2vgl_M AP-2 complex subunit MU-1; cytoplasmic vesicle, alternative
splicing, endocytosis, lipid-binding, golgi apparatus,
adaptor, membrane, transport; HET: IHP; 2.59A {Rattus
norvegicus} PDB: 2jkr_M 2jkt_M 2bp5_M* 2xa7_M
Length = 435
Score = 370 bits (950), Expect = e-125
Identities = 166/421 (39%), Positives = 254/421 (60%), Gaps = 19/421 (4%)
Query: 101 SALYILDVKGKVLISRNYRGDVEMGVIEKFMPLLMEKEEEGMLTPLLQTSDCTFAYIKYN 160
L+I + KG+VLISR YR D+ ++ F ++ ++ +P+ + +F ++K +
Sbjct: 3 GGLFIYNHKGEVLISRVYRDDIGRNAVDAFRVNVIHARQQVR-SPVTNIARTSFFHVKRS 61
Query: 161 NLFIVSTTKKNANIALVFVFLNKIVRVFTEYFKEIEEESIRDNFVVIYELLDELIDFGYP 220
N+++ + TK+N N A+VF FL K+ V YF +I EE+I++NFV+IYELLDE++DFGYP
Sbjct: 62 NIWLAAVTKQNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILDFGYP 121
Query: 221 QTTDSKILQEYITQEGHKLEIQP-----RIPMAVTNAVSWRSEGIKYRKNEVFLDVIESV 275
Q +++ L+ +ITQ+G K + Q +I VT + WR EGIKYR+NE+FLDV+ESV
Sbjct: 122 QNSETGALKTFITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESV 181
Query: 276 NLLANSNGNVLRSEIVGAIKMRVYLSGMPELRLGLNDKVLFESTGRGKS--------KSV 327
NLL + G VL + + G + M+ YLSGMPE + G+NDK++ E G+G + +S+
Sbjct: 182 NLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSI 241
Query: 328 ELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIERFVHSRV 387
++D FHQCVRLS+F+++R+ISFIPPDGEFELM YR + + ++ +++
Sbjct: 242 AIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKL 301
Query: 388 EYMIKAKSQFKRRSTANNVEIVIPVPADADSPKFKTTIGSVKYTPEQSAITWTIKSFPGG 447
E + KS FK A +E+ IP P + + G KY ++AI W IK G
Sbjct: 302 EVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAIVWKIKRMAGM 361
Query: 448 KEYLMRAHFGLPSVENEDAEGKPPIQVKFEIPYFTTSGIQVRYLKIIEK----SGYQALP 503
KE + A L ++ +PPI + FE+P F SG++VRYLK+ E S + +
Sbjct: 362 KESQISAEIELLPTNDKKKWARPPISMNFEVP-FAPSGLKVRYLKVFEPKLNYSDHDVIK 420
Query: 504 W 504
W
Sbjct: 421 W 421
>1i31_A Clathrin coat assembly protein AP50; beta-sandwich, peptide-binding
site, protein-peptide complex, clathrin adaptor; 2.50A
{Rattus norvegicus} SCOP: b.2.7.1 PDB: 1bw8_A 2pr9_A
3h85_A 1bxx_A 1hes_A 1h6e_A
Length = 314
Score = 291 bits (745), Expect = 1e-95
Identities = 118/301 (39%), Positives = 174/301 (57%), Gaps = 18/301 (5%)
Query: 221 QTTDSKILQEYITQEGHKL-----EIQPRIPMAVTNAVSWRSEGIKYRKNEVFLDVIESV 275
Q +++ L+ +ITQ+G K E Q +I VT + WR EGIKYR+NE+FLDV+ESV
Sbjct: 1 QNSETGALKTFITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESV 60
Query: 276 NLLANSNGNVLRSEIVGAIKMRVYLSGMPELRLGLNDKVLFESTGRGKS--------KSV 327
NLL + G VL + + G + M+ YLSGMPE + G+NDK++ E G+G + +S+
Sbjct: 61 NLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSI 120
Query: 328 ELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIERFVHSRV 387
++D FHQCVRLS+F+++R+ISFIPPDGEFELM YR + + ++ +++
Sbjct: 121 AIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKL 180
Query: 388 EYMIKAKSQFKRRSTANNVEIVIPVPADADSPKFKTTIGSVKYTPEQSAITWTIKSFPGG 447
E + KS FK A +E+ IP P + + G KY ++AI W IK G
Sbjct: 181 EVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAIVWKIKRMAGM 240
Query: 448 KEYLMRAHFGLPSVENEDAEGKPPIQVKFEIPYFTTSGIQVRYLKIIEK----SGYQALP 503
KE + A L ++ +PPI + FE+P F SG++VRYLK+ E S + +
Sbjct: 241 KESQISAEIELLPTNDKKKWARPPISMNFEVP-FAPSGLKVRYLKVFEPKLNYSDHDVIK 299
Query: 504 W 504
W
Sbjct: 300 W 300
>4en2_M AP-1 complex subunit MU-1; human immunodeficiency virus 1, HIV,
NEF, antigen presentation, HOST defense, adaptor protein
complex 1, MU1 subunit; 2.58A {Mus musculus} PDB: 4emz_A
Length = 266
Score = 282 bits (723), Expect = 7e-93
Identities = 225/251 (89%), Positives = 239/251 (95%)
Query: 254 SWRSEGIKYRKNEVFLDVIESVNLLANSNGNVLRSEIVGAIKMRVYLSGMPELRLGLNDK 313
SWRSEGIKYRKNEVFLDVIE+VNLL ++NGNVLRSEIVG+IKMRV+LSGMPELRLGLNDK
Sbjct: 1 SWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDK 60
Query: 314 VLFESTGRGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPLI 373
VLF++TGRGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPLI
Sbjct: 61 VLFDNTGRGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPLI 120
Query: 374 WIESVIERFVHSRVEYMIKAKSQFKRRSTANNVEIVIPVPADADSPKFKTTIGSVKYTPE 433
WIESVIE+ HSR+EYM+KAKSQFKRRSTANNVEI IPVP DADSPKFKTT+GSVK+ PE
Sbjct: 121 WIESVIEKHSHSRIEYMVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVPE 180
Query: 434 QSAITWTIKSFPGGKEYLMRAHFGLPSVENEDAEGKPPIQVKFEIPYFTTSGIQVRYLKI 493
S I W++KSFPGGKEYLMRAHFGLPSVE ED EGKPPI VKFEIPYFTTSGIQVRYLKI
Sbjct: 181 NSEIVWSVKSFPGGKEYLMRAHFGLPSVEAEDKEGKPPISVKFEIPYFTTSGIQVRYLKI 240
Query: 494 IEKSGYQALPW 504
IEKSGYQALPW
Sbjct: 241 IEKSGYQALPW 251
>3ml6_A Chimeric complex between protein dishevlled2 HOMO and clathrin
adaptor AP-2 complex...; dishevelled, frizzled
internalization; 3.50A {Mus musculus}
Length = 385
Score = 281 bits (720), Expect = 8e-91
Identities = 108/367 (29%), Positives = 172/367 (46%), Gaps = 47/367 (12%)
Query: 181 LNKIVRVFTEYFKEIEEESIRD---------NFVVIYELLDELIDF--GYPQTTDSKILQ 229
+ + + +E +RD N + +++D L G+P+ +++
Sbjct: 9 MASVTKAMAAPESGLE---VRDRMWLKITIPNAFLGSDVVDWLYHHVEGFPERREARKYA 65
Query: 230 EYITQEG--------------------HKLEIQPRIPMAVTNAVSWRSEGIKYRKNEVFL 269
+ + G G +NE+FL
Sbjct: 66 SGLLKAGLIRHTVNKITFSEQCYYVFGDLSGGPRPYSPQPPPYHELEFGGSGGSRNELFL 125
Query: 270 DVIESVNLLANSNGNVLRSEIVGAIKMRVYLSGMPELRLGLNDKVLFESTGRGKS----- 324
DV+ESVNLL + G VL + + G + M+ YLSGMPE + G+NDK++ E G+G +
Sbjct: 126 DVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSK 185
Query: 325 ---KSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIER 381
+S+ ++D FHQCVRLS+F+++R+ISFIPPDGEFELM YR + + ++
Sbjct: 186 SGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVRE 245
Query: 382 FVHSRVEYMIKAKSQFKRRSTANNVEIVIPVPADADSPKFKTTIGSVKYTPEQSAITWTI 441
+++E + KS FK A +E+ IP P + + G KY ++AI W I
Sbjct: 246 VGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAIVWKI 305
Query: 442 KSFPGGKEYLMRAHFGLPSVENEDAEGKPPIQVKFEIPYFTTSGIQVRYLKIIEK----S 497
K G KE + A L ++ +PPI + FE+P F SG++VRYLK+ E S
Sbjct: 306 KRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVP-FAPSGLKVRYLKVFEPKLNYS 364
Query: 498 GYQALPW 504
+ + W
Sbjct: 365 DHDVIKW 371
>3l81_A AP-4 complex subunit MU-1; immunoglobulin-like beta-sandwich,
coated PIT, golgi apparat membrane, phosphoprotein,
protein transport, transport; 1.60A {Homo sapiens}
Length = 301
Score = 264 bits (675), Expect = 3e-85
Identities = 72/274 (26%), Positives = 127/274 (46%), Gaps = 13/274 (4%)
Query: 243 PRIPMAVTNAVSWRSEGIKYRKNEVFLDVIESVNLLANSNGNVLRSEIVGAIKMRVYLSG 302
P + + S + +KNEVFLDV+E +++L SNG++L+ ++ G I+++ +L
Sbjct: 11 KVAPSSAASRPVLSSRSDQSQKNEVFLDVVERLSVLIASNGSLLKVDVQGEIRLKSFLPS 70
Query: 303 MPELRLGLNDKVLFESTG-RGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELM 361
E+R+GL ++ + RG + +++V FH V L FE+ R + PP GE +M
Sbjct: 71 GSEMRIGLTEEFSVGKSELRGYGPGIRVDEVSFHSSVNLDEFESHRILRLQPPQGELTVM 130
Query: 362 SYRLNTHVK---PLIWIESVIERFVHSRVEYMIKAKSQFKRRSTANNVEIVIPVPADADS 418
Y+L+ + P SV R++ +K + +S A NV + +P+P S
Sbjct: 131 RYQLSDDLPSPLPFRLFPSVQWDRGSGRLQVYLKLRCDLLSKSQALNVRLHLPLPRGVVS 190
Query: 419 PKFKTTIGSVKYTPEQSAITWTIKSFPGGKEYLMRAHFGLPSVENEDAEG---------K 469
+ + K + A+ W + GG + +P + G
Sbjct: 191 LSQELSSPEQKAELAEGALRWDLPRVQGGSQLSGLFQMDVPGPPGPPSHGLSTSASPLGL 250
Query: 470 PPIQVKFEIPYFTTSGIQVRYLKIIEKSGYQALP 503
P + FE+P T SG+QVR+L++ + A P
Sbjct: 251 GPASLSFELPRHTCSGLQVRFLRLAFRPSGNANP 284
>2vgl_S AP-2 complex subunit sigma-1; cytoplasmic vesicle, alternative
splicing, endocytosis, lipid-binding, golgi apparatus,
adaptor, membrane, transport; HET: IHP; 2.59A {Mus
musculus} SCOP: i.23.1.1 PDB: 2jkt_I 2jkr_I* 2xa7_S
Length = 142
Score = 121 bits (306), Expect = 4e-33
Identities = 28/141 (19%), Positives = 62/141 (43%), Gaps = 6/141 (4%)
Query: 101 SALYILDVKGKVLISRNYRG---DVEMGVIEKFMPLLMEKEEEGMLTPLLQTSDCTFAYI 157
+ I + GK +++ Y D + +IE+ ++ ++ + T ++ + Y
Sbjct: 3 RFILIQNRAGKTRLAKWYMQFDDDEKQKLIEEVHAVVTVRDAK--HTNFVEFRNFKIIYR 60
Query: 158 KYNNLFIVSTTKKNANIALVFVFLNKIVRVFTEYFKEIEEESIRDNFVVIYELLDELIDF 217
+Y L+ N N ++ V V EYF + E + NF +Y ++DE+
Sbjct: 61 RYAGLYFCICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLA 120
Query: 218 GYPQ-TTDSKILQEYITQEGH 237
G + T+ +K+L++ + +
Sbjct: 121 GEIRETSQTKVLKQLLMLQSL 141
>1w63_Q Adapter-related protein complex 1 sigma 1A subunit; endocytosis,
clathrin adaptor, transport, coated PITS; 4.0A {Mus
musculus} SCOP: i.23.1.1
Length = 158
Score = 108 bits (270), Expect = 5e-28
Identities = 30/158 (18%), Positives = 67/158 (42%), Gaps = 6/158 (3%)
Query: 101 SALYILDVKGKVLISRNYRGDVE---MGVIEKFMPLLMEKEEEGMLTPLLQTSDCTFAYI 157
+ + +GK+ + + Y + ++ + M +++ ++ + + L+ D Y
Sbjct: 3 RFMLLFSRQGKLRLQKWYLATSDKERKKMVRELMQVVLARKPK--MCSFLEWRDLKVVYK 60
Query: 158 KYNNLFIVSTTKKNANIALVFVFLNKIVRVFTEYFKEIEEESIRDNFVVIYELLDELIDF 217
+Y +L+ + N + +++ V + +YF + E I NF Y +LDE +
Sbjct: 61 RYASLYFCCAIEGQDNELITLELIHRYVELLDKYFGSVCELDIIFNFEKAYFILDEFLMG 120
Query: 218 GYPQTTDSKILQEYITQEGHKLEIQPRIPMAVTNAVSW 255
G Q T K + + I Q L+ + P +V +
Sbjct: 121 GDVQDTSKKSVLKAIEQA-DLLQEEDESPRSVLEEMGL 157
>3tjz_C Coatomer subunit zeta-1; protein trafficking, golgi membrane,
protein transport-prote binding complex; HET: GNP; 2.90A
{Bos taurus} PDB: 2hf6_A
Length = 153
Score = 81.2 bits (200), Expect = 2e-18
Identities = 22/137 (16%), Positives = 53/137 (38%), Gaps = 1/137 (0%)
Query: 101 SALYILDVKGKVLISRNYRGDVEMGVIEKFMPLLMEKEEEGMLTPLLQTSDCTFAYIKYN 160
A+ ILD G L ++ Y +K + + + + T Y
Sbjct: 14 KAILILDNDGDRLFAKYYDDTYPSVKEQKAFEKNIFNKTHRTDSEIALLEGLTVVYKSSI 73
Query: 161 NLFIVSTTKKNANIALVFVFLNKIVRVFTEYFKE-IEEESIRDNFVVIYELLDELIDFGY 219
+L+ N ++ LN + ++ ++ +E+ ++ +N ++ +DE++D G
Sbjct: 74 DLYFYVIGSSYENELMLMTVLNCLFDSLSQMLRKNVEKRALLENMEGLFLAVDEIVDGGV 133
Query: 220 PQTTDSKILQEYITQEG 236
+D + + + G
Sbjct: 134 ILESDPQQVVHRVALRG 150
>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 = 69.7 bits (170), Expect = 1e-12
Identities = 95/614 (15%), Positives = 175/614 (28%), Gaps = 250/614 (40%)
Query: 2 GVIEKFMPLPHDE----KKRRECLTLSLQTSDCTFATSNIKPLSVVSLPRRMPTLRLVSH 57
G +E + +P + +E L FA + +P + L + L VS
Sbjct: 14 GSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADD-EPTTPAELVGKF--LGYVSS 70
Query: 58 --EPGR----------------------NNIHTGRTQAEIQPRIPMAVTNAV-------- 85
EP + N+IH + + + T +
Sbjct: 71 LVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITAR 130
Query: 86 -----SWPNNNNSILFIMSASALYILDVKGKVLISRNY-----RGDVEMGVIE------K 129
+ +NS LF + G + +G+ + E
Sbjct: 131 IMAKRPFDKKSNSALF-RAVGE-------GNAQL---VAIFGGQGNTDDYFEELRDLYQT 179
Query: 130 FMPLLME--KEEEGMLTPLLQTS-DCTFAYIKYNNL--------------FIVSTTKKNA 172
+ L+ + K L+ L++T+ D + + N+ +++S
Sbjct: 180 YHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLS-----I 234
Query: 173 NIALVFVFL--------------------NKIVRVFTEYFKEI----------EEESIRD 202
I+ + + ++ T + + + ES
Sbjct: 235 PISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFV 294
Query: 203 NFVVIYELLDELIDF--G------YPQTT-DSKILQEYITQ-EGHKLEIQPRIPM-AVTN 251
+ +L F G YP T+ IL++ + EG P PM +++N
Sbjct: 295 SVRKAITVL-----FFIGVRCYEAYPNTSLPPSILEDSLENNEG-----VPS-PMLSISN 343
Query: 252 AVSWRSEGIKYRKNEVFLDVIESVNL---------LANSNGNVLRSEIVGAIKMRVYLSG 302
+ +V D + N ++ NG +V +SG
Sbjct: 344 ----------LTQEQVQ-DYVNKTNSHLPAGKQVEISLVNG---AKNLV--------VSG 381
Query: 303 MPE-LRLGLNDKV--LFESTGRGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFE 359
P+ L GLN + +G +S+ + F + R +F N F+P
Sbjct: 382 PPQSLY-GLNLTLRKAKAPSGLDQSR------IPFSE--RKLKFSN----RFLP------ 422
Query: 360 LMSYRLNTHVKPLIWIESVIERFVHSRVEYMIKAKSQFKRRSTANNVEI-----VIPV-- 412
V F HS ++ A + NNV IPV
Sbjct: 423 ------------------VASPF-HS--HLLVPASDLINKDLVKNNVSFNAKDIQIPVYD 461
Query: 413 PAD-ADSPKFKTTIGSVKYTPE------QSAITWT---------IKSF-PGGKEYLMRAH 455
D +D +I + + + W I F PGG
Sbjct: 462 TFDGSDLRVLSGSI-----SERIVDCIIRLPVKWETTTQFKATHILDFGPGGAS------ 510
Query: 456 FGLPSVENEDAEGK 469
GL + + + +G
Sbjct: 511 -GLGVLTHRNKDGT 523
Score = 45.8 bits (108), Expect = 4e-05
Identities = 47/291 (16%), Positives = 88/291 (30%), Gaps = 94/291 (32%)
Query: 139 EEGMLTPLLQTSD---CTF----AYIKYNNLFIVSTTKKNANIALVFVFLNKIVRVFTEY 191
E+GM L +TS + + K F + N + L F + + E
Sbjct: 1628 EQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIREN 1687
Query: 192 FKEIEEESIRDNFVVIYELLDEL------IDFGYPQTTDSKILQEYITQEGHKLEIQPRI 245
+ + E+I D + ++ E+ F + T QP +
Sbjct: 1688 YSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSE---KGLLSATQFT--------QPAL 1736
Query: 246 PMAVTNAV--SWRSEGIKYRKNEVFLDVIESVNLLANSNGNVLRSEIVG---AIKMRVYL 300
+ A +S+G+ + F A G+ S +G A+ L
Sbjct: 1737 -TLMEKAAFEDLKSKGLI-PADATF----------A---GH---S--LGEYAAL---ASL 1773
Query: 301 SGMPELRLGLND--KVLFESTGRGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEF 358
+ + + + +V+F RG T+ P E
Sbjct: 1774 ADV----MSIESLVEVVFY---RGM------------------------TMQVAVPRDEL 1802
Query: 359 ELMSYRLNTHVKPLIWIESVIERFVHSRVEYMIKAKSQFKRRSTANNVEIV 409
+Y + + P V F ++Y+++ + T VEIV
Sbjct: 1803 GRSNYGMIA-INP----GRVAASFSQEALQYVVERVG----KRTGWLVEIV 1844
Score = 40.8 bits (95), Expect = 0.001
Identities = 27/136 (19%), Positives = 39/136 (28%), Gaps = 46/136 (33%)
Query: 7 FMPL--P-HDE--KKRRECLTLSLQTSDCTFATSNIKPLSVVSLPRRMPTLRLVSHEPGR 61
F+P+ P H + + L ++ +F +I+ +P V
Sbjct: 420 FLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQ----------IP----VYD---- 461
Query: 62 NNIHTGR----TQAEIQPRI-PMAVTNAVSWPNNNNSILFIMSASALYILD-----VKG- 110
G I RI + V W A +ILD G
Sbjct: 462 --TFDGSDLRVLSGSISERIVDCIIRLPVKWET-------TTQFKATHILDFGPGGASGL 512
Query: 111 KVLISRNYRGDVEMGV 126
VL RN G GV
Sbjct: 513 GVLTHRNKDG---TGV 525
>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 = 53.3 bits (127), Expect = 1e-07
Identities = 46/391 (11%), Positives = 102/391 (26%), Gaps = 116/391 (29%)
Query: 182 NKIVRVFTEYF-KEIEEESIRDNF--VVIYELLDELIDFGYPQTTDSKIL------QEYI 232
I+ VF + F + + ++D ++ E +D +I + ++ QE +
Sbjct: 19 KDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEM 78
Query: 233 TQEGHKLEIQPRIPMAVTNAVSWRSEGIKYRKNEVFLDV---IESVNLLANSN-----GN 284
Q+ + ++ + IK + + + IE + L N N N
Sbjct: 79 VQKFVEEVLRINYK--------FLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYN 130
Query: 285 VLRSEIVGAIK-----MR----VYLSGMP---------------ELRLGLNDKVLFESTG 320
V R + ++ +R V + G+ +++ ++ K+ + +
Sbjct: 131 VSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLK 190
Query: 321 RGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNT------HVKPLI- 373
S LE ++ ++ R+ + L + L+
Sbjct: 191 NCNSPETVLEMLQ-KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLV 249
Query: 374 ----WIESVIERF-VHSRV--------------------EYMIKAKSQFKRRST----AN 404
F + ++ +
Sbjct: 250 LLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLK 309
Query: 405 NVEIVI---PVPADADSPKFKTTIGSVKYTPEQSAITW-------------TIKSF---- 444
++ P +P+ + I TW I+S
Sbjct: 310 YLDCRPQDLPREVLTTNPRRLSIIAESI---RDGLATWDNWKHVNCDKLTTIIESSLNVL 366
Query: 445 -PGGKEYLMRAHFGLPSVENEDAEGKPPIQV 474
P R F SV A P +
Sbjct: 367 EP----AEYRKMFDRLSVFPPSA--HIPTIL 391
Score = 46.0 bits (108), Expect = 3e-05
Identities = 71/477 (14%), Positives = 139/477 (29%), Gaps = 138/477 (28%)
Query: 15 KKRRECLTLSLQTSDCTFATSNIKPLSVVSLPRRMPTLRLVSHEPGRNNIHTGRTQAEIQ 74
L + N S ++L H IQ
Sbjct: 191 NCNSPETVLEMLQKLLYQIDPNWT-----SRSDHSSNIKLRIHS--------------IQ 231
Query: 75 PRIPMAVTNAVSWPNNNNSILFIM----SASALYILDVKGKVLISRNYRG--DVEMG--- 125
+ + N +L ++ +A A ++ K+L++ ++ D
Sbjct: 232 AEL----RRLLKSKPYENCLL-VLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATT 286
Query: 126 ---VIEKFMPLLMEKEEEGMLTPLLQTSD-------CTFAYIKYNNLFIVSTTKKNANI- 174
++ L E + +L L T N +S I
Sbjct: 287 THISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLT------TNPRRLSI------IA 334
Query: 175 ALVFVFLNKIVRVFTEYFKEIEEESIRDNFVVIYELLDELIDFGYPQTTDSKILQEYITQ 234
+ L + +K + + + +I L+ L + ++
Sbjct: 335 ESIRDGLATW-----DNWKHVNCDKLTT---IIESSLNVL---------EPAEYRKMF-- 375
Query: 235 EGHKLEIQP---RIPMAVTNAVSWRSEGIKYRKNEVFLDVIESVNLLANSNGNVLRSEIV 291
+L + P IP + ++ W + + DV+ VN L S +
Sbjct: 376 --DRLSVFPPSAHIPTILL-SLIW--------FDVIKSDVMVVVNKLHK------YSLVE 418
Query: 292 GAIKMRVYLSGMPELRLGLNDKVLFESTGRGKSKSVELEDVKFHQ----CVRLSR-FEND 346
K +P + L L K+ + H+ + + F++D
Sbjct: 419 KQPKESTI--SIPSIYLELKVKL--------------ENEYALHRSIVDHYNIPKTFDSD 462
Query: 347 RTISFIPP--DGEFELMSYRLNTHVKPLIWIESVIERFVHSRVEYM----IKAKSQFKRR 400
IPP D F S+ + H+K + ER R+ ++ ++ K +
Sbjct: 463 ---DLIPPYLDQYF--YSH-IGHHLKNI----EHPERMTLFRMVFLDFRFLEQK--IRHD 510
Query: 401 STANNVEIVIPVPADADSPKFKTTIGSVKYTPEQSAITWTIKSF-PGGKEYLMRAHF 456
STA N I + +K I P+ + I F P +E L+ + +
Sbjct: 511 STAWNASGSI-LNTLQQLKFYKPYI--CDNDPKYERLVNAILDFLPKIEENLICSKY 564
Score = 34.8 bits (79), Expect = 0.084
Identities = 32/183 (17%), Positives = 75/183 (40%), Gaps = 43/183 (23%)
Query: 89 NNNNSILFIMSASALYILDVKGKVLISRNYRGDVEMGVIEKFMPLLMEKEEEGMLTPLLQ 148
S + I S +Y L++K K+ + +++ + + + + ++ P L
Sbjct: 420 QPKESTISIPS---IY-LELKVKL----ENEYALHRSIVDHY-NIPKTFDSDDLIPPYL- 469
Query: 149 TSDCTFAYIKYNNLFIVSTTKKNANIALVFV---FL-NKIVRVFTEY---------FKEI 195
+++I ++ L + ++ +VF+ FL KI T + +++
Sbjct: 470 -DQYFYSHIGHH-LKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQL 527
Query: 196 E--EESIRDNFVVIYELLDELIDFGYPQ-------TTDSKILQ-------EYITQEGHKL 239
+ + I DN L++ ++DF P+ + + +L+ E I +E HK
Sbjct: 528 KFYKPYICDNDPKYERLVNAILDF-LPKIEENLICSKYTDLLRIALMAEDEAIFEEAHK- 585
Query: 240 EIQ 242
++Q
Sbjct: 586 QVQ 588
>2wl8_A Peroxisomal biogenesis factor 19; protein transport, biogenesis
disorder, zellweger syndrome, membrane, prenylation;
2.05A {Homo sapiens}
Length = 126
Score = 30.7 bits (69), Expect = 0.48
Identities = 14/96 (14%), Positives = 39/96 (40%), Gaps = 4/96 (4%)
Query: 125 GVIEKFMPLLMEKEEEGMLTPLLQTSDCTFAYIKYNNLFIVSTTKKNANIALVFVFLNKI 184
+++ M L+ K+ + L + ++ +++ + + ++ + KI
Sbjct: 16 PIMQSIMQNLLSKDV--LYPSLKEITEKYPEWLQSHRESL--PPEQFEKYQEQHSVMCKI 71
Query: 185 VRVFTEYFKEIEEESIRDNFVVIYELLDELIDFGYP 220
F E + + F ++ +L+ +L D G+P
Sbjct: 72 CEQFEAETPTDSETTQKARFEMVLDLMQQLQDLGHP 107
>3kyq_A YKT6, synaptobrevin homolog YKT6; V-snare homolog, lipid binding,
cytoplasmic vesicle, ER-GOLG transport, golgi apparatus,
lipoprotein; HET: DPV; 2.44A {Rattus norvegicus}
Length = 199
Score = 29.8 bits (66), Expect = 1.5
Identities = 19/128 (14%), Positives = 46/128 (35%), Gaps = 6/128 (4%)
Query: 133 LLMEKEEEGMLTPLLQTSDCTFAYIKYNNLFIVSTTKKNANIALVFVFLNKIVRVFTEYF 192
L++E+ +G + + Y++ ++L V + F L K++ F++
Sbjct: 47 LIVERSAKGSRASVKEQEYLCHVYVRSDSLAGVVIADSEYPSRVAFTLLEKVLDEFSKQV 106
Query: 193 KEIEEESIRDNFVVIYELLDELIDFGYPQTTDSKILQEYITQEGHKLEIQPRIPMAVTNA 252
I+ + L L + P+ D +++ +L+ I +
Sbjct: 107 DRIDWPVGSPATIHYTALDGHLSRYQNPREADP------MSKVQAELDETKIILHNTMES 160
Query: 253 VSWRSEGI 260
+ R E +
Sbjct: 161 LLERGEKL 168
>2qjl_A URM1, ubiquitin-related modifier 1; ubiquitin-like protein,
signaling protein; 1.44A {Saccharomyces cerevisiae} PDB:
2pko_A 2ax5_A
Length = 99
Score = 27.9 bits (62), Expect = 2.3
Identities = 17/87 (19%), Positives = 32/87 (36%), Gaps = 11/87 (12%)
Query: 234 QEGHKLEIQPRIPMAVTNAVSWRSEGIKYRKNEVFLDVIESVNLLANSNGNVLRSEIVGA 293
Q HK+++ P+ V + + + N+V + + + +R I+
Sbjct: 19 QRVHKIKMDKEDPVTVGDLIDHIVSTMINNPNDVSIFI----------EDDSIRPGIITL 68
Query: 294 I-KMRVYLSGMPELRLGLNDKVLFEST 319
I L G + L D + F ST
Sbjct: 69 INDTDWELEGEKDYILEDGDIISFTST 95
>2z5b_A Protein YPL144W, DMP1; proteasome, chaperone; 1.96A {Saccharomyces
cerevisiae} PDB: 2z5c_A
Length = 151
Score = 28.0 bits (61), Expect = 5.1
Identities = 13/84 (15%), Positives = 29/84 (34%), Gaps = 10/84 (11%)
Query: 406 VEIVIPVPADADSPKFKTTIGSVKYTPEQSAITWTIKSFPGGKEYLMRAHFGLPSVENED 465
++++ +PAD S K P + + ++ L ++ +P + +
Sbjct: 24 LDVIATLPADDRSKK----------IPISLVVGFKQEASLNSSSSLSCYYYAIPLMRDRH 73
Query: 466 AEGKPPIQVKFEIPYFTTSGIQVR 489
K IP T ++R
Sbjct: 74 INLKSGGSNVVGIPLLDTKDDRIR 97
>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 94
Score = 26.1 bits (58), Expect = 9.1
Identities = 11/76 (14%), Positives = 28/76 (36%), Gaps = 10/76 (13%)
Query: 194 EIEEESIRDNFVVIYELLDELID-----FGY-----PQTTDSKILQEYITQEGHKLEIQP 243
++ + + F+ + ++D F ++ + Q + GH+L ++P
Sbjct: 19 GVDSAQLSEYFLAFGPVASVVMDKDKGVFAIVEMGDVGAREAVLSQSQHSLGGHRLRVRP 78
Query: 244 RIPMAVTNAVSWRSEG 259
R + S +G
Sbjct: 79 REQKEFQSPASKSPKG 94
>3bw6_A Synaptobrevin homolog YKT6; YKT6P, farnesylation, vacuole fusion,
snare, coiled coil, lipoprotein, membrane,
phosphoprotein; 2.50A {Saccharomyces cerevisiae} PDB:
1h8m_A 1iou_A
Length = 144
Score = 26.9 bits (59), Expect = 9.7
Identities = 15/84 (17%), Positives = 30/84 (35%), Gaps = 1/84 (1%)
Query: 133 LLMEKEEEGMLTPLLQTSDCTFAYIKYNNLFIVSTTKKNANIALVFVFLNKIVRVF-TEY 191
+ + G + + + Y + + V T K + + LNKI+ + +
Sbjct: 50 TVASRTGAGQRQSIEEGNYIGHVYARSEGICGVLITDKEYPVRPAYTLLNKILDEYLVAH 109
Query: 192 FKEIEEESIRDNFVVIYELLDELI 215
KE + N + + LD I
Sbjct: 110 PKEEWADVTETNDALKMKQLDTYI 133
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
0.319 0.136 0.392
Gapped
Lambda K H
0.267 0.0474 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,583,626
Number of extensions: 461020
Number of successful extensions: 708
Number of sequences better than 10.0: 1
Number of HSP's gapped: 684
Number of HSP's successfully gapped: 26
Length of query: 504
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 406
Effective length of database: 3,965,535
Effective search space: 1610007210
Effective search space used: 1610007210
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 59 (27.1 bits)