RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16364
(276 letters)
>1w63_A Adapter-related protein complex 1 gamma 1 subunit; endocytosis,
clathrin adaptor, transport, coated PITS; 4.0A {Mus
musculus} SCOP: i.23.1.1
Length = 618
Score = 126 bits (318), Expect = 4e-33
Identities = 35/185 (18%), Positives = 74/185 (40%), Gaps = 7/185 (3%)
Query: 1 MSKILKTHPKSVQSHRDLIMQCLDDKDESIRLRALDLLYGMVSKKTLMEIVKKLMVHMDK 60
+ K ++T +VQ HR I+ CL D D SI+ RA++L + +V+ + ++K+L+ +D
Sbjct: 337 LLKTVQTDHNAVQRHRSTIVDCLKDLDVSIKRRAMELSFALVNGNNIRGMMKELLYFLDS 396
Query: 61 AEGTMYRDELLSKVIDICSQNNYQYITNFEWYMTVLVELTRMEGTRHGALVAAQMMDVAI 120
E E + +Y + W++ ++ + G+ ++ +
Sbjct: 397 CE-----PEFKADCASGIFLAAEKYAPSKRWHIDTIMRVLTTAGSYVRDDAVPNLIQLIT 451
Query: 121 RVSAVRAFAVAQMSSLLASPSPPLSQPSSRMAEMMFDEYSDRSSKIFNIKFSSRMPNHMK 180
+ A+ V ++ + QP ++A EY D + +
Sbjct: 452 NSVEMHAYTVQRLYKAILGDY--SQQPLVQVAAWCIGEYGDLLVSGQCEEEEPIQVTEDE 509
Query: 181 YLGLL 185
L +L
Sbjct: 510 VLDIL 514
Score = 101 bits (254), Expect = 1e-24
Identities = 44/277 (15%), Positives = 103/277 (37%), Gaps = 22/277 (7%)
Query: 1 MSKILKTHPKSVQSHRDLIMQCLDDKDESIRLRALDLLYGMVSKK-TLMEIVKKLMVHMD 59
+++ P+ ++ L++K+ + ++ LL M + ++ +KL+ +
Sbjct: 166 AVHVIRKVPELMEMFLPATKNLLNEKNHGVLHTSVVLLTEMCERSPDMLAHFRKLVPQLV 225
Query: 60 KAEGTMYRDELLSKVIDICSQNNYQYITNFEWYMTVLVELTRMEGTRHGALVAAQMMDVA 119
+ L + ++ S + + + ++ L R+ G A +A
Sbjct: 226 RI--------LKNLIMSGYSPEHDVSGISDPFLQVRILRLLRILGRNDDDSSEAMNDILA 277
Query: 120 IRVSAVRAFAVAQMSSLLASPSPPLSQPSSRMAEMMFDEYSDRSSKIFNIKFSSRMPNHM 179
+ + L + + S + I + N +
Sbjct: 278 QVATNTETSKNVGNAILYETVLTIMDIKSE-------SGLRVLAINILGRFLLNNDKN-I 329
Query: 180 KYLGLLAMSKILKTHPKSVQSHRDLIMQCLDDKDESIRLRALDLLYGMVSKKTLMEIVKK 239
+Y+ L ++ K ++T +VQ HR I+ CL D D SI+ RA++L + +V+ + ++K+
Sbjct: 330 RYVALTSLLKTVQTDHNAVQRHRSTIVDCLKDLDVSIKRRAMELSFALVNGNNIRGMMKE 389
Query: 240 LMVHMDKAEGTMYRDELLSKVIDICSQNNYQYITNFE 276
L+ +D E E + +Y +
Sbjct: 390 LLYFLDSCE-----PEFKADCASGIFLAAEKYAPSKR 421
>2vgl_A Adaptor protein complex AP-2, alpha 2 subunit; cytoplasmic vesicle,
alternative splicing, endocytosis, lipid-binding, golgi
apparatus, adaptor, membrane, transport; HET: IHP; 2.59A
{Rattus norvegicus} PDB: 2xa7_A 2jkr_A 2jkt_A
Length = 621
Score = 110 bits (277), Expect = 1e-27
Identities = 33/146 (22%), Positives = 75/146 (51%), Gaps = 8/146 (5%)
Query: 1 MSKILKTH--PKSVQSHRDLIMQCLD-DKDESIRLRALDLLYGMVSKKTLMEIVKKLMVH 57
M + + ++V++H + ++ L ++D S+R RA+DLLY M + +IV +++ +
Sbjct: 353 MCTLASSEFSHEAVKTHIETVINALKTERDVSVRQRAVDLLYAMCDRSNAQQIVAEMLSY 412
Query: 58 MDKAEGTMYRDELLSKVIDICSQNNYQYITNFEWYMTVLVELTRMEGTRHGALVAAQMMD 117
++ A+ R+E++ KV + +Y ++ WY+ ++ L R+ G V +++
Sbjct: 413 LETAD-YSIREEIVLKVAILA----EKYAVDYTWYVDTILNLIRIAGDYVSEEVWYRVIQ 467
Query: 118 VAIRVSAVRAFAVAQMSSLLASPSPP 143
+ I V+ +A + L +P+
Sbjct: 468 IVINRDDVQGYAAKTVFEALQAPACH 493
Score = 88.4 bits (219), Expect = 6e-20
Identities = 45/285 (15%), Positives = 106/285 (37%), Gaps = 25/285 (8%)
Query: 1 MSKILKTHPKSVQSHR--DLIMQCLDDKDESIRLRALDLLYGMVSK--KTLMEIVKKLMV 56
+ ++ +T P V ++ L+D+ + A L+ + K + V +
Sbjct: 172 LLRLYRTSPDLVPMGDWTSRVVHLLNDQHLGVVTAATSLITTLAQKNPEEFKTSVSLAVS 231
Query: 57 HMDKAEGTMYRDELLSKVIDICSQNNYQYITNFEWYMTVLVELTRMEGTRHGALVAAQMM 116
+ + + D + + W L+ L + V ++
Sbjct: 232 RLSRIVTSASTDLQDYTYYFVPA----------PWLSVKLLRLLQCYPPPEDPAVRGRLT 281
Query: 117 DVAIRV--SAVRAFAVAQMSSLLASPSPPLSQPSSRMAEMMFDEYSDRSSKIFNIKFSSR 174
+ + A ++ A + S + R+ R
Sbjct: 282 ECLETILNKAQEPPKSKKVQHSNAKNAVLFEAISLIIHHDSEPNLLVRACNQLGQFLQHR 341
Query: 175 MPNHMKYLGLLAMSKILKTH--PKSVQSHRDLIMQCLD-DKDESIRLRALDLLYGMVSKK 231
N ++YL L +M + + ++V++H + ++ L ++D S+R RA+DLLY M +
Sbjct: 342 ETN-LRYLALESMCTLASSEFSHEAVKTHIETVINALKTERDVSVRQRAVDLLYAMCDRS 400
Query: 232 TLMEIVKKLMVHMDKAEGTMYRDELLSKVIDICSQNNYQYITNFE 276
+IV +++ +++ A+ R+E++ KV + +Y ++
Sbjct: 401 NAQQIVAEMLSYLETAD-YSIREEIVLKVAILA----EKYAVDYT 440
>2vgl_B AP-2 complex subunit beta-1; cytoplasmic vesicle, alternative
splicing, endocytosis, lipid-binding, golgi apparatus,
adaptor, membrane, transport; HET: IHP; 2.59A {Homo
sapiens} SCOP: i.23.1.1 PDB: 2jkt_B 2jkr_B* 2xa7_B
1w63_B
Length = 591
Score = 88.6 bits (220), Expect = 4e-20
Identities = 31/230 (13%), Positives = 90/230 (39%), Gaps = 20/230 (8%)
Query: 1 MSKILKTHPKSVQSHRDLIMQCLDDKDESIRLRALDLLYGMVSKKTLMEIVKKLMVHMDK 60
++ I++ P+ ++ + +D ++L LD++ + S+ + +++ +L + +
Sbjct: 306 INLIVQKRPEILKQEIKVFFVKYND-PIYVKLEKLDIMIRLASQANIAQVLAELKEYATE 364
Query: 61 AEGTMYRDELLSKVIDICSQNNYQYITNFEWYMTVLVELTRMEGTRHGALVAAQMMDVAI 120
+ + + K + + + + E ++ L++L + + +V ++ +
Sbjct: 365 VD-----VDFVRKAVRAIGRCAIKVEQSAERCVSTLLDLIQTKV---NYVVQEAIVVIRD 416
Query: 121 RVSAVRAFAVAQMSSLLASPSPPLSQPSSRMAEM-MFDEYSDRSS------KIFNIKFSS 173
+ +++L + L +P +R A + + EY++R + F F
Sbjct: 417 IFRKYPNKYESIIATLCEN-LDSLDEPDARAAMIWIVGEYAERIDNADELLESFLEGFHD 475
Query: 174 RMPNHMKYLGLLAMSKILKTHPKSVQSHRDLIMQCL--DDKDESIRLRAL 221
++ L A+ K+ P Q ++ D + +R R
Sbjct: 476 -ESTQVQLTLLTAIVKLFLKKPSETQELVQQVLSLATQDSDNPDLRDRGY 524
Score = 80.6 bits (199), Expect = 3e-17
Identities = 32/283 (11%), Positives = 95/283 (33%), Gaps = 45/283 (15%)
Query: 1 MSKILKTHPKSVQSHR--DLIMQCLDDKDESIRLRALDLLYGMVSKKTLMEIVKKLMVHM 58
++K+ + + V+ D + + D + + A+ L + ++ ++
Sbjct: 145 VAKLHDINAQMVEDQGFLDSLRDLIADSNPMVVANAVAALSEISESHPNSNLLDLNPQNI 204
Query: 59 DKAEGTMYRDELLSKVIDICSQNNYQYITNFEWYMTVLVELTRMEGTRHGALVAAQMMDV 118
+K L ++ C+ EW +++ + A + +
Sbjct: 205 NK----------LLTALNECT----------EWGQIFILDCLSNYNPKDDRE-AQSICER 243
Query: 119 AIRV-----SAVRAFAVAQMSSLLASPSPPLSQPSSRMAEMMFDEYSDRSSKIFNIKFSS 173
SAV AV + L + + + + S
Sbjct: 244 VTPRLSHANSAVVLSAVKVLMKFLELLPKDSDYYNMLL----------KKLAPPLVTLLS 293
Query: 174 RMPNHMKYLGLLAMSKILKTHPKSVQSHRDLIMQCLDDKDESIRLRALDLLYGMVSKKTL 233
P ++Y+ L ++ I++ P+ ++ + +D ++L LD++ + S+ +
Sbjct: 294 GEPE-VQYVALRNINLIVQKRPEILKQEIKVFFVKYND-PIYVKLEKLDIMIRLASQANI 351
Query: 234 MEIVKKLMVHMDKAEGTMYRDELLSKVIDICSQNNYQYITNFE 276
+++ +L + + + + + K + + + + E
Sbjct: 352 AQVLAELKEYATEVD-----VDFVRKAVRAIGRCAIKVEQSAE 389
>2db0_A 253AA long hypothetical protein; heat repeats, helical structure,
structural genomics; 2.20A {Pyrococcus horikoshii}
Length = 253
Score = 60.1 bits (145), Expect = 7e-11
Identities = 34/250 (13%), Positives = 81/250 (32%), Gaps = 44/250 (17%)
Query: 17 DLIMQCLDDKDESIRLRALDLL--YGMVSKKTLMEIVKKLMVHMDKAEGTMYRDELLSKV 74
+++ LDD ++ A+ ++ + ++KKL + K+E E+
Sbjct: 35 KKLIELLDDDLWTVVKNAISIIMVIAKTREDLYEPMLKKLFSLLKKSEAIPLTQEIAK-- 92
Query: 75 IDICSQNNYQYITNFEWYMTVLVELTRMEGTRHGALVAAQMMDVAIRVSAVRAFAVAQMS 134
++ + + +++ + I + V+
Sbjct: 93 --------------------AFGQMAKEKPELVKSMIPVLFANYRIGDEKTKI-NVSYAL 131
Query: 135 SLLASPSPPLSQPSSRMAEMMFDEYSDRSSKIFNIKFSSRMPNHMKYLGLLAMSKILKTH 194
+A +P L R M + K L + + +
Sbjct: 132 EEIAKANPMLMASIVRDFMSMLSSKNRED----------------KLTALNFIEAMGENS 175
Query: 195 PKSVQSHRDLIMQCLDDKDESIRLRALDLLYGMVSKK-TLMEIVKKLMVHMDKAEGTMYR 253
K V I+ L D DE +R A++ L + + L ++V K + ++ + +
Sbjct: 176 FKYVNPFLPRIINLLHDGDEIVRASAVEALVHLATLNDKLRKVVIKRLEELNDTSSLVNK 235
Query: 254 D--ELLSKVI 261
E +S+++
Sbjct: 236 TVKEGISRLL 245
Score = 51.2 bits (122), Expect = 7e-08
Identities = 15/78 (19%), Positives = 35/78 (44%), Gaps = 3/78 (3%)
Query: 1 MSKILKTHPKSVQSHRDLIMQCLDDKDESIRLRALDLLYGMVSKK-TLMEIVKKLMVHMD 59
+ + + K V I+ L D DE +R A++ L + + L ++V K + ++
Sbjct: 168 IEAMGENSFKYVNPFLPRIINLLHDGDEIVRASAVEALVHLATLNDKLRKVVIKRLEELN 227
Query: 60 KAEGTMYRD--ELLSKVI 75
+ + E +S+++
Sbjct: 228 DTSSLVNKTVKEGISRLL 245
>3tjz_B Coatomer subunit gamma; protein trafficking, golgi membrane,
protein transport-prote binding complex; HET: GNP; 2.90A
{Bos taurus}
Length = 355
Score = 52.0 bits (124), Expect = 6e-08
Identities = 29/231 (12%), Positives = 69/231 (29%), Gaps = 42/231 (18%)
Query: 1 MSKILKTHPKSVQSHRDLIMQCLDDKDESIRLRALDLLYGMVSKKTLMEIVKKLMVHMDK 60
+LK V+ + + + ++ AL LLY + K + + K
Sbjct: 163 SLHLLKCSFDVVKRWVNEAQEAASSDNIMVQYHALGLLY---------HVRKNDRLAVSK 213
Query: 61 AEGTMYRDELLSKVIDICSQNNYQYITNFEWYMTVLVELTRMEGTRHGALVAAQMMDVAI 120
R L S + +++ + + + + D
Sbjct: 214 MISKFTRHGLKS-----------------PFAYCMMIRVASRQLEDEDGSRDSPLFDF-- 254
Query: 121 RVSAVRAFAVAQMSSLLASPSPPLSQPSSRMAEMMFDEYSDRSSKIFNI--KFSSRMPNH 178
+ S L + + ++ + + + ++ F S
Sbjct: 255 ------------IESCLRNKHEMVVYEAASAIVNLPGCSAKELAPAVSVLQLFCSSPKAA 302
Query: 179 MKYLGLLAMSKILKTHPKSVQSHRDLIMQCLDDKDESIRLRALDLLYGMVS 229
++Y + ++K+ HP +V + + + D + SI A+ L S
Sbjct: 303 LRYAAVRTLNKVAMKHPSAVTACNLDLENLVTDANRSIATLAITTLLKTGS 353
>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 = 48.7 bits (115), Expect = 1e-06
Identities = 41/341 (12%), Positives = 87/341 (25%), Gaps = 135/341 (39%)
Query: 14 SHRDLIMQCLDD--KDESIRLRALDLLYGMVSKKTLMEIVKKLMVHMDKAEGTMYR--DE 69
++D++ D + + D+ ++SK+ + I+ A R
Sbjct: 17 QYKDILSVFEDAFVDNFDCK-DVQDMPKSILSKEEIDHIIM-----SKDAVSGTLRLFWT 70
Query: 70 LLSK-------VIDICSQNNYQYI---------------TNFEWYM-------------- 93
LLSK ++ + NY+++ +
Sbjct: 71 LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYN 130
Query: 94 -----------TVLVELTRMEG-TRHG-------ALVAAQMMDVAIRVSAVRAFAV---- 130
L+EL + G + + +V F +
Sbjct: 131 VSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLS--YKVQCKMDFKIFWLN 188
Query: 131 -----------AQMSSLLASPSPPLSQPSSRMA--EMMFDEYSDRSSKIFNIKFSSRMPN 177
+ LL P + S + ++ ++
Sbjct: 189 LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL---------- 238
Query: 178 HMKYLGLLAMSKILKTHPKSVQSHRDLIMQCLDD-KDESIRLRALDLLYGMVSKKTLM-- 234
K + + L+ L + ++ A +L S K L+
Sbjct: 239 ------------KSKPYENCL-----LV---LLNVQNAKA-WNAFNL-----SCKILLTT 272
Query: 235 ---EIVKKLM------VHMDKAEGTMYRDE---LLSKVIDI 263
++ L + +D T+ DE LL K +D
Sbjct: 273 RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC 313
Score = 47.2 bits (111), Expect = 4e-06
Identities = 45/334 (13%), Positives = 97/334 (29%), Gaps = 97/334 (29%)
Query: 5 LKTHPKSVQSHRDLIMQCLDDKDESIRLRALDLLYGMV-SKKTLM--EIVKKLMVHMDKA 61
L+ ++ ++++ + G++ S KT + ++ V K
Sbjct: 140 LRQALLELRPAKNVL------------------IDGVLGSGKTWVALDVCLSYKVQ-CKM 180
Query: 62 EGTMY---------RDELLSKVIDICSQ----------NNYQYITNFEWYMTVLVELTRM 102
+ ++ + +L + + Q ++ L L +
Sbjct: 181 DFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKS 240
Query: 103 EGTRHGALVAAQMMDVAIRVSAVRAF-------------AVAQMSSLLASPSPPLSQPSS 149
+ + LV +++V A AF V S + L S
Sbjct: 241 KPYENCLLV---LLNVQ-NAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSM 296
Query: 150 RMAEMMFDEYSDRSSKIFNIKFSSRMPNHMKYLGLLAMSKI---LKTHP------KSVQS 200
+ DE K + + +P + +S I ++ K V
Sbjct: 297 TLTP---DEVKSLLLKYLDCRPQD-LPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNC 352
Query: 201 HR--DLIMQCLD-----------------DKDESIRLRALDLLYGMVSKKTLMEIVKKL- 240
+ +I L+ I L L++ V K +M +V KL
Sbjct: 353 DKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLH 412
Query: 241 ---MVHMDKAEGTMYRDELLSKVIDICSQNNYQY 271
+V E T+ + S +++ + +Y
Sbjct: 413 KYSLVEKQPKESTIS---IPSIYLELKVKLENEY 443
Score = 34.4 bits (78), Expect = 0.044
Identities = 42/257 (16%), Positives = 79/257 (30%), Gaps = 73/257 (28%)
Query: 1 MSKILKT-----HPKSVQSH-RDL-IMQCLDDKDESIRLRALDLLYGMVSKKTLMEIVKK 53
++ I+++ P + L + I L L++ V K +M +V K
Sbjct: 355 LTTIIESSLNVLEPAEYRKMFDRLSVFP----PSAHIPTILLSLIWFDVIKSDVMVVVNK 410
Query: 54 L----MVHMDKAEGT-----MYRDELLS---------KVIDICSQNNYQYITNFEWYMTV 95
L +V E T +Y + + ++D +Y F+ +
Sbjct: 411 LHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVD-----HYNIPKTFDSDDLI 465
Query: 96 LVELTRMEG------TRHGALVAAQMMDVAIRVSAVR------AFAVAQMSSLLASPSPP 143
L + H L + + R++ R F + + S
Sbjct: 466 PPYL---DQYFYSHIGHH--LKNIEHPE---RMTLFRMVFLDFRF----LEQKIRHDSTA 513
Query: 144 LSQPSSRMAEMM-FDEYSDRSSKIFNIKFSSRMPNHMKYLGLL-AMSKILKTH-PKSVQS 200
+ S + + Y I N KY L+ A+ L + S
Sbjct: 514 WNASGSILNTLQQLKFYKPY---IC--------DNDPKYERLVNAILDFLPKIEENLICS 562
Query: 201 -HRDLIMQCLDDKDESI 216
+ DL+ L +DE+I
Sbjct: 563 KYTDLLRIALMAEDEAI 579
Score = 31.7 bits (71), Expect = 0.26
Identities = 18/107 (16%), Positives = 37/107 (34%), Gaps = 24/107 (22%)
Query: 177 NHMKYLGLLAMSKILKTHPKSVQSHRDLIMQCLDDKDESIRLRALDLLYGMVSKKTLMEI 236
+HM + + + + D + D KD D+ ++SK+ + I
Sbjct: 5 HHMDF----ETGEHQYQYKDILSVFEDAFVDNFDCKD------VQDMPKSILSKEEIDHI 54
Query: 237 VKKLMVHMDKAEGTMYR--DELLSK-------VIDICSQNNYQYITN 274
+ A R LLSK ++ + NY+++ +
Sbjct: 55 IM-----SKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMS 96
>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 = 35.0 bits (80), Expect = 0.024
Identities = 23/116 (19%), Positives = 43/116 (37%), Gaps = 28/116 (24%)
Query: 154 MMFDEYSDRSS---KIFNIKFSSRMPNHMK-YLGLLAMSKILKTHPKSVQSHRDLIMQCL 209
M D Y S ++N R NH K G ++ I+ +P ++ H
Sbjct: 1631 MGMDLY-KTSKAAQDVWN-----RADNHFKDTYGF-SILDIVINNPVNLTIHFG------ 1677
Query: 210 DDKDESIRLRALDLLY------GMVSKKTLMEIVKKLMVHMDKAEGTMYRDELLSK 259
+K + IR +++ + ++K EI + + ++E LLS
Sbjct: 1678 GEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSE-----KGLLSA 1728
Score = 35.0 bits (80), Expect = 0.025
Identities = 24/176 (13%), Positives = 63/176 (35%), Gaps = 38/176 (21%)
Query: 69 ELLSK----VIDICSQNN---YQYITNFEWYMTVLVELTR--MEGTR-HGALVAAQMMDV 118
EL+ K V + + + + N L E +EG H AL A + +
Sbjct: 59 ELVGKFLGYVSSLVEPSKVGQFDQVLN-----LCLTEFENCYLEGNDIH-ALAAKLLQEN 112
Query: 119 AIRVSAVRAFAVAQMSSLLASPSPPLSQPSSRMAEMMFDEYSDRSSKIFNIKF----SSR 174
+ + +++ + + P + +S +F + ++++ I F ++
Sbjct: 113 DTTLVKTKELIKNYITARIMAKRPFDKKSNSA----LFRAVGEGNAQLVAI-FGGQGNTD 167
Query: 175 MPNHMKYLGLLAMSKILKTHPKSVQ----SHRDLIMQCLDDKDESIRL--RALDLL 224
Y L + +T+ V + + + + ++ ++ + L++L
Sbjct: 168 -----DYFEELR--DLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNIL 216
Score = 34.6 bits (79), Expect = 0.036
Identities = 37/176 (21%), Positives = 62/176 (35%), Gaps = 61/176 (34%)
Query: 150 RMAEMMFDEYSD---RSSKIF---NIKFSSRMPNHMKYLGLLAMSKILKTHP----KSVQ 199
+ M+F+ D ++ KIF N +S K GLL+ ++ T P
Sbjct: 1687 NYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEK--GLLSATQF--TQPALTLMEKA 1742
Query: 200 SHRDLIMQCLDDKD---------E-SIRLRALDLLYGMVSKKTLMEIVK---KLM---VH 243
+ DL + L D E + AL L ++S ++L+E+V M V
Sbjct: 1743 AFEDLKSKGLIPADATFAGHSLGEYA----ALASLADVMSIESLVEVVFYRGMTMQVAVP 1798
Query: 244 MDKAEGTMYR--------------DELLSKVID-ICSQN-------NY-----QYI 272
D+ + Y E L V++ + + NY QY+
Sbjct: 1799 RDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYV 1854
>3pgb_A Putative uncharacterized protein; oxidoreductase, copper amine
oxidase, CAO, topaquinone, TPQ; HET: TPQ NAG BMA MAN;
2.45A {Emericella nidulans}
Length = 797
Score = 32.6 bits (73), Expect = 0.16
Identities = 19/185 (10%), Positives = 41/185 (22%), Gaps = 38/185 (20%)
Query: 53 KLMVHMDKAEGTMYRDELLSKVIDICSQNNYQYITNFEWY----MTVLVELTRM------ 102
+ T L + + N Y+ ++ ++ + V V +
Sbjct: 457 ARHSTSEFVSVTKNVYFTLRS---VSTIGNADYMFSYNFHMDGTIGVEVRASGYIQSAYY 513
Query: 103 -EGTRHGALVAAQM------------MDVAIRV---SAVRAFAVAQMSSLLASPSPPLSQ 146
G + + D I + V S + +
Sbjct: 514 ANNQDFGYQIHDSLSGSMHDHVLNFKADFDILGPNNTIELVSVVPVTKQFSWSGNKTRNT 573
Query: 147 P--------SSRMAEMMFDEYSDRSSKIFNIKFSSRMPNHMKY-LGLLAMSKILKTHPKS 197
S A + + + N ++ Y + A + L S
Sbjct: 574 MQLGRSFIHSEDEARLNWGFNGQTQLHVVNQDKPNKFGEPRGYRILPSAGTAHLTVLNSS 633
Query: 198 VQSHR 202
H
Sbjct: 634 NLVHA 638
>3grl_A General vesicular transport factor P115; vesicle transport,
membrane trafficking, membrane tethering, fusion, snare,
RAB GTPase, armadillo repeats; 2.00A {Bos taurus} PDB:
3gq2_A 2w3c_A
Length = 651
Score = 32.0 bits (72), Expect = 0.20
Identities = 18/121 (14%), Positives = 39/121 (32%), Gaps = 8/121 (6%)
Query: 117 DVAIRVSAVRAFAVAQMSSLLASPSPPLSQPSSRMAEMMFDEYSDRSSKIFNI-KFSSRM 175
D I A+ + ++ S + + + + + +
Sbjct: 75 DSEIIGYALDTLYNIISNDEEEEVEENSTRQSEDLGSQFTEIFIKQQENVTLLLSLLEEF 134
Query: 176 PNHMKYLGLLAMSKILKTHPKSVQSHRDL-------IMQCLDDKDESIRLRALDLLYGMV 228
H+++ G+ ++ +LK VQ + +M L D E IR + LL +
Sbjct: 135 DFHVRWPGVKLLTSLLKQLGPQVQQIILVSPMGVSRLMDLLADSREVIRNDGVLLLQALT 194
Query: 229 S 229
Sbjct: 195 R 195
Score = 27.8 bits (61), Expect = 4.8
Identities = 12/50 (24%), Positives = 19/50 (38%), Gaps = 7/50 (14%)
Query: 1 MSKILKTHPKSVQSHRDL-------IMQCLDDKDESIRLRALDLLYGMVS 43
++ +LK VQ + +M L D E IR + LL +
Sbjct: 146 LTSLLKQLGPQVQQIILVSPMGVSRLMDLLADSREVIRNDGVLLLQALTR 195
>1b3u_A Protein (protein phosphatase PP2A); scaffold protein,
phosphorylation, heat repeat; 2.30A {Homo sapiens} SCOP:
a.118.1.2 PDB: 2ie4_A* 2ie3_A* 2npp_A* 3k7v_A* 3k7w_A*
3fga_A* 2pf4_A 2iae_A 2nym_A* 2nyl_A* 3dw8_A* 2pkg_A
3c5w_A
Length = 588
Score = 31.5 bits (71), Expect = 0.32
Identities = 30/242 (12%), Positives = 87/242 (35%), Gaps = 16/242 (6%)
Query: 17 DLIMQCLDDKDESIRLRALDLLYGMVS---KKTLMEIVKKLMVHMDKAEGTMYRDELLSK 73
I + + D ++ ++ ++ G+ K +E + L + K E R ++S
Sbjct: 327 PCIKELVSDANQHVKSALASVIMGLSPILGKDNTIEHLLPLFLAQLKDECPEVRLNIISN 386
Query: 74 VIDICSQNNYQYITNFEWYMTVLVELTRMEGTRHGALVAAQMMDVAIR--VSAVRAFAVA 131
+ + + ++ + + +VEL R + M +A + V +
Sbjct: 387 LDCVNEVIGIRQLS--QSLLPAIVELAEDAKWRVRLAIIEYMPLLAGQLGVEFFDEKLNS 444
Query: 132 QMSSLLASPSPPLSQPSSRMAEMMFDEYSDRSSKIFNIKFSSRMPNHMKYLG----LLAM 187
+ L + + ++ + + +++ + I M YL L +
Sbjct: 445 LCMAWLVDHVYAIREAATSNLKKLVEKFGKEWAHATIIPKVLAMSGDPNYLHRMTTLFCI 504
Query: 188 SKILKTHPKSVQSHR--DLIMQCLDDKDESIR---LRALDLLYGMVSKKTLMEIVKKLMV 242
+ + + + + + +++ D ++R ++L + ++ TL VK ++
Sbjct: 505 NVLSEVCGQDITTKHMLPTVLRMAGDPVANVRFNVAKSLQKIGPILDNSTLQSEVKPILE 564
Query: 243 HM 244
+
Sbjct: 565 KL 566
>3r2d_A Protein NUSB, N utilization substance protein B; cross species
NUSB-NUSE-RNA interaction; 2.20A {Aquifex aeolicus}
PDB: 2jr0_A 3r2c_A*
Length = 149
Score = 28.9 bits (65), Expect = 1.1
Identities = 8/49 (16%), Positives = 20/49 (40%), Gaps = 3/49 (6%)
Query: 31 RLRALDLLYGM-VSKKTLMEIVKKLMVH--MDKAEGTMYRDELLSKVID 76
R A +LY + + E+ K+++ + + Y +L+ +
Sbjct: 9 RDTAFLVLYRWDLRGENPGELFKEVVEEKNIKNKDAYEYAKKLVDTAVR 57
Score = 28.9 bits (65), Expect = 1.1
Identities = 8/49 (16%), Positives = 20/49 (40%), Gaps = 3/49 (6%)
Query: 217 RLRALDLLYGM-VSKKTLMEIVKKLMVH--MDKAEGTMYRDELLSKVID 262
R A +LY + + E+ K+++ + + Y +L+ +
Sbjct: 9 RDTAFLVLYRWDLRGENPGELFKEVVEEKNIKNKDAYEYAKKLVDTAVR 57
>3c1d_A Protein ORAA, regulatory protein RECX; tandem repeats,
helix-turn-helix, cytoplasm, DNA damage, DNA repair,
SOS response, DNA binding protein; 1.80A {Escherichia
coli}
Length = 159
Score = 28.5 bits (64), Expect = 1.6
Identities = 11/58 (18%), Positives = 23/58 (39%), Gaps = 1/58 (1%)
Query: 28 ESIRLRALDLL-YGMVSKKTLMEIVKKLMVHMDKAEGTMYRDELLSKVIDICSQNNYQ 84
+ RA+ +L S++ L + ++ + E E +VI C ++ Y
Sbjct: 5 ARLLDRAVRILAVRDHSEQELRRKLAAPIMGKNGPEEIDATAEDYERVIAWCHEHGYL 62
Score = 28.5 bits (64), Expect = 1.6
Identities = 11/58 (18%), Positives = 23/58 (39%), Gaps = 1/58 (1%)
Query: 214 ESIRLRALDLL-YGMVSKKTLMEIVKKLMVHMDKAEGTMYRDELLSKVIDICSQNNYQ 270
+ RA+ +L S++ L + ++ + E E +VI C ++ Y
Sbjct: 5 ARLLDRAVRILAVRDHSEQELRRKLAAPIMGKNGPEEIDATAEDYERVIAWCHEHGYL 62
>3ga7_A Acetyl esterase; phosphoserine, IDP00896, hydrolase, serine
structural genomics, center for structural genomics of
INFE diseases, csgid; HET: SEP MSE; 1.55A {Salmonella
typhimurium}
Length = 326
Score = 28.8 bits (65), Expect = 2.0
Identities = 9/46 (19%), Positives = 15/46 (32%), Gaps = 3/46 (6%)
Query: 95 VLVELTRMEGTRHGALVAAQMMDVAIRVSAVRAFAVAQMSSLLASP 140
E GT H L ++MM +A + + +P
Sbjct: 283 QPCEYKMYPGTLHAFLHYSRMMTIA---DDALQDGARFFMARMKTP 325
>1lzl_A Heroin esterase; alpha/beta hydrolase; 1.30A {Rhodococcus SP} SCOP:
c.69.1.2 PDB: 1lzk_A
Length = 323
Score = 28.8 bits (65), Expect = 2.1
Identities = 15/48 (31%), Positives = 20/48 (41%), Gaps = 4/48 (8%)
Query: 95 VLVELTRMEGTRHGALVAAQMMDVAIRVSAVRAFAVAQMSSLLASPSP 142
V VEL GT HG+ ++ A A A+ + L S SP
Sbjct: 278 VSVELHSFPGTFHGSA----LVATAAVSERGAAEALTAIRRGLRSLSP 321
>3jxy_A Alkylpurine DNA glycosylase ALKD; heat repeat, DNA binding, DNA
glycosylase, DNA alkylation, L complex, hydrolase-DNA
complex; HET: DNA; 1.50A {Bacillus cereus} PDB: 3jx7_A*
3bvs_A 3jy1_A* 3jxz_A*
Length = 232
Score = 28.1 bits (62), Expect = 3.1
Identities = 14/97 (14%), Positives = 34/97 (35%), Gaps = 7/97 (7%)
Query: 147 PSSRMAEMMFDEYSDRSSKIFNIKFSSRMPNHMKYLGL------LAMSKILKTHPK-SVQ 199
P + + + ++ + + M NH +LG+ + I++ H +
Sbjct: 1 PMHPFVKALQEHFTAHQNPEKAEPMARYMKNHFLFLGIQTPERRQLLKDIIQIHTLPDQK 60
Query: 200 SHRDLIMQCLDDKDESIRLRALDLLYGMVSKKTLMEI 236
+ +I + D + + ALD++ I
Sbjct: 61 DFQIIIRELWDLPEREFQAAALDIMQKYKKHINETHI 97
>2qk2_A LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2, heat repeat,
micro plus END, +TIP, protein binding; 2.10A {Drosophila
melanogaster}
Length = 242
Score = 28.1 bits (62), Expect = 3.3
Identities = 26/245 (10%), Positives = 73/245 (29%), Gaps = 52/245 (21%)
Query: 23 LDDKDESIRLRALDLLYGMVSK------KTLMEIVKKLMVHMDKAEGTMYRDELLSKVID 76
L++K ++R +L++L +++ +V L + K + +
Sbjct: 24 LEEKKWTLRKESLEVLEKLLTDHPKLENGEYGALVSALKKVITKDSNVVLVAMAGKCLAL 83
Query: 77 ICSQNNYQYITNFEWYMTVLVELT--RMEGTRHGALVAAQMMDVAIRVSAVRAFAVAQMS 134
+ ++ + L+E + A + + + A +
Sbjct: 84 LAKGLAKRFSNYASACVPSLLEKFKEKKPNVVTALREAIDAIYASTSLEAQ----QESIV 139
Query: 135 SLLASPSPPLSQPSSRMAEMMFDEYSDRSSKIFNIKFSSRMPNHMKYLGLLAMSKILKTH 194
L++ +P + ++ +
Sbjct: 140 ESLSNKNPSVKSETALFIARALTRTQPT-----------------------------ALN 170
Query: 195 PKSVQSHRDLIMQCLDDKDESIR---LRALDLLYGMVSKKTLMEIV--------KKLMVH 243
K ++ +++ L++ D ++R AL L ++ K + ++ K+
Sbjct: 171 KKLLKLLTTSLVKTLNEPDPTVRDSSAEALGTLIKLMGDKAVTPLLADVDPLKMAKIKEC 230
Query: 244 MDKAE 248
+KAE
Sbjct: 231 QEKAE 235
>3qh4_A Esterase LIPW; structural genomics, ssgcid, seattle structural
genomics CEN infectious disease, tuberculosis, O LIPW,
heroin esterase; 1.75A {Mycobacterium marinum}
Length = 317
Score = 27.2 bits (61), Expect = 6.2
Identities = 9/39 (23%), Positives = 14/39 (35%)
Query: 95 VLVELTRMEGTRHGALVAAQMMDVAIRVSAVRAFAVAQM 133
V EL HG + R+ A++ A+A
Sbjct: 276 VSTELHIFPRACHGFDSLLPEWTTSQRLFAMQGHALADA 314
>1tzv_A NUSB protein, N utilization substance protein B homolog;
RNA-protein interaction, transcriptional
antitermination, transcription regulation; 1.35A
{Thermotoga maritima} SCOP: a.79.1.1 PDB: 1tzu_A 1tzt_A
1tzw_A 1tzx_A*
Length = 142
Score = 26.1 bits (58), Expect = 8.1
Identities = 4/48 (8%), Positives = 15/48 (31%), Gaps = 2/48 (4%)
Query: 31 RLRALDLLYGM-VSKKTLMEIVKKLMVHMDKAEGTM-YRDELLSKVID 76
RL L+ + +E + + ++ + + + +
Sbjct: 9 RLAVFKALFQHEFRRDEDLEQILEEILDETYDKKAKEDARRYIRGIKE 56
Score = 26.1 bits (58), Expect = 8.1
Identities = 4/48 (8%), Positives = 15/48 (31%), Gaps = 2/48 (4%)
Query: 217 RLRALDLLYGM-VSKKTLMEIVKKLMVHMDKAEGTM-YRDELLSKVID 262
RL L+ + +E + + ++ + + + +
Sbjct: 9 RLAVFKALFQHEFRRDEDLEQILEEILDETYDKKAKEDARRYIRGIKE 56
>1oyz_A Hypothetical protein YIBA; structural genomics, PSI, protein
structure initiative, northeast structural genomics
consortium, NESG; 2.10A {Escherichia coli} SCOP:
a.118.1.16
Length = 280
Score = 26.7 bits (59), Expect = 8.3
Identities = 12/39 (30%), Positives = 21/39 (53%)
Query: 16 RDLIMQCLDDKDESIRLRALDLLYGMVSKKTLMEIVKKL 54
RD ++ L DK+E +R+ A+ L K+ L + +L
Sbjct: 194 RDCFVEMLQDKNEEVRIEAIIGLSYRKDKRVLSVLCDEL 232
Score = 26.7 bits (59), Expect = 8.3
Identities = 12/39 (30%), Positives = 21/39 (53%)
Query: 202 RDLIMQCLDDKDESIRLRALDLLYGMVSKKTLMEIVKKL 240
RD ++ L DK+E +R+ A+ L K+ L + +L
Sbjct: 194 RDCFVEMLQDKNEEVRIEAIIGLSYRKDKRVLSVLCDEL 232
>2f33_A Calbindin; EF-hand, Ca2+-binding, metal binding protein; NMR
{Rattus norvegicus} PDB: 2g9b_A
Length = 263
Score = 26.8 bits (59), Expect = 9.1
Identities = 21/146 (14%), Positives = 42/146 (28%), Gaps = 22/146 (15%)
Query: 133 MSSLLASPSPPLSQPSSRMAEMMFDEYSDRSSKIFNIKFSSRMPNHMKYLGLLAMSKILK 192
+ LL + + S M + KI ++ + +P +L L +
Sbjct: 42 IQELLQARKKAGLELSPEMKTFVDQYGQRDDGKIGIVELAHVLPTEENFLLLFRCQQ--- 98
Query: 193 THPKSVQSHRDLIMQCLD--DKDESIRLRALDLLYGMVSKKTLMEIVKKLMVHMDKAEGT 250
+ M+ D D S G + + L +K L+ +K
Sbjct: 99 ------LKSCEEFMKTWRKYDTDHS----------GFIETEELKNFLKDLLEKANKTVDD 142
Query: 251 MYRDELLSKVIDICSQNNYQYITNFE 276
E ++ + NN +
Sbjct: 143 TKLAEYTDLMLKLFDSNNDGKL-ELT 167
>3d3b_A Protein NUSB, N utilization substance protein B; NUSB, NUSE, NUT
site, phage lambda, lambdan antitermina
antitermination; HET: NHE; 1.30A {Escherichia coli}
PDB: 3d3c_A 3imq_A 1ey1_A
Length = 141
Score = 25.7 bits (57), Expect = 9.8
Identities = 11/48 (22%), Positives = 22/48 (45%), Gaps = 2/48 (4%)
Query: 31 RLRALDLLYGM-VSKKTLMEIVKKLMVHMDKAEG-TMYRDELLSKVID 76
R A+ LY +S+ + ++ + + D + +Y ELL+ V
Sbjct: 12 RECAVQALYSWQLSQNDIADVEYQFLAEQDVKDVDVLYFRELLAGVAT 59
Score = 25.7 bits (57), Expect = 9.8
Identities = 11/48 (22%), Positives = 22/48 (45%), Gaps = 2/48 (4%)
Query: 217 RLRALDLLYGM-VSKKTLMEIVKKLMVHMDKAEG-TMYRDELLSKVID 262
R A+ LY +S+ + ++ + + D + +Y ELL+ V
Sbjct: 12 RECAVQALYSWQLSQNDIADVEYQFLAEQDVKDVDVLYFRELLAGVAT 59
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
0.321 0.132 0.368
Gapped
Lambda K H
0.267 0.0625 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,018,366
Number of extensions: 231098
Number of successful extensions: 617
Number of sequences better than 10.0: 1
Number of HSP's gapped: 590
Number of HSP's successfully gapped: 60
Length of query: 276
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 184
Effective length of database: 4,133,061
Effective search space: 760483224
Effective search space used: 760483224
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 (21.9 bits)
S2: 57 (26.0 bits)