RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9208
(446 letters)
>3iib_A Peptidase M28; YP_926796.1, structural genomics, J center for
structural genomics, JCSG, protein structure INI PSI-2;
HET: PGE; 1.70A {Shewanella amazonensis SB2B}
Length = 444
Score = 305 bits (782), Expect = e-100
Identities = 120/440 (27%), Positives = 207/440 (47%), Gaps = 45/440 (10%)
Query: 49 YQPVVDRIIAAVSQGGHFQAHTYSTLADFVDKFGPRMTGSEALENSIDFMVKESKDFGLE 108
+ ++ ++Q + Y + + GPR+ GSE + ++D+ + + + G +
Sbjct: 2 SDDINQKVAEQLAQKAQSSSLGYDIVESLTVEVGPRLAGSEQDKVAVDWAIAKLQSLGFD 61
Query: 109 -VWTENVTAPKWERHFEKVTLVKPWKSDIPVSTLGGSVGTPQGGITAE------------ 155
V+ E VT P W R K +++ P+ + V+ LGGS+ TP G++A
Sbjct: 62 RVYKEPVTVPVWRRGIAKASILSPFPQPLVVTALGGSIATPAQGLSATIVRFDTLQDLQN 121
Query: 156 -----VAGKIVVFN------QDFVSYGETVKYRSKGASVASKYGAVATLIRSVTPYSLAT 204
+ KI + +D YG+T RS+GA A++ GAV +IRS+
Sbjct: 122 AEAGSLNDKIAFIDAKTERHRDGKGYGQTASGRSRGAVAAAEKGAVGIIIRSIGTDHDRM 181
Query: 205 PHTGHQSYDAAVKPIPTACIAPEYAEMLYRMYRRGDGPVVVSINIDARNVGTTNTRNTIV 264
HTG Y+ V IP A I+ A+++ M +R VV+S+ + + G T + N I
Sbjct: 182 AHTGMMRYEEGVTAIPAAAISNPDADLINAMLKRDK-EVVISLELGSERRGETTSYNVIA 240
Query: 265 QIRGRECPDKVVITSGHLDSWDVGQGAMDDGGGAFIS-------------------GILW 305
+++G D++V+ HLDSWD G GA+DDG G I +L+
Sbjct: 241 EVKGSTKADEIVLIGAHLDSWDEGTGAIDDGAGVAIVTAAAKHILDLPQKPERTIRVVLY 300
Query: 306 TAEEQGYVGAIAYVKKHQEELKNITVAMESDDGTFTPFGLSLKGSPEAACILNKVLRLFK 365
AEE G +G Y K+H+ EL+ +A ESD G + + + + A + +++ +
Sbjct: 301 AAEELGLLGGKTYAKEHEAELEKHYIAAESDFGAGPIYQIDWRVADTAHSPVINAMKVAE 360
Query: 366 PINATRLVQSKYPVGSDIELFQEKNIPGVALLNDNAKYFWYHHTRADTMSVLDSDTLDLC 425
P+ +K G D+ + +P +L D + YF YHHT DT+ ++ + L
Sbjct: 361 PLGVAAGN-NKASGGPDVSMLPALGVPVASLRQDGSDYFDYHHTPNDTLDKINPEALAQN 419
Query: 426 TALWGGVAYILADLSVELPR 445
A++ A+++A+ VEL
Sbjct: 420 VAVYAQFAWVMANSKVELRP 439
>2ek8_A Aminopeptidase; metalloproteinase, hydrolase; 1.80A
{Aneurinibacillus SP} PDB: 2ek9_A*
Length = 421
Score = 228 bits (581), Expect = 2e-70
Identities = 74/413 (17%), Positives = 138/413 (33%), Gaps = 61/413 (14%)
Query: 71 YSTLADFVDKFGPRMTGSEALENSIDFMVKESKDFGLEVWTENVTAPKWERHFEKVTLVK 130
Y+T+ PR+ GS ++ ++ ++ K +G V + + E +
Sbjct: 19 YNTIQFLSQ--APRVAGSPEELKAVRYIEQQFKSYGYHVEVQPFQFEGYTAPSEVTLKIG 76
Query: 131 PWKSDIPVSTLGGSVGTPQGGITAEV----------------AGKIVVFNQDFVSYGETV 174
K + T +P +TAE+ GKI + + +S+ + V
Sbjct: 77 TEKKEGEAFTY-----SPNSDVTAELVYVGLGTTADVAGKDLNGKIALIQRGNISFADKV 131
Query: 175 KYRSKGASVASKYGAVATLIRSVTPYSLATPHTGHQSYDAAVKPIPTACIAPEYAEMLYR 234
+ +K GA A +I + T G A + I + + L
Sbjct: 132 RNAAK-------QGAKAVIIYNNTDG----KLNGTLGGSDASF-VAAVGITKQEGDALAA 179
Query: 235 MYRRGDGPVVVSINIDARNVGTTNTRNTIVQIRG---RECPDKVVITSGHLDSWDVGQGA 291
R G + ++ + V T + N I + ++ + ++I H DS + GA
Sbjct: 180 NLRAG-EKITATVKVAGAEVKTLTSHNVIATKKPDANKKNTNDIIIIGSHHDSVEKAPGA 238
Query: 292 MDDGGGAFIS-----------------GILWTAEEQGYVGAIAYVKKH-QEELKNITVAM 333
DD G ++ I + AEE G +G+ Y ++E+K
Sbjct: 239 NDDASGVAVTLELARVMSKLKTDTELRFITFGAEENGLIGSKKYAASLSEDEIKRTIGMF 298
Query: 334 ESDDGTFTPFG-LSLKGSPEAACILNKVLRLFKPINATRLVQSKYPVGSDIELFQEKNIP 392
+ D G L + + + + L + SD E F IP
Sbjct: 299 QLDMVGSKDAGDLIMYTIDGKKNRVTDLGAAASSRLSGVLPYGQEG-RSDHESFHALGIP 357
Query: 393 GVALLNDNAKYFWYHHTRADTMSVLDSDTLDLCTALWGGVAYILADLSVELPR 445
++ ++HT DT+ + + LD + G Y A +
Sbjct: 358 AALFIHAP--VEPWYHTPNDTLDKISKEKLDNVADIVGSAVYQAARPGELVIE 408
>3kas_A Transferrin receptor protein 1; transferrin receptor 1, arenavirus,
cell MEMB disulfide bond, endocytosis, HOST-virus inter
receptor, secreted, transmembrane; HET: NAG FUC BMA MAN;
2.40A {Homo sapiens} PDB: 1de4_C* 3s9l_A* 3s9m_A*
3s9n_A* 1cx8_A* 1suv_A 2nsu_A
Length = 640
Score = 117 bits (295), Expect = 1e-28
Identities = 75/426 (17%), Positives = 124/426 (29%), Gaps = 94/426 (22%)
Query: 79 DKFGPRMTGSEALENSIDFMVKESKDFGLE-VWTENVTAPKWERHFEKVTLVKPWKSDIP 137
+ + PR GS+ EN ++ + ++F L VW + + + +++ K+
Sbjct: 30 NSYVPREAGSQKDENLALYVENQFREFKLSKVWRDQHFVKIQVKDSAQNSVIIVDKNGRL 89
Query: 138 VSTLGGSVGTPQGGITAEVAGKIVVFN----QDFVSYGETVK-----------YRSKGAS 182
V + G A V GK+V N +DF V ++ +
Sbjct: 90 VYLVENPGGYVAYSKAATVTGKLVHANFGTKKDFEDLYTPVNGSIVIVRAGKITFAEKVA 149
Query: 183 VASKYGAVATLIRS-------------------------VTPYSLATPHTGHQ-SYDAAV 216
A A+ LI TP + HT S + +
Sbjct: 150 NAESLNAIGVLIYMDQTKFPIVNAELSFFGHAHLGTGDPYTPGFPSFNHTQFPPSRSSGL 209
Query: 217 KPIPTACIAPEYAEMLYRM---------------YRRGDGPVVVSINIDARNVGTTNTRN 261
IP I+ AE L+ V + + + N
Sbjct: 210 PNIPVQTISRAAAEKLFGNMEGDCPSDWKTDSTCRMVTSESKNVKLTVSN-VLKEIKILN 268
Query: 262 TIVQIRGRECPDKVVITSGHLDSWDVGQGAMDDGGG---------AF------------- 299
I+G PD V+ D+W G GA G G F
Sbjct: 269 IFGVIKGFVEPDHYVVVGAQRDAW--GPGAAKSGVGTALLLKLAQMFSDMVLKDGFQPSR 326
Query: 300 -ISGILWTAEEQGYVGAIAYVKKHQEELKNITVA-MESDDGTFTPFGLSLKGSPEAACIL 357
I W+A + G VGA +++ + L + D + SP ++
Sbjct: 327 SIIFASWSAGDFGSVGATEWLEGYLSSLHLKAFTYINLDKAVLGTSNFKVSASPLLYTLI 386
Query: 358 NKVLRLFK-PINATRLVQSKYPV---------GSDIELFQEKNIPGVALLNDNAKYFWYH 407
K ++ K P+ L Q + IP V+ + Y
Sbjct: 387 EKTMQNVKHPVTGQFLYQDSNWASKVEKLTLDNAAFPFLAYSGIPAVSFCFCEDTDYPYL 446
Query: 408 HTRADT 413
T DT
Sbjct: 447 GTTMDT 452
>1rtq_A Bacterial leucyl aminopeptidase; bimetallic, zinc, high resolution,
hydrolase; 0.95A {Vibrio proteolyticus} SCOP: c.56.5.4
PDB: 1txr_A* 1xry_A* 2dea_A 2nyq_A 3fh4_A 3vh9_A* 1lok_A
1cp6_A 1ft7_A* 1igb_A* 1amp_A 2iq6_A 2prq_A 3b3v_A
3b3w_A 3b7i_A* 3b3t_A 3b35_A 3b3c_A* 3b3s_A ...
Length = 299
Score = 108 bits (271), Expect = 1e-26
Identities = 44/233 (18%), Positives = 76/233 (32%), Gaps = 36/233 (15%)
Query: 247 INIDARNVGTTNTRNTIVQIRGRECPDKVVITSGHLDS--------WDVGQGAMDDGGG- 297
++ + N ++ ++ I G E PD+ ++ GHLDS V GA DD G
Sbjct: 63 ASVKQVSHSGYNQKSVVMTITGSEAPDEWIVIGGHLDSTIGSHTNEQSVAPGADDDASGI 122
Query: 298 --------AFISG----------ILWTAEEQGYVGAIAYVKKHQEELKNITVAMESD--- 336
+ + AEE G G+ +++ E KN+ A++ D
Sbjct: 123 AAVTEVIRVLSENNFQPKRSIAFMAYAAEEVGLRGSQDLANQYKSEGKNVVSALQLDMTN 182
Query: 337 -DGTFTPFGL-SLKGSPEAACILNKVLRLFKPINATRLVQSKYPVGSDIELFQEKNIPGV 394
G+ + L +++ + P Y SD + P
Sbjct: 183 YKGSAQDVVFITDYTDSNFTQYLTQLMDEYLPSLTYGFDTCGYA-CSDHASWHNAGYPAA 241
Query: 395 ALLN-DNAKYFWYHHTRADTMSVLDSDTLDLCTALWGGVAYI--LADLSVELP 444
Y HT DT++ D G+AY + + + P
Sbjct: 242 MPFESKFNDYNPRIHTTQDTLANSDPTGSHAKKFTQLGLAYAIEMGSATGDTP 294
Score = 29.3 bits (66), Expect = 2.4
Identities = 9/68 (13%), Positives = 22/68 (32%), Gaps = 6/68 (8%)
Query: 48 SYQPVVDRIIAAVSQGGHFQAHTYSTLADFVDKFGPRMTGSEALENSIDFMVKESKDFGL 107
+ Q V + V + T++ F R + + + D++ E +
Sbjct: 5 TQQATVTAWLPQVDA-----SQITGTISSLES-FTNRFYTTTSGAQASDWIASEWQALSA 58
Query: 108 EVWTENVT 115
+ +V
Sbjct: 59 SLPNASVK 66
>1tkj_A Aminopeptidase, SGAP; double-zinc metalloproteinase, calcium
activation, protein- inhibitor complex, hydrolase; HET:
MED; 1.15A {Streptomyces griseus} SCOP: c.56.5.4 PDB:
1f2o_A 1f2p_A* 1cp7_A 1qq9_A* 1tf9_A* 1tf8_A* 1tkh_A*
1tkf_A* 1xbu_A* 1xjo_A
Length = 284
Score = 89.9 bits (223), Expect = 2e-20
Identities = 43/227 (18%), Positives = 72/227 (31%), Gaps = 42/227 (18%)
Query: 256 TTNTRNTIVQIRGRECPDKVVITSGHLDSWDVGQGAMDDGGG---------AFISG---- 302
N I G + P+KV++ HLDS G G D+G G A
Sbjct: 61 GATGYNLIANWPGGD-PNKVLMAGAHLDSVSSGAGINDNGSGSAAVLETALAVSRAGYQP 119
Query: 303 ------ILWTAEEQGYVGAIAYVKKHQEELKNITVAMESDD--GTFTPFGLSLKGSPEAA 354
W AEE G +G+ YV ++ + D G+ P P
Sbjct: 120 DKHLRFAWWGAEELGLIGSKFYVNNLPSADRSKLAGYLNFDMIGSPNPGYFVYDDDPVIE 179
Query: 355 CILNKVLRLFKPINATRLVQSKYPVGSDIELFQEKNIPGVALLN---------------- 398
F +N ++++ SD F+ +P L
Sbjct: 180 KTFKNY---FAGLNVPTEIETEGDGRSDHAPFKNVGVPVGGLFTGAGYTKSAAQAQKWGG 236
Query: 399 -DNAKYFWYHHTRADTMSVLDSDTLDLCTALWGGVAYILADLSVELP 444
+ +H+ D++S ++ LD + + L+ + E P
Sbjct: 237 TAGQAFDRCYHSSCDSLSNINDTALDRNSDAAAHAIWTLSSGTGEPP 283
>3fed_A Glutamate carboxypeptidase III; metallopeptidase, bimetallic active
site, N-glycosylation, C cation, chloride anion, zinc
IONS, dipept glycoprotein; HET: NAG BIX; 1.29A {Homo
sapiens} PDB: 3fec_A* 3fee_A* 3ff3_A* 2c6c_A* 2c6g_A*
2c6p_A* 2cij_A* 2jbj_A* 2jbk_A* 3rbu_A* 3bi1_A* 2oot_A*
2pvv_A* 2pvw_A* 2xei_A* 2or4_A* 3bi0_A* 3bhx_A* 3d7d_A*
3d7f_A* ...
Length = 707
Score = 76.2 bits (186), Expect = 5e-15
Identities = 83/514 (16%), Positives = 148/514 (28%), Gaps = 161/514 (31%)
Query: 82 GPRMTGSEALENSIDFMVKESKDFGLE-VWTEN----VTAPKWERHFEKVTLVKPWKSDI 136
P + G+E + + K FGL+ + ++ P +++V +++I
Sbjct: 37 LPHLAGTEQNFLLAKKIQTQWKKFGLDSAKLVHYDVLLSYPNETNA-NYISIVDEHETEI 95
Query: 137 PVSTLGGSVGTPQGGIT------------AEVAGKIVVFN----QDFVSYGETVKYRSKG 180
++ +T G +V N +DF + G
Sbjct: 96 FKTSYLEPPPDGYENVTNIVPPYNAFSAQGMPEGDLVYVNYARTEDFFKLEREMGINCTG 155
Query: 181 ASVASKYG--------------------------------------------------AV 190
V ++YG V
Sbjct: 156 KIVIARYGKIFRGNKVKNAMLAGAIGIILYSDPADYFAPEVQPYPKGWNLPGTAAQRGNV 215
Query: 191 ATLIRSVTPYSLATPHTGHQSY-----DAAVKPIPTACIAPEYAEMLYRM---------- 235
L + P + P + + IP I AE+L R
Sbjct: 216 LNLNGAGDPLTPGYPAKEYTFRLDVEEGVGIPRIPVHPIGYNDAEILLRYLGGIAPPDKS 275
Query: 236 --------------YRRGDGPVVVSINIDARNVGTTNTRNTIVQIRGRECPDKVVITSGH 281
+ D V +++ N T N + IRG PD+ VI GH
Sbjct: 276 WKGALNVSYSIGPGFTGSDSFRKVRMHVYNINK-ITRIYNVVGTIRGSVEPDRYVILGGH 334
Query: 282 LDSWDVGQGAMDDGGG---------AF-------------ISGILWTAEEQGYVGAIAYV 319
DSW GA+D G +F I W AEE G +G+ +
Sbjct: 335 RDSW--VFGAIDPTSGVAVLQEIARSFGKLMSKGWRPRRTIIFASWDAEEFGLLGSTEWA 392
Query: 320 KKHQEELKNITVA-MESDDGTFTPFGLSLKGSPEAACILNKVLRLFKPINATRLVQSKY- 377
+++ + L+ ++A + SD + L + +P ++ K+ + + +S Y
Sbjct: 393 EENVKILQERSIAYINSDSSIEGNYTLRVDCTPLLYQLVYKLTKEIPSPDDGFESKSLYE 452
Query: 378 --------------------PVGSDIELFQEK-NIPGVAL------LNDNAKYFWYHHTR 410
GSD E + ++ I D + +HT
Sbjct: 453 SWLEKDPSPENKNLPRINKLGSGSDFEAYFQRLGIASGRARYTKNKKTDKYSSYPVYHTI 512
Query: 411 ADTMSVLDS------DTLDLCTALWGGVAYILAD 438
+T +++ L G + Y L D
Sbjct: 513 YETFELVEKFYDPTFKKQLSVAQLRGALVYELVD 546
>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 = 57.8 bits (139), Expect = 5e-09
Identities = 75/434 (17%), Positives = 128/434 (29%), Gaps = 135/434 (31%)
Query: 41 YIDAEVNSYQPVVDR----IIAAVSQGGH-----F--Q----------AHTYSTLADFVD 79
YI A + + +P + + AV +G F Q Y T V
Sbjct: 126 YITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVG 185
Query: 80 KFGPRMTGSEALENSIDFMVKESKDF--GLEV--WTEN-VTAPKWERHFEKVTLVKPWKS 134
+E L I + K F GL + W EN P K +
Sbjct: 186 DLIKFS--AETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPD-----------KDYLL 232
Query: 135 DIPVSTLGGSVGTPQGGITAEVAGKIVVFNQDFVSYGETVKYRSKGASVASKYGAVATLI 194
IP+S P G+ +A +V + GE ++ KGA+ S+ A I
Sbjct: 233 SIPISC-------PLIGVIQ-LAHYVVTAKLLGFTPGE-LRSYLKGATGHSQGLVTAVAI 283
Query: 195 RSVTPYSLATPHTGHQSYDAAVKPIPTACIAPEYAEMLYRMYRRGDGPVVVSINIDARNV 254
A + + + K I +L+ +
Sbjct: 284 --------AETDSWESFFVSVRKAI----------TVLFF-------------------I 306
Query: 255 GTTNTRNTIVQIRGREC-PDKVVITSGHLDSWDVGQGA---MDDGGGAFISGILWTAEEQ 310
G +R E P+ + S DS + +G M IS + +
Sbjct: 307 G----------VRCYEAYPNTSLPPSILEDSLENNEGVPSPM-----LSISNLTQEQVQD 351
Query: 311 GYVGAIAYVKKHQEELKNITVAMESDDGTFTPFGLSLKGSPEAACILNKVLRLFKPINAT 370
+ H K + +++ + +S G P++ LN LR K +
Sbjct: 352 ----YVNKTNSHLPAGKQVEISLVN---GAKNLVVS--GPPQSLYGLNLTLRKAKA--PS 400
Query: 371 RLVQSKYPVGSDIELF-QEKNIPGVALLNDNAKYFWYHHTR--ADTMSVLDSDTLDLCTA 427
L QS+ P F + K L + + H+ +++ D L
Sbjct: 401 GLDQSRIP-------FSERKLKFSNRFLPVASPF----HSHLLVPASDLINKD-LVKNNV 448
Query: 428 LWGGVAYILADLSV 441
+ D+ +
Sbjct: 449 SFNA-----KDIQI 457
Score = 45.8 bits (108), Expect = 2e-05
Identities = 51/320 (15%), Positives = 104/320 (32%), Gaps = 97/320 (30%)
Query: 62 QGGHFQ---AHTYST------LADFVDKFGPRMTGSEALENSIDFMVKES-KD----FGL 107
QG Q Y T + + D + SI +V + + FG
Sbjct: 1624 QGSQEQGMGMDLYKTSKAAQDVWNRADNHF-----KDTYGFSILDIVINNPVNLTIHFGG 1678
Query: 108 EVW---TENVTAPKWERHFEKVTLVKPWKSDIPVSTLGGSVGTPQGGIT----AEVAGKI 160
E EN +A +E + + +I + + + +G ++ + A +
Sbjct: 1679 EKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPA--L 1736
Query: 161 VVFNQDFVSYGETVKYRSKG-----ASVA--S--KYGAVATLIRSVTPYSLATPHTGHQS 211
+ + +SKG A+ A S +Y A+A SLA S
Sbjct: 1737 TL-----MEKAAFEDLKSKGLIPADATFAGHSLGEYAALA---------SLA----DVMS 1778
Query: 212 YDAAVK-------PIPTACIAPEYAEMLYRMYRRGDGPVVVSINIDA-RNVGTTNTRNT- 262
++ V+ + A E Y M G V S + +A + V + T
Sbjct: 1779 IESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTG 1838
Query: 263 -IVQI----RGRECPDKVVITSGHLDSWDVGQGAMDDGGGAFISGILWTAEEQGYVGAIA 317
+V+I ++ + +G L A+D ++ +L
Sbjct: 1839 WLVEIVNYN----VENQQYVAAGDLR-------ALDT-----VTNVL------------N 1870
Query: 318 YVKKHQEELKNITVAMESDD 337
++K + ++ + ++ ++
Sbjct: 1871 FIKLQKIDIIELQKSLSLEE 1890
>3tc8_A Leucine aminopeptidase; phosphorylase/hydrolase-like, structural
genomics, joint CEN structural genomics, JCSG; 1.06A
{Parabacteroides distasonis}
Length = 309
Score = 50.9 bits (121), Expect = 4e-07
Identities = 39/237 (16%), Positives = 62/237 (26%), Gaps = 54/237 (22%)
Query: 239 GDGPVVVSINIDARNVGTTNTRNTIVQIRGRECPDKVVITSGHLDSWDVG---------- 288
G + A + RN I K V+ H DS
Sbjct: 62 GAKVYQQEAILTAYDGTKLEARNIIGSFDPEN--SKRVLLFAHWDSRPYSDHDPDPSKHR 119
Query: 289 ---QGAMDDGGGAFISG-----------------ILWTAEEQG-------------YVGA 315
GA D G G I + AE+ G +G
Sbjct: 120 TPLDGADDGGSGVGALLEIARQIGQKAPGIGIDIIFFDAEDYGTPEFVTDYTPDSWCLGT 179
Query: 316 IAYVKKHQEELKNITVAMESD-----DGTFTPFGLSLKGSPEAACILNKVLRLFKPINAT 370
+ K + D + TF SL+ + ++ R
Sbjct: 180 QFWAKNPHVPNYTAEYGILLDMVGGKNATFFKEQQSLRAAAPIVEMVWSAARDLGYGKYF 239
Query: 371 RLVQSKYPVGSDIELFQEKNIPGVALLNDNAKYF----WYHHTRADTMSVLDSDTLD 423
+ +NIP + ++N + + Y HT+ D M +D +TL
Sbjct: 240 INAAGGAITDDHQYVISGRNIPSIDIINYDPESKTGFASYWHTQKDNMENIDRETLK 296
Score = 38.5 bits (89), Expect = 0.003
Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 71 YSTLADFVDKFGPRMTGSEALENSIDFMVKESKDFGLEVWTENVTAPKW 119
Y+ +A+ V FGPR+ + A + D++ E K FG +V+ + +
Sbjct: 28 YAYVANQVA-FGPRVPNTAAHKACGDYLASELKRFGAKVYQQEAILTAY 75
>3gux_A Putative Zn-dependent exopeptidase; aminopeptidase,
phosphorylase/hydrolase-like fold, structura genomics;
1.80A {Bacteroides vulgatus atcc 8482}
Length = 314
Score = 49.4 bits (117), Expect = 1e-06
Identities = 36/239 (15%), Positives = 67/239 (28%), Gaps = 56/239 (23%)
Query: 239 GDGPVVVSINIDARNVGTTNTRNTIVQIRGRECPDKVVITSGHLDSWDVG---------- 288
G ++ A + +RN I + ++ H DS
Sbjct: 64 GAKVYNQYADLIAYDGTILKSRNIIGAYKPESKKRILL--CAHWDSRPYADNDPDPKNHH 121
Query: 289 ---QGAMDDGGGAFISG-----------------ILWTAEEQG--------------YVG 314
G D G + + + +E+ G +G
Sbjct: 122 TPILGVNDGASGVGVLLEIARQIQKEQPALGIDIVFFDSEDYGIPEFYDGKYKQDTWCLG 181
Query: 315 AIAYVKKHQEELKNITVAMESD-----DGTFTPFGLSLKGSPEAACILNKVLRLFKPINA 369
+ + + + N + D D TF G S + + + K
Sbjct: 182 SQYWARTPHVQNYNARYGILLDMVGGKDATFYYEGYSARTARSEMKKIWKKAHELGYGKY 241
Query: 370 TRLVQSKYPVGSDIELFQEKNIPGVALLNDN-----AKYFWYHHTRADTMSVLDSDTLD 423
V I + + IP V ++N + + + + HT DTM +D +TL
Sbjct: 242 FVKEDGGETVDDHIYVNKLARIPCVDIINYDAGNPQSSFGSFWHTVNDTMENIDRNTLK 300
Score = 37.4 bits (86), Expect = 0.007
Identities = 10/50 (20%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 71 YSTLADFVDKFGPRMTGSEALENSIDFMVKESKDFGLEVWTENVTAPKWE 120
Y + D FGPR+ ++A + +++ + + FG +V+ + ++
Sbjct: 30 YQYIQVQAD-FGPRVPNTQAHKECGEYLAGQLEKFGAKVYNQYADLIAYD 78
>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 = 49.5 bits (117), Expect = 2e-06
Identities = 57/409 (13%), Positives = 109/409 (26%), Gaps = 132/409 (32%)
Query: 67 QAHTYS-TLADFVDKFGPRMTGSEALENSIDFMVKESKDFGLEVWTENVTAPKWERHFEK 125
+ Y L+ F D F +F K+ +D + ++ +
Sbjct: 14 HQYQYKDILSVFEDAF------------VDNFDCKDVQDMPKSILSK--------EEIDH 53
Query: 126 VTLVKPWKSDIPVSTLGGSVGTPQGGITAEVAGKIVVFNQDFVSYGETVKYRSKGASVAS 185
+ + + V+G + +F SK +
Sbjct: 54 I------------------IMSKD-----AVSGTLRLFW----------TLLSKQEEMVQ 80
Query: 186 KYGAVATLIRSVTPYSLATPHTGHQSYDAAVKPIPTACIAPEYAEMLYRMYRR---GDGP 242
K+ V ++R +Y + PI T P +Y R D
Sbjct: 81 KF--VEEVLR--------------INYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQ 124
Query: 243 VVVSINIDARNVGTTNTRNTIVQIRGRECPDKVVITSGHL---DSWDVGQGAMDDG-GGA 298
V N+ +R R ++++R P K V+ G L +W +
Sbjct: 125 VFAKYNV-SRLQPYLKLRQALLELR----PAKNVLIDGVLGSGKTWVALDVCLSYKVQCK 179
Query: 299 FISGILW-TAEEQGYVGAIAYVKKHQEEL-----KNITVAMESDDGTFTPFG-------- 344
I W + V + ++L N T +
Sbjct: 180 MDFKIFWLNL---KNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRR 236
Query: 345 -LSLKGSPEAACIL-----NKVLRLFKPINATRLVQSKYP-VGSDIELFQEKNIPGVALL 397
L K +L K F ++ L+ +++ V + +I L
Sbjct: 237 LLKSKPYENCLLVLLNVQNAKAWNAFN-LSCKILLTTRFKQVTDFLSAATTTHIS----L 291
Query: 398 NDNAKYFWYHHTRADTMSVLDSDTLDLCTALWGGVAYILADLSV-ELPR 445
+ ++ T + S+L + D +LPR
Sbjct: 292 DHHSMTL----TPDEVKSLL---------LKY-------LDCRPQDLPR 320
Score = 41.0 bits (95), Expect = 8e-04
Identities = 61/482 (12%), Positives = 132/482 (27%), Gaps = 174/482 (36%)
Query: 39 CDYIDAEVNSYQPV--VDRIIAAVSQGGHFQAHTYSTLADFVDKFGPRMTGSEALENSID 96
D+I + S V R+ + + FV+ E L +
Sbjct: 51 IDHI---IMSKDAVSGTLRLFWTLLSKQE------EMVQKFVE---------EVLRINYK 92
Query: 97 FMV----KESKDFGLE----------VWTENVTAPKW--ERHFEKVTLVKPW-KSDIPVS 139
F++ E + + ++ +N K+ R + ++ P
Sbjct: 93 FLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRL-QPYLKLRQALLELRPAK 151
Query: 140 --TLGGSVGTPQGGITAEVAGKIVVFNQDFVSYGETVKYRSKGASVASKYGAVATLIRSV 197
+ G +G +GK V V Y + +
Sbjct: 152 NVLIDGVLG----------SGKTWV-----------------ALDVCLSYKVQCKMDFKI 184
Query: 198 TPY--SLATPHTGHQSYDAAVKPIPTACIAPEYAEMLYRMYRRGDGPVVVSINIDARNVG 255
+ +L ++ P + EML ++ + D N +R+
Sbjct: 185 --FWLNLKNCNS------------PETVL-----EMLQKLLYQIDP------NWTSRSDH 219
Query: 256 TTNTRNTIVQIRGR--------ECPDKVVITSGHLDS-WDVGQGAMDDGGGAFISG--IL 304
++N + I I+ + +++ L + + A + AF IL
Sbjct: 220 SSNIKLRIHSIQAELRRLLKSKPYENCLLV----LLNVQNAK--AWN----AFNLSCKIL 269
Query: 305 WTAEEQGYVGAI-AYVKKHQEELKNITVAMESDDGTFTP----------FGLSLKGSPEA 353
T + + A H ++++ T TP + P
Sbjct: 270 LTTRFKQVTDFLSAATTTH--------ISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPRE 321
Query: 354 AC--------ILNKVLR-------LFKPINATRL---------------VQSKYPVGSDI 383
I+ + +R +K +N +L + + +
Sbjct: 322 VLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMF---DRL 378
Query: 384 ELFQEK-NIPGVALLNDNAKYFWYHHTRADTMSVLDSDTLDLCTALWG-GVAYILADLSV 441
+F +IP + L W+ ++D M V++ + + +
Sbjct: 379 SVFPPSAHIPTILL-----SLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYL 433
Query: 442 EL 443
EL
Sbjct: 434 EL 435
>3pb6_X Glutaminyl-peptide cyclotransferase-like protein; alpha/beta
protein, alpha/beta-mixed fold, glutaminyl cyclas
membrane; 1.05A {Homo sapiens} PDB: 3pb4_X 3pb7_X*
3pb8_X* 3pb9_X*
Length = 330
Score = 46.4 bits (109), Expect = 1e-05
Identities = 32/248 (12%), Positives = 58/248 (23%), Gaps = 61/248 (24%)
Query: 234 RMYRRGDGPVVVSINIDARNVGTTNTRNTIVQIRGRECPDKVVITSGHLDS------WDV 287
+ G V A +V + + + H DS
Sbjct: 70 TLRSLTAGWHVELDPFTASTPLGPVDFGNVVATLDPRAARHLTL-ACHYDSKLFPPGSTP 128
Query: 288 GQGAMDDGGGAFISG------------------------ILWTAEEQG--------YVGA 315
GA D + + EE G+
Sbjct: 129 FVGATDSAVPCALLLELAQALDLELSRAKKQAAPVTLQLLFLDGEEALKEWGPKDSLYGS 188
Query: 316 IAYVKKHQE--------ELKNITVAMESD-----DGTFTPFGLSLKGSPEAACILNKVLR 362
+ + ++ I + M D + TF + K L
Sbjct: 189 RHLAQLMESIPHSPGPTRIQAIELFMLLDLLGAPNPTFYSHFPRTVRWFHRLRSIEKRLH 248
Query: 363 LFKPINAT-------RLVQSKYPVGSDIELFQEKNIPGVALLNDNAKYFWYHHTRADTMS 415
+ + + + V D F + +P + L++ + HT ADT
Sbjct: 249 RLNLLQSHPQEVMYFQPGEPFGSVEDDHIPFLRRGVPVLHLISTP--FPAVWHTPADTEV 306
Query: 416 VLDSDTLD 423
L T+
Sbjct: 307 NLHPPTVH 314
>2afw_A Glutaminyl-peptide cyclotransferase; alpha-beta protein,
metalloprotein; HET: AHN; 1.56A {Homo sapiens} SCOP:
c.56.5.8 PDB: 2afo_A 2afm_A* 2afx_A* 2afz_A 3pbb_A*
2zed_A 2zeh_A 2afu_A 2zee_A 2zeo_A 2zef_A 2zem_A 2zel_A
2zen_A 3pbe_A 2zeg_A 2zep_A 2afs_A 3si0_A* 3si2_A* ...
Length = 329
Score = 42.8 bits (100), Expect = 1e-04
Identities = 34/239 (14%), Positives = 59/239 (24%), Gaps = 69/239 (28%)
Query: 250 DARNVGTTNTRNTIVQIRGRECPDKVVITSGHLDSWDVG-------QGAMDDGGGAF--- 299
G + N I + +V+ H DS GA D
Sbjct: 79 SQTPYGYRSFSNIISTLNP-TAKRHLVLAC-HYDSKYFSHWNNRVFVGATDSAVPCAMML 136
Query: 300 ------------------------ISGILWTAEEQGY--------VGAIAYVK------- 320
+ I + EE G+
Sbjct: 137 ELARALDKKLLSLKTVSDSKPDLSLQLIFFDGEEAFLHWSPQDSLYGSRHLAAKMASTPH 196
Query: 321 ----KHQEELKNITVAMESD-----DGTFTPFGLSLKGSPE----AACILNKV-LRLFKP 366
+ +L + + + D + TF F + E L+++ L
Sbjct: 197 PPGARGTSQLHGMDLLVLLDLIGAPNPTFPNFFPNSARWFERLQAIEHELHELGLLKDHS 256
Query: 367 INATRLVQSKYP--VGSDIELFQEKNIPGVALLNDNAKYFWYHHTRADTMSVLDSDTLD 423
+ Y + D F + +P + L+ + HT D LD T+D
Sbjct: 257 LEGRYFQNYSYGGVIQDDHIPFLRRGVPVLHLIPSP--FPEVWHTMDDNEENLDESTID 313
Score = 32.1 bits (72), Expect = 0.33
Identities = 6/66 (9%), Positives = 19/66 (28%), Gaps = 3/66 (4%)
Query: 47 NSYQPVVDRIIAAVSQGGHFQAHTYSTLADFVDKFGPRMTGSEALENSIDFMVKESKDFG 106
+ + + +++G + L R GS + +++ +
Sbjct: 11 HQPAILNSSALRQIAEGTSISEMWQNDLQPL---LIERYPGSPGSYAARQHIMQRIQRLQ 67
Query: 107 LEVWTE 112
+ E
Sbjct: 68 ADWVLE 73
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 33.4 bits (75), Expect = 0.066
Identities = 13/45 (28%), Positives = 20/45 (44%), Gaps = 15/45 (33%)
Query: 308 EEQGYVGAIAYVKKHQEELKNITVAMESDDGTFTPFGLSLKGSPE 352
E+Q +KK Q LK + +DD P L++K + E
Sbjct: 18 EKQA-------LKKLQASLK-----LYADDS--AP-ALAIKATME 47
Score = 29.5 bits (65), Expect = 1.3
Identities = 8/32 (25%), Positives = 11/32 (34%), Gaps = 14/32 (43%)
Query: 346 SLKGSPEAACILNKVLRLFKP-------INAT 370
+LK L L+L+ I AT
Sbjct: 21 ALKK-------LQASLKLYADDSAPALAIKAT 45
>2hpi_A DNA polymerase III alpha subunit; POL-beta-like
nucleotidyltransferase fold, transferase; HET: DNA; 3.00A
{Thermus aquaticus} PDB: 2hpm_A* 3e0d_A*
Length = 1220
Score = 31.5 bits (72), Expect = 0.70
Identities = 23/159 (14%), Positives = 42/159 (26%), Gaps = 52/159 (32%)
Query: 50 QPVVDRIIAAVSQGGHFQAHTYSTLADFV----------------------DKFGPRMTG 87
+ I+ +GG F+ +L DF+ D FG R
Sbjct: 899 EMAARAILEERERGGPFK-----SLGDFLKRLPEQVVNKRALESLVKAGALDAFGDRARL 953
Query: 88 SEALENSIDFMVKESKD--------FGLEVWTENVTAPKWERH----FEKVTL------- 128
+LE + + + + F V A + +EK L
Sbjct: 954 LASLEPLLRWAAETRERGRSGLVGLFAEVEEPPLVEASPLDEITMLRYEKEALGIYVSGH 1013
Query: 129 ----VKPWK--SDIPVSTLGGSVGTPQGGITAEVAGKIV 161
+ + + L V G ++G +
Sbjct: 1014 PVLRYPGLREVASCTIEELSEFVRELPGKPKVLLSGMVE 1052
>2ihr_1 Peptide chain release factor 2; mixed alpha-beta, translation;
2.50A {Thermus thermophilus} PDB: 2b9m_Y* 3f1e_X 3f1g_X
2x9r_Y* 2x9t_Y* 2jl5_Y 2jl7_Y 2wh1_Y 2wh3_Y
Length = 365
Score = 29.9 bits (68), Expect = 1.8
Identities = 8/10 (80%), Positives = 8/10 (80%)
Query: 229 AEMLYRMYRR 238
AEML RMY R
Sbjct: 133 AEMLLRMYTR 142
>1gqe_A Release factor 2, RF2; protein synthesis, ribosome, macromolecular
mimicry, translation; 1.81A {Escherichia coli} SCOP:
e.38.1.1 PDB: 1mi6_A 1ml5_Z*
Length = 365
Score = 29.2 bits (66), Expect = 3.1
Identities = 7/10 (70%), Positives = 7/10 (70%)
Query: 229 AEMLYRMYRR 238
A ML RMY R
Sbjct: 145 ASMLERMYLR 154
>3fdb_A Beta C-S lyase, putative PLP-dependent beta-cystathionase;
PLP-dependent transferase-like fold, structural
genomics; HET: LLP; 1.99A {Corynebacterium diphtheriae}
Length = 377
Score = 28.6 bits (65), Expect = 3.8
Identities = 12/79 (15%), Positives = 23/79 (29%), Gaps = 27/79 (34%)
Query: 291 AMDDGGGAFI-------SGILWTAEEQGYVGAIAYVKKHQEELKNITVAMESD------- 336
G + + G+++ E + +A ++ + V D
Sbjct: 146 GFQAGARSILLCNPYNPLGMVFAPEWLNELCDLA--HRY-----DARVL--VDEIHAPLV 196
Query: 337 -DGTFTPFGLSLKGSPEAA 354
DG T + S AA
Sbjct: 197 FDGQHTVA-AGV--SDTAA 212
>2zc0_A Alanine glyoxylate transaminase; alanine:glyoxylate
aminotransferase, archaea, thermococcus L transferase;
HET: PMP; 2.30A {Thermococcus litoralis}
Length = 407
Score = 28.4 bits (64), Expect = 5.1
Identities = 17/78 (21%), Positives = 32/78 (41%), Gaps = 16/78 (20%)
Query: 265 QIRGREC-PDKVVITSGHLDSWDVGQGAMDDGGGAFI---SGILWTAEEQGYVGAIAYVK 320
+ E P+ +VIT G G GA+D G I ++ E Y+ + +
Sbjct: 90 KYDHLEVSPENIVITIG-------GTGALDLLGRVLIDPGDVVI--TENPSYINTLLAFE 140
Query: 321 KHQEELKNITVAMESDDG 338
+ ++ V ++ +DG
Sbjct: 141 QLGAKI--EGVPVD-NDG 155
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 28.7 bits (64), Expect = 5.3
Identities = 20/119 (16%), Positives = 35/119 (29%), Gaps = 30/119 (25%)
Query: 20 AAFTLLPTGQSQPSPPAVNCDYIDAEVNSYQPVV--------DRIIAAVSQ----GGH-- 65
L S P N D +D + ++ V+ D + A G
Sbjct: 1394 MNGALQ-ILNSGIIPGNRNADNVDKILEQFEYVLYPSKTLKTDGVRAVSITSFGFGQKGG 1452
Query: 66 ----------FQAHTYSTLADFVDKFGPRM-TGSEALENSI----DFMVKESKDFGLEV 109
+ A T ++V K R + + N + F+ KE + E+
Sbjct: 1453 QAIVVHPDYLYGAITEDRYNEYVAKVSAREKSAYKFFHNGMIYNKLFVSKEHAPYTDEL 1511
>3edy_A Tripeptidyl-peptidase 1; protease, TPP1, sedolisin, batten disease,
lincl, zymogen, P exopeptidase, endopeptidase, S53
family, CLN2; HET: NAG; 1.85A {Homo sapiens} PDB:
3ee6_A*
Length = 544
Score = 28.0 bits (61), Expect = 8.3
Identities = 24/174 (13%), Positives = 44/174 (25%), Gaps = 9/174 (5%)
Query: 54 DRIIAAVSQGGHFQAHTYSTLADFVDKFGPRMTGSEALENSIDF--MVKESKDFGLEVWT 111
++ AVS Q Y TL + D P ++ + K + T
Sbjct: 43 SELVQAVSDPSSPQYGKYLTLENVADLVRPSPLTLHTVQKWLLAAGAQKCHSVITQDFLT 102
Query: 112 ENVTAPKWERHFEKVTLVKPWKSDIPVSTLGGSVGTPQGGITAEVAGKIVVFNQDFVSYG 171
++ + E + T V +P + V F +
Sbjct: 103 CWLSIRQAELLL-PGAEFHHYVGG---PTETHVVRSPHPYQLPQALAPHVDFVGGLHRFP 158
Query: 172 ETVKYRSKGASVASKYGAVATLIRSVTPYSLATPHTGHQSYDAAVKPIPTACIA 225
T R + + L VTP + + + + A
Sbjct: 159 PTSSLRQR---PEPQVTGTVGLHLGVTPSVIRKRYNLTSQDVGSGTSNNSQACA 209
>2hnh_A DNA polymerase III alpha subunit; DNA replication,
nucleotidyltransferase, beta, PHP, transferase; HET:
DNA; 2.30A {Escherichia coli} PDB: 2hqa_A*
Length = 910
Score = 27.8 bits (63), Expect = 8.8
Identities = 11/46 (23%), Positives = 20/46 (43%), Gaps = 5/46 (10%)
Query: 50 QPVVDRIIAAVSQGGHFQAHTYSTLADFVDKFGPRMTGSEALENSI 95
+ ++ II A ++GG+F+ L D + + LE I
Sbjct: 843 EGPIEAIIEARNKGGYFR-----ELFDLCARTDTKKLNRRVLEKLI 883
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
0.317 0.134 0.401
Gapped
Lambda K H
0.267 0.0818 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,954,726
Number of extensions: 432897
Number of successful extensions: 790
Number of sequences better than 10.0: 1
Number of HSP's gapped: 762
Number of HSP's successfully gapped: 41
Length of query: 446
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 349
Effective length of database: 3,993,456
Effective search space: 1393716144
Effective search space used: 1393716144
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (26.3 bits)