RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15035
(816 letters)
>3gvo_A Pumilio 2, pumilio homolog 2; RNA-binding, PUF domain, RNA binding
protein; HET: DTD; 1.60A {Mus musculus} PDB: 3gvt_A
3q0q_A 3q0r_A 3q0s_A 1ib2_A 1m8w_A 1m8x_A 1m8y_A 1m8z_A
3q0l_A 3q0m_A 3q0n_A 3q0o_A 3q0p_A 2yjy_A 3bsx_A 3bsb_A
3h3d_X
Length = 351
Score = 147 bits (372), Expect = 7e-39
Identities = 50/291 (17%), Positives = 111/291 (38%), Gaps = 20/291 (6%)
Query: 3 QIVFSHDMSRIIQWLLKLSSPQMKKDIVKELLPFTVAMIKSKYSNALVKHMLKSGDENTK 62
+ SR IQ L+ ++P ++ + E+L ++ + N +++ + G + K
Sbjct: 30 EFSQDQHGSRFIQQKLERATPAERQIVFNEILQAAYQLMTDVFGNYVIQKFFEFGSLDQK 89
Query: 63 NEIIKALQPHVVTLLSHTTASPVLMYAHDQVASPAQKLAMRQELYGGLYESTGDKKIN-C 121
+ ++ HV+ L V+ A + S Q+ M +EL G + + D+ N
Sbjct: 90 LALATRIRGHVLPLALQMYGCRVIQKALE-SISSDQQSEMVKELDGHVLKCVKDQNGNHV 148
Query: 122 LGDIFEQ-SPEMKTAILSVTKKTILKSLQKTQVTGSALLHAVLLDFISHSSDSPDLMEVL 180
+ E P+ I+ K + V+ + H + + +L
Sbjct: 149 VQKCIECVQPQSLQFIIDAFKGQVFVLSTHPYG------CRVIQRILEHCTAE-QTLPIL 201
Query: 181 EMLAPLPLLPFVHSKAGASVAMHIIWNATNKLKKKIVKELKGHLREVATSEFGHLVLVTL 240
E L V + G V H++ + + K KIV E++G + ++ +F V+
Sbjct: 202 EELHQH-TEQLVQDQYGNYVIQHVLEHGRPEDKSKIVSEIRGKVLALSQHKFASNVVEKC 260
Query: 241 LDNVDDTLLLKKALLPELLAE-------VVPLANHEYGRKVIAHLVSWCDP 284
+ + + L+ E+ + + + +Y V+ ++ +P
Sbjct: 261 VTHASRA--ERALLIDEVCCQNDGPHSALYTMMKDQYANYVVQKMIDMAEP 309
Score = 54.2 bits (131), Expect = 7e-08
Identities = 16/85 (18%), Positives = 39/85 (45%), Gaps = 7/85 (8%)
Query: 11 SRIIQWLLKLSSPQMKKDIVKELLPFT-------VAMIKSKYSNALVKHMLKSGDENTKN 63
S +++ + +S + ++ E+ M+K +Y+N +V+ M+ + +
Sbjct: 254 SNVVEKCVTHASRAERALLIDEVCCQNDGPHSALYTMMKDQYANYVVQKMIDMAEPAQRK 313
Query: 64 EIIKALQPHVVTLLSHTTASPVLMY 88
I+ ++PH+ TL +T +L
Sbjct: 314 IIMHKIRPHITTLRKYTYGKHILAK 338
Score = 51.9 bits (125), Expect = 4e-07
Identities = 30/231 (12%), Positives = 73/231 (31%), Gaps = 72/231 (31%)
Query: 11 SRIIQWLLKLSSPQMKKDIVKELLPFTVAMIKSKYSNALVKHMLKSGDENTKNEIIKALQ 70
R+IQ +L+ + + I++EL T +++ +Y N +++H+L+ G K++I+ ++
Sbjct: 182 CRVIQRILEHCTAEQTLPILEELHQHTEQLVQDQYGNYVIQHVLEHGRPEDKSKIVSEIR 241
Query: 71 PHVVTLLSHTTASPVLMYAHDQVASPAQKLAMRQELYGGLYESTGDKKINCLGDIFEQSP 130
VL + + AS
Sbjct: 242 GK------------VLALSQHKFAS----------------------------------- 254
Query: 131 EMKTAILSVTKKTILKSLQKTQVTGSALLHAVLLDFISHSSDSPDLMEVLEMLAPLPLLP 190
+ K + A ++ + + + +
Sbjct: 255 -----------NVVEKCVT---HASRAERALLIDEVCCQNDGPHSALYTM---------- 290
Query: 191 FVHSKAGASVAMHIIWNATNKLKKKIVKELKGHLREVATSEFGHLVLVTLL 241
+ + V +I A +K I+ +++ H+ + +G +L L
Sbjct: 291 -MKDQYANYVVQKMIDMAEPAQRKIIMHKIRPHITTLRKYTYGKHILAKLE 340
Score = 37.3 bits (87), Expect = 0.016
Identities = 13/76 (17%), Positives = 28/76 (36%), Gaps = 2/76 (2%)
Query: 209 TNKLKKKIVKELKGHLREVATSEFGHLVLVTLLDNVDDTLLLKKALLPELLAEVVPLANH 268
N+ +++L GH+ E + + G + L+ ++ + E+L L
Sbjct: 13 NNRFPNLQLRDLIGHIVEFSQDQHGSRFIQQKLERATPA--ERQIVFNEILQAAYQLMTD 70
Query: 269 EYGRKVIAHLVSWCDP 284
+G VI +
Sbjct: 71 VFGNYVIQKFFEFGSL 86
Score = 35.0 bits (81), Expect = 0.078
Identities = 9/52 (17%), Positives = 26/52 (50%)
Query: 12 RIIQWLLKLSSPQMKKDIVKELLPFTVAMIKSKYSNALVKHMLKSGDENTKN 63
++Q ++ ++ P +K I+ ++ P + K Y ++ + K +N+ +
Sbjct: 298 YVVQKMIDMAEPAQRKIIMHKIRPHITTLRKYTYGKHILAKLEKYYLKNSPD 349
>3k49_A MRNA-binding protein PUF3; PUF3, pumilio, RNA binding,
mitochondrial mRNA,, membrane, mitochondrion; HET: CIT;
2.50A {Saccharomyces cerevisiae} PDB: 3k4e_A
Length = 369
Score = 115 bits (289), Expect = 8e-28
Identities = 41/286 (14%), Positives = 98/286 (34%), Gaps = 47/286 (16%)
Query: 3 QIVFSHDMSRIIQWLLKLSSPQMKKDIVKELLPFTVAMIKSKYSNALVKHMLKSGDENTK 62
+ SR IQ L S K+ I E+ + + + N +++ + G + K
Sbjct: 35 EFCKDQHGSRFIQRELATSPASEKEVIFNEIRDDAIELSNDVFGNYVIQKFFEFGSKIQK 94
Query: 63 NEIIKALQPHVVTLLSHTTASPVLMYAHDQVASPAQKLAMRQELYGGLYESTGDKKINCL 122
N ++ + ++ L A V+ A + Q++ + EL + + D+ N
Sbjct: 95 NTLVDQFKGNMKQLSLQMYACRVIQKALE-YIDSNQRIELVLELSDSVLQMIKDQNGN-- 151
Query: 123 GDIFEQSPEMKTAILSVTKKTILKSLQKTQVTGSALLHAVLLDFISHSSDSPDLMEVLEM 182
I K+++ L +L
Sbjct: 152 -------------------HVIQKAIET--------------------IPIEKLPFILSS 172
Query: 183 LAPLPLLPFVHSKAGASVAMHIIWNATNKLKKKIVKELKGHLREVATSEFGHLVLVTLLD 242
L + G V ++ +++ ++ I+ ELK + + ++G+ V+ +L
Sbjct: 173 LTG-HIYHLSTHSYGCRVIQRLLEFGSSEDQESILNELKDFIPYLIQDQYGNYVIQYVLQ 231
Query: 243 N----VDDTLLLKKALLPELLAEVVPLANHEYGRKVIAHLVSWCDP 284
+ + +K+ ++ + VV + H++ V+ + +
Sbjct: 232 QDQFTNKEMVDIKQEIIETVANNVVEYSKHKFASNVVEKSILYGSK 277
Score = 58.9 bits (143), Expect = 2e-09
Identities = 40/289 (13%), Positives = 101/289 (34%), Gaps = 35/289 (12%)
Query: 13 IIQWLLKLSSPQMKKDIVKELLPFTVAMIKSKYSNALVKHMLKSGDENTKNEIIKALQPH 72
+IQ + S K +V + + Y+ +++ L+ D N + E++ L
Sbjct: 81 VIQKFFEFGSKIQKNTLVDQFKGNMKQLSLQMYACRVIQKALEYIDSNQRIELVLELSDS 140
Query: 73 VVTLLSHTTASPVLMYAHDQ----VASPAQKLAMRQELYGGLYESTGDKKINCLG-DIFE 127
V+ ++ + V+ Q + + L G +Y + + + E
Sbjct: 141 VLQMIKDQNGNHVI-----QKAIETIPIEKLPFILSSLTGHIYHLSTHSYGCRVIQRLLE 195
Query: 128 QSPEMKTAILSVTKKTILKSLQKTQ----VTGSALLHAVLLDFISHSSDSPDLMEVLEML 183
+ K + L + Q V + + + D ++ E++E +
Sbjct: 196 FGSSEDQESILNELKDFIPYLIQDQYGNYV----IQYVLQQDQFTNKEMVDIKQEIIETV 251
Query: 184 APLPLLPFVHSKAGASVAMHIIWNATNKLKKKIVKEL-------------KGHLREVATS 230
A ++ + K ++V I + K I+ ++ + +
Sbjct: 252 ANN-VVEYSKHKFASNVVEKSILYGSKNQKDLIISKILPRDKNHALNLEDDSPMILMIKD 310
Query: 231 EFGHLVLVTLLDNVDDTLLLKKALLPELLAEVVPLA-NHEYGRKVIAHL 278
+F + V+ L++ + KK ++ + A + L ++ G + +A +
Sbjct: 311 QFANYVIQKLVNVSEGEG--KKLIVIAIRAYLDKLNKSNSLGNRHLASV 357
Score = 48.2 bits (115), Expect = 6e-06
Identities = 14/86 (16%), Positives = 37/86 (43%), Gaps = 13/86 (15%)
Query: 11 SRIIQWLLKLSSPQMKKDIVKELLPFT-------------VAMIKSKYSNALVKHMLKSG 57
S +++ + S K I+ ++LP + MIK +++N +++ ++
Sbjct: 265 SNVVEKSILYGSKNQKDLIISKILPRDKNHALNLEDDSPMILMIKDQFANYVIQKLVNVS 324
Query: 58 DENTKNEIIKALQPHVVTLLSHTTAS 83
+ K I+ A++ ++ L +
Sbjct: 325 EGEGKKLIVIAIRAYLDKLNKSNSLG 350
>3bwt_A Protein PUF4; pumilio, RNA binding, HO endonuclease, transcription,
RNA binding protein; 2.69A {Saccharomyces cerevisiae}
PDB: 4dzs_A 3bx2_A 3bx3_A
Length = 333
Score = 114 bits (286), Expect = 9e-28
Identities = 50/293 (17%), Positives = 96/293 (32%), Gaps = 18/293 (6%)
Query: 2 GQIV-FSHDM--SRIIQWLLKLSSPQMKKDIVKELLPFTVAMIKSKYSNALVKHMLKSGD 58
G I D R +Q L + + I +E +TV ++ + N L++ +L+
Sbjct: 13 GSIHSLCKDQHGCRFLQKQLDILGSKAADAIFEETKDYTVELMTDSFGNYLIQKLLEEVT 72
Query: 59 ENTKNEIIKALQPHVVTLLSHTTASPVLMYAHDQVASPAQKLAMRQELYGGLYESTGDKK 118
+ + K PH V + + + L + + + + + L + + D
Sbjct: 73 TEQRIVLTKISSPHFVEISLNPHGTRALQKLIECIKTDEEAQIVVDSLRPYTVQLSKDLN 132
Query: 119 IN-CLGDIFE-QSPEMKTAILSVTKKTILKSLQKTQVTGSALLHAVLLDFISHSSDSPDL 176
N + + PE I + + VL + H +
Sbjct: 133 GNHVIQKCLQRLKPENFQFIFDAISDSCIDIATHRHG------CCVLQRCLDHGTTE-QC 185
Query: 177 MEVLEMLAPLPLLPFVHSKAGASVAMHIIWNATNK----LKKKIVKELKGHLREVATSEF 232
+ + L L + G V +II K KIV LK E++ +F
Sbjct: 186 DNLCDKLLAL-VDKLTLDPFGNYVVQYIITKEAEKNKYDYTHKIVHLLKPRAIELSIHKF 244
Query: 233 GHLVLVTLLDN-VDDTLLLKKALLPELLAEVVPLANHEYGRKVIAHLVSWCDP 284
G V+ +L + ++ + L + L N YG V+ +
Sbjct: 245 GSNVIEKILKTAIVSEPMILEILNNGGETGIQSLLNDSYGNYVLQTALDISHK 297
Score = 39.8 bits (93), Expect = 0.003
Identities = 12/75 (16%), Positives = 25/75 (33%), Gaps = 2/75 (2%)
Query: 210 NKLKKKIVKELKGHLREVATSEFGHLVLVTLLDNVDDTLLLKKALLPELLAEVVPLANHE 269
++ ++ + G + + + G L LD + A+ E V L
Sbjct: 1 SRFADAVLDQYIGSIHSLCKDQHGCRFLQKQLDILGSK--AADAIFEETKDYTVELMTDS 58
Query: 270 YGRKVIAHLVSWCDP 284
+G +I L+
Sbjct: 59 FGNYLIQKLLEEVTT 73
Score = 34.8 bits (80), Expect = 0.10
Identities = 10/77 (12%), Positives = 30/77 (38%), Gaps = 6/77 (7%)
Query: 11 SRIIQWLLKLSSP---QMKKDIVKELLPFTVAMIKSKYSNALVKHMLKSGDENTK---NE 64
S +I+ +LK + + + + +++ Y N +++ L +
Sbjct: 246 SNVIEKILKTAIVSEPMILEILNNGGETGIQSLLNDSYGNYVLQTALDISHKQNDYLYKR 305
Query: 65 IIKALQPHVVTLLSHTT 81
+ + + P +V + +T
Sbjct: 306 LSEIVAPLLVGPIRNTP 322
>2q0v_A Ubiquitin-conjugating enzyme E2, putative; malaria, structural G
structural genomics consortium, SGC, ligase; 2.40A
{Plasmodium falciparum} PDB: 3e95_C
Length = 156
Score = 82.0 bits (203), Expect = 2e-18
Identities = 27/49 (55%), Positives = 37/49 (75%)
Query: 522 IVPRNFRLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
IVPR+FRLL+ELE GQ+G +S+GLE+ DD+TL++W+ I G P T
Sbjct: 19 IVPRSFRLLDELERGQKGNVSEGVSFGLESADDITLSNWSCTIFGQPGT 67
>1jat_B Ubiquitin-conjugating enzyme variant MMS2; UEV, ligase; 1.60A
{Saccharomyces cerevisiae} SCOP: d.20.1.1 PDB: 2gmi_B
Length = 138
Score = 81.6 bits (202), Expect = 2e-18
Identities = 28/48 (58%), Positives = 37/48 (77%)
Query: 523 VPRNFRLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
VPRNFRLLEELE G++G G + S+GL + DD+T+T W G I+GPP +
Sbjct: 5 VPRNFRLLEELEKGEKGFGPESCSYGLADSDDITMTKWNGTILGPPHS 52
>2hlw_A Ubiquitin-conjugating enzyme E2 variant 1; ubiquitin-conjugating
enzyme variant, UBC13, HUBC13, polyubiquitination,
ligase, signaling protein; NMR {Homo sapiens}
Length = 170
Score = 80.6 bits (199), Expect = 8e-18
Identities = 46/79 (58%), Positives = 58/79 (73%), Gaps = 4/79 (5%)
Query: 496 SELKSKLSPFKTKLSSQKFSGAK----VLLIVPRNFRLLEELEHGQRGVGDGTISWGLEN 551
E+++ ++KLS + + + VPRNFRLLEELE GQ+GVGDGT+SWGLE+
Sbjct: 3 GEVQASYLKSQSKLSDEGRLEPRKFHCKGVKVPRNFRLLEELEEGQKGVGDGTVSWGLED 62
Query: 552 DDDMTLTHWTGMIIGPPRT 570
D+DMTLT WTGMIIGPPRT
Sbjct: 63 DEDMTLTRWTGMIIGPPRT 81
>2a4d_A Ubiquitin-conjugating enzyme E2 variant 1; alternative splicing,
nuclear protein, UBL conjugation pathway,ubiquitin,
ligase, structural genomics; 1.69A {Homo sapiens} SCOP:
d.20.1.1 PDB: 2c2v_C 1j7d_A 1j74_A 1zgu_A
Length = 160
Score = 76.3 bits (188), Expect = 2e-16
Identities = 42/48 (87%), Positives = 46/48 (95%)
Query: 523 VPRNFRLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
VPRNFRLLEELE GQ+GVGDGT+SWGLE+D+DMTLT WTGMIIGPPRT
Sbjct: 24 VPRNFRLLEELEEGQKGVGDGTVSWGLEDDEDMTLTRWTGMIIGPPRT 71
>3b1l_X E3 ubiquitin-protein ligase parkin; proteasome, ALFA-beta-protein;
1.85A {Mus musculus} PDB: 1mg8_A 2zeq_A 2knb_A 1iyf_A
Length = 76
Score = 71.2 bits (175), Expect = 1e-15
Identities = 24/72 (33%), Positives = 46/72 (63%)
Query: 605 LMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIISECD 664
+++ ++ N+ V +D + I +KE++A + G+ +++++IFAGKEL + + CD
Sbjct: 1 MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELPNHLTVQNCD 60
Query: 665 LGQQSILHAVKS 676
L QQSI+H V+
Sbjct: 61 LEQQSIVHIVQR 72
>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 = 70.3 bits (171), Expect = 2e-12
Identities = 92/606 (15%), Positives = 177/606 (29%), Gaps = 162/606 (26%)
Query: 24 QMK---KDIVKELLPFTVA---------MIKSKYSNALVKHMLKSGDENTKN----EIIK 67
+ + KDI+ V M KS S + H++ S D + +
Sbjct: 13 EHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLL 72
Query: 68 ALQPHVVTLLSHTTASPVLMYAHDQVASPAQKLAMRQELYGGLYESTGDKKINCLGDIFE 127
+ Q +V VL + + SP + + + +Y D+ N +F
Sbjct: 73 SKQEEMVQKFVEE----VLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYN-DNQVFA 127
Query: 128 Q----SPEMKTAILSVTKKTILKSLQKTQ---VTG------SALLHAVLLDF-------- 166
+ + + + L L+ + + G + + V L +
Sbjct: 128 KYNVSRLQPYLKL-----RQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDF 182
Query: 167 ----ISHSS-DSPDLMEVLEMLAPLPLLPFVHSKAGASVAMHIIWNATNKLKKKIVKELK 221
++ + +SP+ VLEML L + + + + +I + ++
Sbjct: 183 KIFWLNLKNCNSPE--TVLEMLQKLLYQIDPNWTSRSDHSSNIKLR---------IHSIQ 231
Query: 222 GHLRE-VATSEFGHLVLVTLLDNVDDTLLLK------KALLPELLAEVV-PLANHEYGRK 273
LR + + + + +LV L NV + K LL +V L+
Sbjct: 232 AELRRLLKSKPYENCLLV--LLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHI 289
Query: 274 VIAHLVSWCDPGFFHPTCIAHVKSGDEFS--TSKKDRDIRNKEILEAVS-EPL-LSSIA- 328
+ H + + +D+ E ++ P LS IA
Sbjct: 290 SLDHH----SMTLTPD------EVKSLLLKYLDCRPQDLPR----EVLTTNPRRLSIIAE 335
Query: 329 --KDA----DFWLSTGSVAMVTAVILK-NALGPG-LKEAFDSVA----NVIV-------- 368
+D D W + T + N L P ++ FD ++ + +
Sbjct: 336 SIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLI 395
Query: 369 --DLERRVPLELKKDFASGNK---NKQKKA--------AQQNKGGEKNQTAQGKKGTEG- 414
D+ + + + KQ K + K +N+ A + +
Sbjct: 396 WFDVIKSDVMVVVNKLH--KYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHY 453
Query: 415 KKEAGNEKEEETTP-----FIEHPGFHTVLKKLLQHDRDNVAKELPTLSESIVAKASKEV 469
+ ++ P F H G H LK + +R +
Sbjct: 454 NIPKTFDSDDLIPPYLDQYFYSHIGHH--LKNIEHPERMT---LFRMV-----------F 497
Query: 470 LDFWTKCNRACFILVLILESGMESCVSELKSKLSPFKTKLSSQKFSGAKVLLIVPRNFRL 529
LDF R F+ I S L KF + P+ RL
Sbjct: 498 LDF-----R--FLEQKIRHDSTAWNAS------GSILNTLQQLKFYKPYICDNDPKYERL 544
Query: 530 LEELEH 535
+ +
Sbjct: 545 VNAILD 550
Score = 58.3 bits (140), Expect = 9e-09
Identities = 101/749 (13%), Positives = 206/749 (27%), Gaps = 246/749 (32%)
Query: 1 MGQIVFSHDMSRIIQWLLKLSSPQMKKDI-VKELLPFTVAMIKSKYSNALVKHMLKSGDE 59
G+ + I+ + K++ KS S + H++ S D
Sbjct: 11 TGEH--QYQYKDILSVFE----DAFVDNFDCKDVQDMP----KSILSKEEIDHIIMSKDA 60
Query: 60 NTKN----EIIKALQPHVVTLLSHTTASPVLMYAHDQVASPAQKLAMRQELYGGLYESTG 115
+ + + Q +V VL + + SP + + + +Y
Sbjct: 61 VSGTLRLFWTLLSKQEEMVQKFVEE----VLRINYKFLMSPIKTEQRQPSMMTRMYIEQR 116
Query: 116 DKKINCLGDIFEQ----SPEMKTAILSVTKKTILKSLQKTQ---VTG------SALLHAV 162
D+ N +F + + + + L L+ + + G + + V
Sbjct: 117 DRLYND-NQVFAKYNVSRLQPYLKL-----RQALLELRPAKNVLIDGVLGSGKTWVALDV 170
Query: 163 LLDFISHSSDSPDLMEVLEMLAPLPLLPFVHSKAGASVAMHIIWNATNKLKKKIVKELKG 222
L + +V + F I W L
Sbjct: 171 CLSY-----------KVQCKM------DF-----------KIFW-------------LN- 188
Query: 223 HLREVATSEFGHLVLVTLLDNVDDTLLLKKALLPELLAEVVPLANHEYGRKVIAHLVSWC 282
+ ++ + L + + LL ++ ++H K+ H +
Sbjct: 189 ---------LKNC------NSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE 233
Query: 283 DPGFF----HPTC--IAHVKSGDEFSTSKKDRDIRNKEILEAV---SEPLLSSIAKD-AD 332
+ C + +++N + A + LL++ K D
Sbjct: 234 LRRLLKSKPYENCLLVL--------------LNVQNAKAWNAFNLSCKILLTTRFKQVTD 279
Query: 333 FWLSTGSVAMVTAVILKNALGPG-LKEAFDSVANVIV-DLERRV----PL------ELKK 380
F LS + ++ L P +K + DL R V P E +
Sbjct: 280 F-LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIR 338
Query: 381 DFASGNKNKQKKAAQQNKGGEKNQTAQGKKGTEGKKEAGNEKEEETTPFIEHPGFHTVLK 440
D + N K +K IE + L
Sbjct: 339 DGLATWDN--------------------------WKHVNCDKLTTI---IE-----SSLN 364
Query: 441 KLLQHDRDNVAKELPTLSESIVAKASKEVLD-FWTKCNRACFILVLILESGMESCVSELK 499
L + + L S A +L W +++S + V++L
Sbjct: 365 VLEPAEYRKMFDRLSVFPPS--AHIPTILLSLIWFD----------VIKSDVMVVVNKLH 412
Query: 500 SKLSPFKTKLSSQKFSGAKVLLIVPRNFRLLEELEHGQRGVGDGTISWGLENDDDMTLTH 559
L+ + + + ++ +++ L H
Sbjct: 413 KY------------------SLVEKQPKESTISI-P------SIYLELKVKLENEYAL-H 446
Query: 560 WTGMIIG---PPRTSTTGHIMDTI--------IGYIMSVLN--EILHLF--------WIS 598
I+ P+T + ++ IG+ + + E + LF ++
Sbjct: 447 --RSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLE 504
Query: 599 RKPDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEE-VKII--FAGKELE 655
+K I S N L+ ++ K I KYE V I F ++E
Sbjct: 505 QK------IRHDSTAWNASGSILNTLQQLKFYKPYICDNDP-KYERLVNAILDFL-PKIE 556
Query: 656 DTTIISE-CDLGQQSILHAVKSSPENNKI 683
+ I S+ DL + +++ E+ I
Sbjct: 557 ENLICSKYTDLLRIALMA------EDEAI 579
Score = 54.9 bits (131), Expect = 1e-07
Identities = 69/446 (15%), Positives = 125/446 (28%), Gaps = 132/446 (29%)
Query: 440 KKLLQHDRDNVAKEL-----PTLSESIVAKAS-KEVLDFWTKCNRACFILVLILESGMES 493
K +L D + +SI++K ++ + + +L E
Sbjct: 19 KDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQ-EE 77
Query: 494 CVSE------------LKSKL-------SPFKTKLSSQK---FSGAKVL--LIVPR---- 525
V + L S + S Q+ ++ +V V R
Sbjct: 78 MVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPY 137
Query: 526 -NFR-LLEELE-------HGQRGVG------------------DGTISW---GLENDDDM 555
R L EL G G G D I W N +
Sbjct: 138 LKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPET 197
Query: 556 TLTHWTGM--IIGPPRTSTTGHIMDTIIGYIMSVLNEILHLFWISRKPDNTLMI--NIKS 611
L + I P TS + H I I S+ E+ L S+ +N L++ N+++
Sbjct: 198 VLEMLQKLLYQIDPNWTSRSDH-SSNIKLRIHSIQAELRRLL-KSKPYENCLLVLLNVQN 255
Query: 612 N--------------TGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDT 657
T V ++ + + L +EVK + K L+
Sbjct: 256 AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLL-KYLD-- 312
Query: 658 TIISECDLGQQSILHAVKSSPENNKI--QKSKPMNSTLTDFHIQELDE-ESARSSSPDIT 714
DL ++ + ++P I + + +T ++ D+ + SS ++
Sbjct: 313 --CRPQDLPRE----VLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNV- 365
Query: 715 QEPVTPSKAHFYLRVRCAQCKSGAVIVDRDPQSWSDVLEPRQISCHCTEEHCTTGPVSWA 774
EP + F +V P + + W
Sbjct: 366 LEPAE-YRKMF---------DRLSVFPP-------SAHIPTILLS-----------LIWF 397
Query: 775 EFYFKCAQHVSANMNQVDECLPLSLV 800
+ V V++ SLV
Sbjct: 398 DVIKSDVMVV------VNKLHKYSLV 417
Score = 39.1 bits (90), Expect = 0.007
Identities = 35/217 (16%), Positives = 71/217 (32%), Gaps = 47/217 (21%)
Query: 575 HIMDTIIGYIMSVLNEILHLFWISRKPDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMI 634
H MD G +IL +F + + D ++V++M
Sbjct: 5 HHMDFETGEHQYQYKDILSVFEDAFVDN----------------------FDCKDVQDM- 41
Query: 635 APKLGLKYEEVKIIFAGKELEDTT---IISECDLGQQSILHAVKSSPENN------KIQK 685
PK L EE+ I K+ T + ++ + V+ N I+
Sbjct: 42 -PKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKT 100
Query: 686 SKPMNSTLTDFHIQELDEESARSSSPDITQEPVTPSKAHFYLRVRCAQCKSGA-VIVDRD 744
+ S +T +I++ D + + + V+ + + LR + + V++D
Sbjct: 101 EQRQPSMMTRMYIEQRDR--LYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGV 158
Query: 745 P---QSW--SDVLEPRQISCHCTEEHCTTGPVSWAEF 776
++W DV ++ C + W
Sbjct: 159 LGSGKTWVALDVCLSYKVQC------KMDFKIFWLNL 189
>1ttn_A DC-UBP, dendritic cell-derived ubiquitin-like protein;
ubiquitin-like domain, solution structure, signaling
protein; NMR {Homo sapiens} SCOP: d.15.1.1
Length = 106
Score = 62.5 bits (152), Expect = 4e-12
Identities = 12/82 (14%), Positives = 33/82 (40%)
Query: 600 KPDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTI 659
+ ++ +TG + + + + ++K + G++ + F+G+ L D
Sbjct: 19 NSGYECQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMK 78
Query: 660 ISECDLGQQSILHAVKSSPENN 681
E + + ++ + S P N
Sbjct: 79 FEELKIPKDYVVQVIVSQPVQN 100
>1wx8_A Riken cDNA 4931431F19; ubiquitin-like domain, ubiquilin 1-like,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus musculus}
SCOP: d.15.1.1
Length = 96
Score = 61.6 bits (150), Expect = 5e-12
Identities = 21/82 (25%), Positives = 40/82 (48%), Gaps = 2/82 (2%)
Query: 598 SRKPDNTLM-INIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELED 656
R+P + ++ +++K+ L S++R K+ I+ L + + +IF GK L D
Sbjct: 10 GREPSSRIIRVSVKTPQDCHE-FFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRD 68
Query: 657 TTIISECDLGQQSILHAVKSSP 678
I+S+ + S +H V S
Sbjct: 69 QDILSQRGILDGSTVHVVVRSH 90
>4dwf_A HLA-B-associated transcript 3; ubiquitin-like domain, BAT3 protein,
PF00240, structural GEN joint center for structural
genomics, JCSG; 1.80A {Homo sapiens} PDB: 1wx9_A
Length = 90
Score = 61.1 bits (149), Expect = 7e-12
Identities = 16/81 (19%), Positives = 40/81 (49%), Gaps = 1/81 (1%)
Query: 601 PDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTII 660
++L + +K+ T + +++ KE IA + + E+ ++I+ G+ L+D +
Sbjct: 2 EPDSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKL 61
Query: 661 SECDLGQQSILHAVKSSPENN 681
E ++ ++H V+ +P
Sbjct: 62 QEYNV-GGKVIHLVERAPPQT 81
>2hj8_A Interferon-induced 17 kDa protein; HR2873B, human ISG15, structure,
northeast structural genomics consortium, protein
structure initiative, NESG; NMR {Homo sapiens}
Length = 88
Score = 60.9 bits (148), Expect = 8e-12
Identities = 16/73 (21%), Positives = 33/73 (45%)
Query: 602 DNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIIS 661
D L I +++N G + + + ++K+ ++ G++ + + F GK LED +
Sbjct: 2 DEPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLG 61
Query: 662 ECDLGQQSILHAV 674
E L S +
Sbjct: 62 EYGLKPLSTVFMN 74
>1wx7_A Ubiquilin 3; ubiquitin-like domain, structural genomics, riken
structural genomics/proteomics initiative, RSGI, unknown
function; NMR {Homo sapiens} SCOP: d.15.1.1
Length = 106
Score = 61.6 bits (150), Expect = 8e-12
Identities = 15/93 (16%), Positives = 39/93 (41%), Gaps = 1/93 (1%)
Query: 600 KPDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTI 659
+ + + + +K+ ++ I+ +KE I+ + +++ +IFAGK L+D
Sbjct: 13 QDPHLIKVTVKTPKDKED-FSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDS 71
Query: 660 ISECDLGQQSILHAVKSSPENNKIQKSKPMNST 692
+++C + +H V + +
Sbjct: 72 LAQCGVRDGLTVHLVIKRQHRAMGNECPASGPS 104
>2ojr_A Ubiquitin; lanthide-binding TAG, terbium, TB, SAD phasing, protein
binding; 2.60A {Homo sapiens}
Length = 111
Score = 60.6 bits (147), Expect = 2e-11
Identities = 28/89 (31%), Positives = 51/89 (57%)
Query: 586 SVLNEILHLFWISRKPDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEV 645
+ + + WI + I +K+ TG T+ + ++P+ I NVK I K G+ ++
Sbjct: 17 ELYIDTNNDGWIEGDELLAMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQ 76
Query: 646 KIIFAGKELEDTTIISECDLGQQSILHAV 674
++IFAGK+LED +S+ ++ ++S LH V
Sbjct: 77 RLIFAGKQLEDGRTLSDYNIQKESTLHLV 105
>2dzi_A Ubiquitin-like protein 4A; GDX, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 81
Score = 59.6 bits (145), Expect = 2e-11
Identities = 15/74 (20%), Positives = 37/74 (50%)
Query: 601 PDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTII 660
+ + + +K+ G + + + +K++++ KL + + +++F GK L D +
Sbjct: 4 GSSGMQLTVKALQGRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADGKRL 63
Query: 661 SECDLGQQSILHAV 674
S+ +G S L+ V
Sbjct: 64 SDYSIGPNSKLNLV 77
>2xzm_9 RPS31E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_9
Length = 189
Score = 62.4 bits (151), Expect = 3e-11
Identities = 17/131 (12%), Positives = 42/131 (32%), Gaps = 11/131 (8%)
Query: 607 INIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIISECDLG 666
+ +K+ G T L+ + + ++K I+ +G + + + ++ G + +
Sbjct: 3 VQVKTLEGETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAPN-----TELVT 57
Query: 667 QQSILHAVKSSPENNKIQKSKPMNSTLTDFHIQELDEESARSSSPDITQEPVTPSKAHFY 726
+ K +K K + H + A + V+
Sbjct: 58 DDVTYYLSLKLLGGKKKKKKKSYTTKKKTKHRHVHTKLGALAFYKLENNGKVSL------ 111
Query: 727 LRVRCAQCKSG 737
+ C +C G
Sbjct: 112 QQKGCPKCGPG 122
>3m62_B UV excision repair protein RAD23; armadillo-like repeats, UBL
conjugation pathway, DNA damage, nucleus,
phosphoprotein; HET: 1PE; 2.40A {Saccharomyces
cerevisiae}
Length = 106
Score = 59.7 bits (145), Expect = 3e-11
Identities = 19/86 (22%), Positives = 46/86 (53%)
Query: 607 INIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIISECDLG 666
+ K+ V ++L+P++ I K +A + + ++K+I++GK L+D+ +SEC L
Sbjct: 4 LTFKNFKKEKVPLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQDSKTVSECGLK 63
Query: 667 QQSILHAVKSSPENNKIQKSKPMNST 692
+ + S ++ K + ++ ++
Sbjct: 64 DGDQVVFMVSQKKSTKTKVTERDPNS 89
>1ndd_A NEDD8, protein (ubiquitin-like protein NEDD8); proteolysis,
signaling protei; 1.60A {Homo sapiens} SCOP: d.15.1.1
PDB: 1r4m_I 1r4n_I* 1xt9_B 2ko3_A 3gzn_I* 2bkr_B 2nvu_I*
3dqv_A 1bt0_A
Length = 76
Score = 58.8 bits (143), Expect = 4e-11
Identities = 17/69 (24%), Positives = 41/69 (59%)
Query: 606 MINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIISECDL 665
+I +K+ TG + ++++P + +KE + K G+ ++ ++I++GK++ D ++ +
Sbjct: 2 LIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKI 61
Query: 666 GQQSILHAV 674
S+LH V
Sbjct: 62 LGGSVLHLV 70
>3phx_B Ubiquitin-like protein ISG15; OTU domain, DE-ubiquitinase,
DE-isgylase, hydrolase-protein complex; 1.60A {Homo
sapiens}
Length = 79
Score = 58.2 bits (141), Expect = 6e-11
Identities = 16/71 (22%), Positives = 33/71 (46%)
Query: 602 DNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIIS 661
D L I +++N G + + + ++K+ ++ G++ + + F GK LED +
Sbjct: 2 DEPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLG 61
Query: 662 ECDLGQQSILH 672
E L S +
Sbjct: 62 EYGLKPLSTVF 72
>4fbj_B NEDD8; effector-HOST target complex, glutamine deamidase, deamidati
bacterial effector, cell cycle-protein binding complex;
1.60A {Homo sapiens} PDB: 4f8c_B
Length = 88
Score = 58.1 bits (141), Expect = 9e-11
Identities = 17/69 (24%), Positives = 41/69 (59%)
Query: 606 MINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIISECDL 665
+I +K+ TG + ++++P + +KE + K G+ ++ ++I++GK++ D ++ +
Sbjct: 2 LIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKI 61
Query: 666 GQQSILHAV 674
S+LH V
Sbjct: 62 LGGSVLHLV 70
>2l7r_A Ubiquitin-like protein FUBI; structural genomics, PSI-biology,
protein structure initiati northeast structural genomics
consortium, NESG; NMR {Homo sapiens}
Length = 93
Score = 57.9 bits (140), Expect = 1e-10
Identities = 13/85 (15%), Positives = 30/85 (35%), Gaps = 2/85 (2%)
Query: 590 EILHLFWISRKPDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIF 649
H P ++ + ++ + + +K +A G+ E+ ++
Sbjct: 5 HHHHHHSSGLVPRGSMQLFVR--AQELHTFEVTGQETVAQIKAHVASLEGIAPEDQVVLL 62
Query: 650 AGKELEDTTIISECDLGQQSILHAV 674
AG LED + +C + + L
Sbjct: 63 AGAPLEDEATLGQCGVEALTTLEVA 87
>2bwf_A Ubiquitin-like protein DSK2; signaling protein, UBA, signaling
proteins; 1.15A {Saccharomyces cerevisiae} SCOP:
d.15.1.1 PDB: 2bwe_S
Length = 77
Score = 57.2 bits (139), Expect = 1e-10
Identities = 21/73 (28%), Positives = 35/73 (47%), Gaps = 1/73 (1%)
Query: 607 INIKSNTG-NTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIISECDL 665
+NI +G + VN+ P S + KE I G+ ++I++GK L+D + +
Sbjct: 5 LNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHI 64
Query: 666 GQQSILHAVKSSP 678
+H VKS P
Sbjct: 65 QDGHSVHLVKSQP 77
>1yqb_A Ubiquilin 3; structural genomics consortium, ubiquitin,
ubiquitin-like domain, structural genomics, signaling
protein SGC; 2.00A {Homo sapiens} SCOP: d.15.1.1
Length = 100
Score = 57.7 bits (140), Expect = 1e-10
Identities = 16/80 (20%), Positives = 37/80 (46%), Gaps = 1/80 (1%)
Query: 599 RKPDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTT 658
R + + + +K+ ++ I+ +KE I+ + +++ +IFAGK L+D
Sbjct: 17 RGSPHLIKVTVKTPKDKED-FSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPD 75
Query: 659 IISECDLGQQSILHAVKSSP 678
+++C + +H V
Sbjct: 76 SLAQCGVRDGLTVHLVIKRQ 95
>3u5c_F RP14, S2, YS8, 40S ribosomal protein S5; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3izb_F 3o30_D 3o2z_D 3u5g_F 3jyv_G*
2noq_F 1s1h_G 3iz6_F
Length = 225
Score = 59.4 bits (144), Expect = 1e-10
Identities = 6/68 (8%), Positives = 13/68 (19%)
Query: 607 INIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIISECDLG 666
++ + + + + E E + S D
Sbjct: 3 DTEAPVEVQEDFEVVEEFTPVVLATPIPEEVQQAQTEIKLFNKWSFEEVEVKDASLVDYV 62
Query: 667 QQSILHAV 674
Q V
Sbjct: 63 QVRQPIFV 70
>4eew_A Large proline-rich protein BAG6; ubiquitin-like fold, GP78-binding,
chaperone; 1.30A {Homo sapiens}
Length = 88
Score = 56.9 bits (138), Expect = 2e-10
Identities = 15/74 (20%), Positives = 38/74 (51%), Gaps = 1/74 (1%)
Query: 602 DNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIIS 661
++L + +K+ T + +++ KE IA + + E+ ++I+ G+ L+D +
Sbjct: 15 PDSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQ 74
Query: 662 ECDLGQQSILHAVK 675
E ++ ++H V+
Sbjct: 75 EYNV-GGKVIHLVE 87
>2klc_A Ubiquilin-1; ubiquitin-like, structural genomics, PSI-2, protein
structur initiative, northeast structural genomics
consortium, NESG; NMR {Homo sapiens}
Length = 101
Score = 57.4 bits (139), Expect = 2e-10
Identities = 15/81 (18%), Positives = 35/81 (43%), Gaps = 1/81 (1%)
Query: 598 SRKPDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDT 657
+ + + +K+ + S ++ KE I+ + +++ +IFAGK L+D
Sbjct: 19 FQGHPKIMKVTVKTPKEKEE-FAVPENSSVQQFKEEISKRFKSHTDQLVLIFAGKILKDQ 77
Query: 658 TIISECDLGQQSILHAVKSSP 678
+S+ + +H V +
Sbjct: 78 DTLSQHGIHDGLTVHLVIKTQ 98
>3dbh_I NEDD8; cell cycle, activating enzyme, apoptosis, membrane, UBL
conjugation pathway, ATP-binding, ligase, nucleotide-
binding, polymorphism; 2.85A {Homo sapiens} SCOP:
k.45.1.1 PDB: 3dbr_I 3dbl_I
Length = 88
Score = 56.6 bits (137), Expect = 2e-10
Identities = 18/77 (23%), Positives = 44/77 (57%)
Query: 598 SRKPDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDT 657
S +++I +K+ TG + ++++P + +KE + K G+ ++ ++I++GK++ D
Sbjct: 6 SVGSGGSMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDE 65
Query: 658 TIISECDLGQQSILHAV 674
++ + S+LH V
Sbjct: 66 KTAADYKILGGSVLHLV 82
>3m63_B Ubiquitin domain-containing protein DSK2; armadillo-like repeats,
UBL conjugation pathway, nucleus, phosphoprotein; HET:
1PE; 2.40A {Saccharomyces cerevisiae}
Length = 101
Score = 57.0 bits (138), Expect = 3e-10
Identities = 21/74 (28%), Positives = 34/74 (45%), Gaps = 1/74 (1%)
Query: 606 MINIKSNTGN-TVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIISECD 664
+NI +G VN+ P S + KE I G+ ++I++GK L+D +
Sbjct: 28 SLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYH 87
Query: 665 LGQQSILHAVKSSP 678
+ +H VKS P
Sbjct: 88 IQDGHSVHLVKSQP 101
>3v71_A PUF (pumilio/FBF) domain-containing protein 7, CO transcript
evidence; PUF repeats, RNA binding protein-RNA complex;
HET: EPE; 2.90A {Caenorhabditis elegans}
Length = 382
Score = 62.0 bits (150), Expect = 3e-10
Identities = 42/312 (13%), Positives = 104/312 (33%), Gaps = 31/312 (9%)
Query: 2 GQIV-FSHDM--SRIIQWLLKLSSPQMKKD----IVKELLPFTVAMIKSKYSNALVKHML 54
GQ++ F+ D + ++ L S + E V + S+ N +V+ ++
Sbjct: 20 GQLIDFAIDPSGVKFLEANYPLDSEDQIRKAVFEKFTESTTLFVGLCHSRNGNFIVQKLV 79
Query: 55 KSGDENTKNEII-KALQPHVVTLLSHTTASPVLMYAHDQVASPAQKLAMRQELYGGLYES 113
+ + E++ + + ++ + A V+ A + +++ L
Sbjct: 80 ELATPAEQRELLRQMIDGGLLAMCKDKFACRVVQLALQKFDHSNVFQLIQELSTFDLAAM 139
Query: 114 TGDKKIN-CLGDIFEQSPEMKTAILSVTKKTILKSLQKTQVTGSALLHAVLLDFISHSSD 172
D+ + + +Q P + + Q L ++D ++ +
Sbjct: 140 CTDQISIHVIQRVVKQLPVDMWTFFVHFLSSGDSLMAVCQDKYGCRLVQQVIDRLAENPK 199
Query: 173 SPDLMEVLEMLAPLP------LLPFVHSKAGASVAMHIIWNATNKLKKK---IVKELKGH 223
P +++L L ++ V ++I ++ + I K L +
Sbjct: 200 LPCFKFRIQLLHSLMTCIVRNCYRLSSNEFANYVIQYVIKSSGIMEMYRDTIIDKCLLRN 259
Query: 224 LREVATSEFGHLVLVTLLDNVDDTLLLKKALLPELLAEVVP-----------LANHEYGR 272
L ++ ++ V+ L ++ E+ + V L H+YG
Sbjct: 260 LLSMSQDKYASHVIEGAFLFAPPAL--LHEMMEEIFSGYVKDVESNRDALDILLFHQYGN 317
Query: 273 KVIAHLVSWCDP 284
V+ ++S C
Sbjct: 318 YVVQQMISICTA 329
Score = 56.6 bits (136), Expect = 1e-08
Identities = 47/328 (14%), Positives = 118/328 (35%), Gaps = 61/328 (18%)
Query: 1 MGQIVFSHDMSRIIQWLLKLSSPQMKKDIVKELL-PFTVAMIKSKYSNALVKHMLKSGDE 59
+ S + + I+Q L++L++P +++++++++ +AM K K++ +V+ L+ D
Sbjct: 62 FVGLCHSRNGNFIVQKLVELATPAEQRELLRQMIDGGLLAMCKDKFACRVVQLALQKFDH 121
Query: 60 NTKNEIIK-ALQPHVVTLLSHTTA------------SPVLMYAHDQVASPAQKLAMRQEL 106
+ ++I+ + + + + + + ++S +A+ Q+
Sbjct: 122 SNVFQLIQELSTFDLAAMCTDQISIHVIQRVVKQLPVDMWTFFVHFLSSGDSLMAVCQDK 181
Query: 107 YGGLYESTGDKKINCLGDIFEQSPEMKTAILSVTKKTILKSLQKTQVTGSALL------H 160
YG + + ++ E + +L SL V L +
Sbjct: 182 YGCR----------LVQQVIDRLAENPKLPCFKFRIQLLHSLMTCIVRNCYRLSSNEFAN 231
Query: 161 AVLLDFISHSS--DSPDLMEVLEMLAPLPLLPFVHSKAGASVAMHIIWNATNKLKKKIVK 218
V+ I S + + + L LL K + V A L ++++
Sbjct: 232 YVIQYVIKSSGIMEMYRDTIIDKCLLRN-LLSMSQDKYASHVIEGAFLFAPPALLHEMME 290
Query: 219 EL-----------KGHLREVATSEFGHLVLVTLLDNVDDTLL--LKKALLPEL------- 258
E+ + L + ++G+ V+ ++ L+ ++ L P +
Sbjct: 291 EIFSGYVKDVESNRDALDILLFHQYGNYVVQQMISICTAALIGKEERELPPAILLLYSGW 350
Query: 259 ----LAEVVP----LANHEYGRKVIAHL 278
V+ L G+K+I +
Sbjct: 351 YEKMKQRVLQHASRLERFSSGKKIIDSV 378
>1j8c_A Ubiquitin-like protein hplic-2; ubiquitin-like domain, structural
genomics; NMR {Homo sapiens} SCOP: d.15.1.1
Length = 125
Score = 57.5 bits (139), Expect = 3e-10
Identities = 16/97 (16%), Positives = 36/97 (37%), Gaps = 1/97 (1%)
Query: 601 PDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTII 660
+ + +K+ + S ++ KE I+ + + +++ +IFAGK L+D +
Sbjct: 29 EPKIIKVTVKTPKE-KEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTL 87
Query: 661 SECDLGQQSILHAVKSSPENNKIQKSKPMNSTLTDFH 697
+ + +H V N+ H
Sbjct: 88 IQHGIHDGLTVHLVIKRDPNSSSVDKYAAALEHHHHH 124
>1sif_A Ubiquitin; hydrophobic mutants, folding, stability, structural
protein; 2.18A {Homo sapiens} SCOP: d.15.1.1
Length = 88
Score = 56.2 bits (136), Expect = 3e-10
Identities = 27/71 (38%), Positives = 45/71 (63%)
Query: 604 TLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIISEC 663
L + IK+ TG T V ++P+ I N+K I K G+ ++ ++IFAGK+LED +S+
Sbjct: 9 GLQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 68
Query: 664 DLGQQSILHAV 674
++ ++S LH V
Sbjct: 69 NIQKESTLHLV 79
>2wyq_A HHR23A, UV excision repair protein RAD23 homolog A; DNA binding
protein, DNA excision repair, proteasomal degrad
polyubiquitin; 1.65A {Homo sapiens} PDB: 1p98_A 1p9d_U
1p1a_A
Length = 85
Score = 55.7 bits (135), Expect = 4e-10
Identities = 16/81 (19%), Positives = 36/81 (44%), Gaps = 3/81 (3%)
Query: 601 PDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKY---EEVKIIFAGKELEDT 657
+ I +K+ T + ++P ++ +KE I + G K+I+AGK L D
Sbjct: 2 IPMAVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDD 61
Query: 658 TIISECDLGQQSILHAVKSSP 678
I + + +++ + + +
Sbjct: 62 VPIRDYRIDEKNFVVVMVTKT 82
>1uel_A HHR23B, UV excision repair protein RAD23 homolog B; UBL, UIM, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; NMR {Homo sapiens} SCOP: d.15.1.1
Length = 95
Score = 55.8 bits (135), Expect = 6e-10
Identities = 18/75 (24%), Positives = 38/75 (50%), Gaps = 3/75 (4%)
Query: 607 INIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKY---EEVKIIFAGKELEDTTIISEC 663
+ +K+ T +++DP ++ +KE I + G K+I+AGK L D T + E
Sbjct: 3 VTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEY 62
Query: 664 DLGQQSILHAVKSSP 678
+ +++ + + + P
Sbjct: 63 KIDEKNFVVVMVTKP 77
>3a9j_A Ubiquitin; protein complex, cytoplasm, isopeptide bond,
metal-binding, zinc; 1.18A {Mus musculus} PDB: 3a1q_B
2znv_B 3a9k_A 3h7p_A 3jsv_A 3dvg_Y 3dvn_Y 3nob_A 2o6v_D*
3jw0_X 3jvz_X 3nhe_B* 1aar_A 1d3z_A 1f9j_A 1fxt_B 1g6j_A
1nbf_C 1cmx_B 1q5w_B ...
Length = 76
Score = 54.6 bits (132), Expect = 1e-09
Identities = 26/68 (38%), Positives = 45/68 (66%)
Query: 607 INIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIISECDLG 666
I +K+ TG T+ + ++P+ I NVK I K G+ ++ ++IFAGK+LED +S+ ++
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQ 62
Query: 667 QQSILHAV 674
++S LH V
Sbjct: 63 RESTLHLV 70
>3mtn_B UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquitin-specific
protease activity, hydrolase, ubiquitin B structural
genomics consortium, SGC; 2.70A {Homo sapiens}
Length = 85
Score = 54.7 bits (132), Expect = 1e-09
Identities = 24/70 (34%), Positives = 44/70 (62%)
Query: 603 NTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIISE 662
+ + I +K+ TG T+ + ++P+ I NVK I K G+ ++ ++IFAGK+LED +S+
Sbjct: 2 SHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 61
Query: 663 CDLGQQSILH 672
++ + S L
Sbjct: 62 YNIQKWSTLF 71
>3u5e_m 60S ribosomal protein L40; translation, ribosome, ribosomal R
ribosomal protein, STM1, eukaryotic ribosome; 3.00A
{Saccharomyces cerevisiae} PDB: 3u5i_m 4a18_K 4a19_K
4a1b_K 4a1d_K 4adx_5 3izc_p 3izs_p 3iz5_p 3izr_p
Length = 128
Score = 55.8 bits (134), Expect = 2e-09
Identities = 25/68 (36%), Positives = 44/68 (64%)
Query: 607 INIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIISECDLG 666
I +K+ TG T+ + ++ + I NVK I K G+ ++ ++IFAGK+LED +S+ ++
Sbjct: 3 IFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQ 62
Query: 667 QQSILHAV 674
++S LH V
Sbjct: 63 KESTLHLV 70
>1yx5_B Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo sapiens} SCOP:
d.15.1.1 PDB: 1yx6_B
Length = 98
Score = 54.0 bits (130), Expect = 3e-09
Identities = 26/68 (38%), Positives = 45/68 (66%)
Query: 607 INIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIISECDLG 666
I +K+ TG T+ + ++P+ I NVK I K G+ ++ ++IFAGK+LED +S+ ++
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQ 62
Query: 667 QQSILHAV 674
++S LH V
Sbjct: 63 KESTLHLV 70
>3n3k_B Ubiquitin; hydrolase, protease, thiol protease, DUB, zinc ribbon,
inhibitor, ubiqu acetylation, cytoplasm, isopeptide
bond, nucleus; 2.60A {Homo sapiens}
Length = 85
Score = 53.5 bits (129), Expect = 3e-09
Identities = 23/70 (32%), Positives = 43/70 (61%)
Query: 603 NTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIISE 662
+ + I +K+ G T+ + ++P+ I NVK I K G+ ++ ++IFAGK+LED +S+
Sbjct: 2 SHMRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 61
Query: 663 CDLGQQSILH 672
++ S L+
Sbjct: 62 YNIHNHSALY 71
>3k9o_B Ubiquitin, UBB+1; E2-25K, complex structure, ATP-binding,
isopeptide BO ligase, nucleotide-binding, UBL
conjugation pathway; 1.80A {Homo sapiens} PDB: 2k25_A
2kx0_A
Length = 96
Score = 53.6 bits (129), Expect = 4e-09
Identities = 26/68 (38%), Positives = 45/68 (66%)
Query: 607 INIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIISECDLG 666
I +K+ TG T+ + ++P+ I NVK I K G+ ++ ++IFAGK+LED +S+ ++
Sbjct: 4 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQ 63
Query: 667 QQSILHAV 674
++S LH V
Sbjct: 64 KESTLHLV 71
>2kk8_A Uncharacterized protein AT4G05270; solution arabidopsis thaliana,
uncharacterized putative protein, NESG, structural
genomics; NMR {Arabidopsis thaliana}
Length = 84
Score = 53.0 bits (128), Expect = 4e-09
Identities = 12/76 (15%), Positives = 31/76 (40%), Gaps = 1/76 (1%)
Query: 603 NTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKE-LEDTTIIS 661
+ + +++ G++ + +D + VK+ I + + +I G L + +
Sbjct: 9 SHMKFLVENLNGSSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILREDLTVE 68
Query: 662 ECDLGQQSILHAVKSS 677
+C + S + SS
Sbjct: 69 QCQIVPTSDIQLEVSS 84
>1wh3_A 59 kDa 2'-5'-oligoadenylate synthetase like protein; P59 OASL,
ubiquitin family, structural genomics; NMR {Homo
sapiens} SCOP: d.15.1.1
Length = 87
Score = 52.8 bits (127), Expect = 6e-09
Identities = 14/72 (19%), Positives = 33/72 (45%)
Query: 601 PDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTII 660
+ + + +K+ G + ++P S I +K+ I + GL ++ ++ F G+ L+D +
Sbjct: 4 GSSGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGL 63
Query: 661 SECDLGQQSILH 672
+ L
Sbjct: 64 GIYGIQDSDTLI 75
>1oqy_A HHR23A, UV excision repair protein RAD23 homolog A; DNA repair,
proteasome-mediated degradation, protein- protein
interaction, replication; NMR {Homo sapiens} SCOP:
a.5.2.1 a.5.2.1 a.189.1.1 d.15.1.1 PDB: 1qze_A 1tp4_A
Length = 368
Score = 57.3 bits (137), Expect = 7e-09
Identities = 19/129 (14%), Positives = 48/129 (37%), Gaps = 7/129 (5%)
Query: 602 DNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKY---EEVKIIFAGKELEDTT 658
+ + I +K+ T + ++P ++ +KE I + G K+I+AGK L D
Sbjct: 5 SSAVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDV 64
Query: 659 IISECDLGQQSILH----AVKSSPENNKIQKSKPMNSTLTDFHIQELDEESARSSSPDIT 714
I + + +++ + K+ + ++ P + + P
Sbjct: 65 PIRDYRIDEKNFVVVMVTKTKAGQGTSAPPEASPTAAPESSTSFPPAPTSGMSHPPPAAR 124
Query: 715 QEPVTPSKA 723
++ ++
Sbjct: 125 EDKSPSEES 133
>2kdi_A Ubiquitin, vacuolar protein sorting-associated protein 27 fusion
protein; ubiquitin interacting motif, UIM, protein
domain interface; NMR {Saccharomyces cerevisiae}
Length = 114
Score = 52.5 bits (126), Expect = 1e-08
Identities = 24/76 (31%), Positives = 43/76 (56%)
Query: 599 RKPDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTT 658
I K+ TG T+ + ++ + I NVK I K G+ ++ ++I+AGK+LED
Sbjct: 4 HHHHGEFQIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGR 63
Query: 659 IISECDLGQQSILHAV 674
+S+ ++ ++S LH V
Sbjct: 64 TLSDYNIQRESTLHLV 79
>3l0w_B Monoubiquitinated proliferating cell nuclear antigen, proliferating
cell nuclear antigen; replication, DNA damage, DNA
repair; 2.80A {Saccharomyces cerevisiae} PDB: 3l10_B
Length = 169
Score = 53.8 bits (129), Expect = 2e-08
Identities = 29/122 (23%), Positives = 52/122 (42%)
Query: 607 INIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIISECDLG 666
I +K+ TG T+ + ++ + I NVK I K G+ ++ ++IFAGK+LED +S+ ++
Sbjct: 3 IFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQ 62
Query: 667 QQSILHAVKSSPENNKIQKSKPMNSTLTDFHIQELDEESARSSSPDITQEPVTPSKAHFY 726
++S LH V + + + I E P F
Sbjct: 63 KESTLHLVLRLRGGGGETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLEMDQPVDLTFG 122
Query: 727 LR 728
+
Sbjct: 123 AK 124
Score = 30.3 bits (68), Expect = 1.7
Identities = 13/68 (19%), Positives = 24/68 (35%), Gaps = 3/68 (4%)
Query: 591 ILHLFWISRKPDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFA 650
LHL R + + + V + P D+ + + I ++ + V + F
Sbjct: 66 TLHLVLRLRGGGGETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLEMD---QPVDLTFG 122
Query: 651 GKELEDTT 658
K L D
Sbjct: 123 AKYLLDII 130
>2kd0_A LRR repeats and ubiquitin-like domain-containing protein AT2G30105;
ubiquitin-like protein, NESG, leucine-rich repeat,
structural genomics; NMR {Arabidopsis thaliana}
Length = 85
Score = 50.4 bits (121), Expect = 3e-08
Identities = 17/78 (21%), Positives = 40/78 (51%), Gaps = 1/78 (1%)
Query: 599 RKPDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTT 658
+T+ + +K G ++ +++ P ++++K + P + K+IF GK L +T+
Sbjct: 7 HHSHSTIKLTVKFG-GKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVETS 65
Query: 659 IISECDLGQQSILHAVKS 676
+ + D+G + L + S
Sbjct: 66 TLKQSDVGSGAKLMLMAS 83
>1wy8_A NP95-like ring finger protein, isoform A; ubiquitin-like domain,
NP95/ICBP90-like ring finger (NIRF), ubiquitin ligase,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.15.1.1
Length = 89
Score = 50.5 bits (121), Expect = 4e-08
Identities = 13/78 (16%), Positives = 37/78 (47%), Gaps = 2/78 (2%)
Query: 599 RKPDNTLMINIKSNTGNTVCV--NLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELED 656
+ + I +++ G+ C ++ + I ++E + ++ E ++ + GK+LE+
Sbjct: 2 SSGSSGMWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLEN 61
Query: 657 TTIISECDLGQQSILHAV 674
+ + D+G I+ +
Sbjct: 62 GYTLFDYDVGLNDIIQLL 79
>1we7_A SF3A1 protein; structural genomics, ubiquitin-like domain, riken
structural genomics/proteomics initiative, RSGI, gene
regulation; NMR {Mus musculus} SCOP: d.15.1.1 PDB:
1zkh_A
Length = 115
Score = 50.6 bits (121), Expect = 6e-08
Identities = 11/75 (14%), Positives = 29/75 (38%), Gaps = 7/75 (9%)
Query: 600 KPDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTI 659
K + L G + L + +K I G+ + K+ + G ++D+
Sbjct: 38 KTEWKL-------NGQGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNS 90
Query: 660 ISECDLGQQSILHAV 674
++ ++ +++H
Sbjct: 91 LAYYNMASGAVIHLA 105
>3u30_A Ubiquitin, linear DI-ubiquitin; immune system; 2.43A {Homo sapiens}
Length = 172
Score = 51.6 bits (123), Expect = 1e-07
Identities = 30/109 (27%), Positives = 55/109 (50%), Gaps = 1/109 (0%)
Query: 589 NEILHLFWISRKPDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKII 648
+ H + + + I +K+ TG T+ + ++P+ I NVK I K G+ ++ ++I
Sbjct: 6 HHHHHSSGL-VPRGSHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLI 64
Query: 649 FAGKELEDTTIISECDLGQQSILHAVKSSPENNKIQKSKPMNSTLTDFH 697
FAGK+LED +S+ ++ ++S LH V +I T+T
Sbjct: 65 FAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEV 113
Score = 43.5 bits (102), Expect = 5e-05
Identities = 25/78 (32%), Positives = 47/78 (60%)
Query: 595 FWISRKPDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKEL 654
+ + + I +K+ TG T+ + ++P+ I NVK I K G+ ++ ++IFAGK+L
Sbjct: 87 LHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL 146
Query: 655 EDTTIISECDLGQQSILH 672
ED +S+ ++ ++S LH
Sbjct: 147 EDGRTLSDYNIQKESTLH 164
>3rt3_B Ubiquitin-like protein ISG15; ubiquitin-like domain, isgylation,
antiviral protein-viral P complex; 2.01A {Homo sapiens}
PDB: 3sdl_C 3r66_C 3pse_B 1z2m_A
Length = 159
Score = 50.7 bits (121), Expect = 1e-07
Identities = 17/80 (21%), Positives = 36/80 (45%)
Query: 593 HLFWISRKPDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGK 652
+ + K D L I +++N G + + + ++K+ ++ G++ + + F GK
Sbjct: 70 TVLLVVDKSDEPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGK 129
Query: 653 ELEDTTIISECDLGQQSILH 672
LED + E L S +
Sbjct: 130 PLEDQLPLGEYGLKPLSTVF 149
Score = 46.9 bits (111), Expect = 3e-06
Identities = 16/78 (20%), Positives = 33/78 (42%), Gaps = 2/78 (2%)
Query: 607 INIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIF--AGKELEDTTIISECD 664
+ +K GN V+L + + +K I K+G+ + ++ +G L+D ++
Sbjct: 5 LTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQG 64
Query: 665 LGQQSILHAVKSSPENNK 682
LG S + V +
Sbjct: 65 LGPGSTVLLVVDKSDEPL 82
>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 = 54.3 bits (130), Expect = 1e-07
Identities = 97/571 (16%), Positives = 166/571 (29%), Gaps = 192/571 (33%)
Query: 68 ALQPHVVTL----LSHTTASPVLMYAHDQVASPAQKLAMRQELYGGLYESTGDKKINCLG 123
+ +P +TL L H P + A +L +++ L E T
Sbjct: 5 STRP--LTLSHGSLEHVLLVPTASFFI------ASQL--QEQFNKILPEPTEGF---AAD 51
Query: 124 DIFEQSPEMKTAILSVTKKTILKSLQKTQVTGSALLHAVLLDFIS--------HS----- 170
D E+ L + S +L+ L +F + H+
Sbjct: 52 DEPTTPAELVGKFLGYVSSLVEPS---KVGQFDQVLNLCLTEFENCYLEGNDIHALAAKL 108
Query: 171 --SDSPDLMEVLEMLA-----------PLPLLP----FVHSKAGASVAMHI--------- 204
+ L++ E++ P F G + + I
Sbjct: 109 LQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDD 168
Query: 205 -------IWNATNKLKKKIVKELKGHLREVATSE------FGH-LVLVTLLDNVD---DT 247
++ + L ++K L E+ + F L ++ L+N D
Sbjct: 169 YFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDK 228
Query: 248 LLLKKAL--LPELLAEVVPLANHEYGRKVIAHLVSWCDPGFFHP---------------T 290
L P L V+ LA+ Y V A L+ + PG
Sbjct: 229 DYLLSIPISCP--LIGVIQLAH--Y--VVTAKLLGF-TPGELRSYLKGATGHSQGLVTAV 281
Query: 291 CIAHVKSGDEFSTSKKDRDIRNKEIL--------EAVSEPLLS-SIAKDADFWLSTG--- 338
IA S + F + +L EA L SI +D+ L
Sbjct: 282 AIAETDSWESF----FVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDS---LENNEGV 334
Query: 339 -----SV-----AMVTAVILK-NALGPGLKEAFDSVAN----VIV-----DLERRVPLEL 378
S+ V + K N+ P K+ S+ N ++V L + L L
Sbjct: 335 PSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSL-YGLNLTL 393
Query: 379 KKDFASGNKNKQKKAAQQNKGGEKNQTAQGKKGTEGKKEAGNEKEEETTPF--IEHPGFH 436
+K A + Q++ +E K + N F + P FH
Sbjct: 394 RKAKAPSGLD-------QSR----------IPFSERKLKFSNR-------FLPVASP-FH 428
Query: 437 TVL----KKLLQHD--RDNV---AKEL--P-----------TLSESIVAKASKEVLD--- 471
+ L L+ D ++NV AK++ P LS SI + ++
Sbjct: 429 SHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPV 488
Query: 472 FWTKCNRACFILVLILESGMESCVSELKSKL 502
W + +L G S + L +
Sbjct: 489 KWETTTQFKATHILDFGPGGASGLGVLTHRN 519
Score = 52.4 bits (125), Expect = 7e-07
Identities = 96/573 (16%), Positives = 160/573 (27%), Gaps = 223/573 (38%)
Query: 333 FWLSTGSVAMVTAVILKNALGPG---LKEAFDSV-----ANVIVDLERRVPLELKKDF-- 382
LS GS+ +++ A L+E F+ + D E P EL F
Sbjct: 9 LTLSHGSLE--HVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLG 66
Query: 383 --ASGNKNKQKKAAQQNKGGEKNQTAQGKKGTEGKKEAGNEKEEETTPFIEHPGFHTVLK 440
+S + +K G+ +Q E E ++E H +
Sbjct: 67 YVSS--------LVEPSKVGQFDQVL---------NLCLTEFENC---YLEGNDIHALAA 106
Query: 441 KLLQHDRDNVAK-----------------ELPTLSESIVAKASKEVLDFWTKCNRACFIL 483
KLLQ + + K S S + +A E A +
Sbjct: 107 KLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGE--------GNAQLVA 158
Query: 484 VLILESG----MESCVSEL-------KSKLSPFKT-------KLSSQKFSGAKVLLIVPR 525
+ G + EL + +L KV +
Sbjct: 159 IF----GGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVF---TQ 211
Query: 526 NFRLLEELEHGQRGVGDG-----TISW---GLENDDDMTLTHW--TGMIIG-PPR----- 569
+LE LE+ IS G+ + L H+ T ++G P
Sbjct: 212 GLNILEWLENPSNTPDKDYLLSIPISCPLIGV-----IQLAHYVVTAKLLGFTPGELRSY 266
Query: 570 -TSTTGHIMDTIIGYIMSV----------LNEILH-LFWI-----------SRKP----- 601
TGH + ++ + + + LF+I S P
Sbjct: 267 LKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILED 326
Query: 602 --DN-----TLMINI-------------KSNT----GNTVCVNL-----------DPAS- 625
+N + M++I K+N+ G V ++L P S
Sbjct: 327 SLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSL 386
Query: 626 -----DIRNVKEMIAPKLGL-----KYEEVKIIFAG-----------KELEDTTIISECD 664
+R K AP GL + E K+ F+ L + + D
Sbjct: 387 YGLNLTLRKAK---APS-GLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKD 442
Query: 665 LGQQSILHAVKSSPENNKIQKSKPMNSTLTDFHIQELDEESARSSSPDITQEPV-----T 719
L + ++ K +I P+ T ++ L + I + PV T
Sbjct: 443 LVKNNVSFNAKDI----QI----PVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTT 494
Query: 720 PSKA-HFYLRVRCAQCKSGAVIVDRDPQSWSDV 751
KA H I+D P S +
Sbjct: 495 QFKATH---------------ILDFGPGGASGL 512
Score = 47.0 bits (111), Expect = 3e-05
Identities = 57/336 (16%), Positives = 101/336 (30%), Gaps = 125/336 (37%)
Query: 97 AQKLAMRQELYGGLYESTGDKKI---------NCLG----DIFEQSPEMKTAILSVTKKT 143
+Q+ M +LY S + + + G DI +P T
Sbjct: 1626 SQEQGMGMDLYK---TSKAAQDVWNRADNHFKDTYGFSILDIVINNP---------VNLT 1673
Query: 144 ILKSLQKTQVTG---SALLHAVLLDFISHSSDSPDLMEVLEMLAPLPLLPFVHSKAG--- 197
I +K + SA++ ++D E+ E F K
Sbjct: 1674 IHFGGEKGKRIRENYSAMIFETIVD--GKLKTEKIFKEINE---HSTSYTFRSEKGLLSA 1728
Query: 198 ------ASVAMHI-IWNATNKLKKK-IVKELK---GH-LRE----VATSEFGHLVLVTLL 241
A M + LK K ++ GH L E + ++ V+
Sbjct: 1729 TQFTQPALTLMEKAAFED---LKSKGLIPADATFAGHSLGEYAALASLAD----VM---- 1777
Query: 242 DNVDDTL-LLKK-ALLPELLAEVVPLANHEYGRK---VIAHLVSWCDPGFFHPTCIAHVK 296
+++ + ++ + VP E GR +IA +PG +
Sbjct: 1778 -SIESLVEVVFYRG---MTMQVAVP--RDELGRSNYGMIA-----INPGRVAASF----- 1821
Query: 297 SGDEFSTSKKDRDIRNKEILEAVSEPLLSSIAKDADFWLSTGSVAMVTAVILKN------ 350
++E L+ V E + K TG + V V N
Sbjct: 1822 ---------------SQEALQYVVE----RVGKR------TGWL--VEIV---NYNVENQ 1851
Query: 351 --ALGPGLKEAFDSVANVIVDL-ERRVPL-ELKKDF 382
G A D+V NV+ + +++ + EL+K
Sbjct: 1852 QYVAA-GDLRALDTVTNVLNFIKLQKIDIIELQKSL 1886
Score = 42.7 bits (100), Expect = 6e-04
Identities = 48/322 (14%), Positives = 95/322 (29%), Gaps = 123/322 (38%)
Query: 574 GHIMDTI----IGYIMSVLNEILHLFWISRKPDNTLMINIKSNTGN---TVCVNLDPASD 626
G++ + +G VLN L F +N + GN + L +D
Sbjct: 66 GYVSSLVEPSKVGQFDQVLNLCLTEF------ENCYL------EGNDIHALAAKLLQEND 113
Query: 627 --IRNVKEMI------------------APKL--GLKYEEVKI--IFAG--------KEL 654
+ KE+I L + ++ IF G +EL
Sbjct: 114 TTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEEL 173
Query: 655 ED-----TTIISE-CDLGQQSILHAVKSSPENNKI-QKSKPMNSTLTDFHIQE-LDEESA 706
D ++ + +++ ++++ + K+ + +I E L+ S
Sbjct: 174 RDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQG---------LNILEWLENPSN 224
Query: 707 RSSSPDITQEPVT-P-----SKAHFYLRVRCAQCKSGAVIVDRDPQSWSDVLEPRQISCH 760
+ P++ P AH+ K ++ P E R
Sbjct: 225 TPDKDYLLSIPISCPLIGVIQLAHYV-----VTAK----LLGFTPG------ELRSYLKG 269
Query: 761 CTEEHCTTGPV---------SWAEFY----------FKC---AQHVSANMNQVDECLPLS 798
T + G V SW F+ F N + LP S
Sbjct: 270 ATG--HSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTS-----LPPS 322
Query: 799 LVTSNVR---KIPC--LACTDV 815
++ ++ +P L+ +++
Sbjct: 323 ILEDSLENNEGVPSPMLSISNL 344
Score = 37.7 bits (87), Expect = 0.021
Identities = 47/286 (16%), Positives = 85/286 (29%), Gaps = 118/286 (41%)
Query: 38 VAMIKSKYSN-ALVKHMLKSGDENTKNEIIKALQPHVVTLLSHTTASPVLMYAHDQVASP 96
M Y + + D + K+ ++ +V +PV + H
Sbjct: 1629 QGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSIL-DIVI------NNPVNLTIH---FGG 1678
Query: 97 AQKLAMRQELYGGL-YESTGDKKINCLGDIFEQSPEMKTAI--------LSVTKKT---- 143
+ +R E Y + +E+ D K+ IF++ E T+ LS T+ T
Sbjct: 1679 EKGKRIR-ENYSAMIFETIVDGKLKTE-KIFKEINEHSTSYTFRSEKGLLSATQFTQPAL 1736
Query: 144 ------ILKSLQKTQVT-----------G--SALLH-AVLLDFISHSSDSPDLMEVLE-- 181
+ L+ + G +AL A ++ L+EV+
Sbjct: 1737 TLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSI-------ESLVEVVFYR 1789
Query: 182 -------------------MLAPLP----------LLPFVHSK----------------- 195
M+A P L +V +
Sbjct: 1790 GMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVE 1849
Query: 196 ------AGASVAMHIIWNATNKLK-KKI----------VKELKGHL 224
AG A+ + N N +K +KI ++E++GHL
Sbjct: 1850 NQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLEEVEGHL 1895
Score = 37.0 bits (85), Expect = 0.035
Identities = 96/629 (15%), Positives = 170/629 (27%), Gaps = 210/629 (33%)
Query: 147 SLQKT-QVTGSALLHA-VLLD-FISHSSDSPD-LMEVLEMLAPLPL----LPFVHSKAGA 198
SL+ V ++ A L + F + + E P L L +V S
Sbjct: 15 SLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEP 74
Query: 199 SVAMHIIWNATNKLKKKIVKE-----LKGHLREVATSEFGHLVLVTLLDNVDDTLLLKKA 253
S +++ + E L+G ++ H + LL D TL+ K
Sbjct: 75 SKV-----GQFDQVLNLCLTEFENCYLEG--NDI------HALAAKLLQENDTTLVKTKE 121
Query: 254 LLPELLAEVVPLANHEYGRKVIAHLVSWCDPGFFHPTCIAHVKSG--------------- 298
L+ + A R + F V G
Sbjct: 122 LIKNYIT-----ARIMAKRP----FDKKSNSALFR-----AVGEGNAQLVAIFGGQGNTD 167
Query: 299 ---DE----FSTSKKDRDIRNKEILEAVSEPL--LSSIAKDADF----------WLSTGS 339
+E + T ++++ +E L L DA+ WL S
Sbjct: 168 DYFEELRDLYQTYHV----LVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPS 223
Query: 340 VA-----MVTA---------------VILKNALG--PG-LKEAFDSVANVIVDLERRVPL 376
+++ V+ LG PG L+ L V +
Sbjct: 224 NTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAI 283
Query: 377 ELKKDFASGNKNKQK---------KAAQQNKGGEKNQTAQGKKGTEGKKEAGNEKEEETT 427
+ S + +K + A + + E
Sbjct: 284 AETDSWESFFVSVRKAITVLFFIGVRCYE---------AYPNTSLPPSILEDSLENNEGV 334
Query: 428 PFIEHP-----GFHTVLKKLLQH-DRDNVAKELPT---LSESIVAKASKEVLDFWTKCN- 477
P P +++ + ++ N LP + S+V N
Sbjct: 335 P---SPMLSISNLT--QEQVQDYVNKTN--SHLPAGKQVEISLV--------------NG 373
Query: 478 RACFILVLILESG----MESCVSELKSKLSPFKTKLSSQKFSGAKV------LLI-VPRN 526
++ SG + L+ +P S FS K+ L + P
Sbjct: 374 AKNLVV-----SGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASP-- 426
Query: 527 F--RLLEE-LEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRTST-TGHIMDTIIG 582
F LL + + + +S+ N D+ + P T G + + G
Sbjct: 427 FHSHLLVPASDLINKDLVKNNVSF---NAKDIQI----------PVYDTFDGSDLRVLSG 473
Query: 583 YIMSVLNEILHLFWISRKP---DNTLMINIKSNTGNTVCVNLDP--ASDIRNVKEMIAPK 637
I + + I R P + T T ++ P AS + +
Sbjct: 474 SISERIVD-----CIIRLPVKWETTT------QFKATHILDFGPGGASGLGVLTHRNKDG 522
Query: 638 LGLKYEEVKIIFAGKELEDTTIISECDLG 666
G V++I AG L+ + D G
Sbjct: 523 TG-----VRVIVAG-TLDIN---PDDDYG 542
Score = 34.6 bits (79), Expect = 0.17
Identities = 45/268 (16%), Positives = 74/268 (27%), Gaps = 127/268 (47%)
Query: 641 KYEEVKIIF--AGKELEDTTIISECDLGQQSILHAVKSSPENNKI----QKSKPMN---- 690
+ + ++ A +DT G SIL V ++P N I +K K +
Sbjct: 1638 TSKAAQDVWNRADNHFKDT-------YGF-SILDIVINNPVNLTIHFGGEKGKRIRENYS 1689
Query: 691 ----STLTDFHIQ------ELDEESARS--SSPD-------ITQEP-------------- 717
T+ D ++ E++E S S TQ P
Sbjct: 1690 AMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQ-PALTLMEKAAFEDLK 1748
Query: 718 ---VTPSKAHF-------Y------------------LRVRCAQCKSG---AVIVDRDPQ 746
+ P+ A F Y + R G V V RD
Sbjct: 1749 SKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYR------GMTMQVAVPRDEL 1802
Query: 747 SWSDV----LEPRQISCHCTEEHC---------TTGPVSWAEFYFKCAQHVS-ANMN--- 789
S+ + P +++ ++E TG + V N N
Sbjct: 1803 GRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWL------------VEIVNYNVEN 1850
Query: 790 -QV----D----ECLPLSLVTSNVRKIP 808
Q D + + L ++KI
Sbjct: 1851 QQYVAAGDLRALDTVTNVLNFIKLQKID 1878
>2faz_A Ubiquitin-like containing PHD and ring finger DOM protein 1; cell
cycle, DNA damage, DNA repair, DNA-binding, ligase, Met
binding, nuclear protein; 2.00A {Homo sapiens} SCOP:
d.15.1.1
Length = 78
Score = 48.1 bits (115), Expect = 2e-07
Identities = 8/73 (10%), Positives = 31/73 (42%), Gaps = 2/73 (2%)
Query: 604 TLMINIKSNTGNTVCV--NLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIIS 661
++ I +++ G +L + + ++ I ++ ++ + GK++ED +
Sbjct: 2 SMWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLF 61
Query: 662 ECDLGQQSILHAV 674
+ ++ + +
Sbjct: 62 DYEVRLNDTIQLL 74
>1we6_A Splicing factor, putative; structural genomics, ubiquitin-like
domain, riken structural genomics/proteomics initiative,
RSGI; NMR {Arabidopsis thaliana} SCOP: d.15.1.1
Length = 111
Score = 48.3 bits (115), Expect = 4e-07
Identities = 15/82 (18%), Positives = 40/82 (48%), Gaps = 3/82 (3%)
Query: 596 WISRKPD-NTLMINIKS-NTGNTVCVNLDPASD-IRNVKEMIAPKLGLKYEEVKIIFAGK 652
++++ P T+ ++ + N G + + + S+ + ++KE IA ++ + + K+
Sbjct: 20 FLAQHPGPATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAG 79
Query: 653 ELEDTTIISECDLGQQSILHAV 674
L+D ++ ++G IL
Sbjct: 80 FLKDNMSLAHYNVGAGEILTLS 101
>3b08_A Polyubiquitin-C, ubiquitin; protein complex, signaling
protein-metal binding protein COM; HET: TRE; 1.70A {Homo
sapiens} PDB: 2w9n_A* 3b0a_A* 3axc_A 2zvn_A 2zvo_A
2y5b_B
Length = 152
Score = 48.9 bits (116), Expect = 6e-07
Identities = 29/88 (32%), Positives = 50/88 (56%)
Query: 607 INIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIISECDLG 666
I +K+ TG T+ + ++P+ I NVK I K G+ ++ ++IFAGK+LED +S+ ++
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQ 62
Query: 667 QQSILHAVKSSPENNKIQKSKPMNSTLT 694
++S LH V +I T+T
Sbjct: 63 KESTLHLVLRLRGGMQIFVKTLTGKTIT 90
Score = 43.1 bits (101), Expect = 6e-05
Identities = 25/78 (32%), Positives = 47/78 (60%)
Query: 595 FWISRKPDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKEL 654
+ + + I +K+ TG T+ + ++P+ I NVK I K G+ ++ ++IFAGK+L
Sbjct: 67 LHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL 126
Query: 655 EDTTIISECDLGQQSILH 672
ED +S+ ++ ++S LH
Sbjct: 127 EDGRTLSDYNIQKESTLH 144
>3k62_A FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding factor, PUF,
RNA-binding specificity, base flipping, base stacking;
1.90A {Caenorhabditis elegans} PDB: 3k5y_A 3k5z_A 3k61_A
3k5q_A 3k64_A 3qg9_A 3v6y_A 3v74_A 3qgc_A 3qgb_A
Length = 412
Score = 50.9 bits (121), Expect = 9e-07
Identities = 37/281 (13%), Positives = 91/281 (32%), Gaps = 42/281 (14%)
Query: 11 SRIIQWLLKLSSPQMKKDIVKELL--PFTVAMIKSKYSNALVKHMLKSGDENTKNEIIK- 67
R+IQ L+ + +V+ L +A+ + +N +++ ++ I+
Sbjct: 124 CRVIQSSLQNMDLSLACKLVQALPRDARLIAICVDQNANHVIQKVVAVIPLKNWEFIVDF 183
Query: 68 -ALQPHVVTLLSHTTASPVLMYAHDQVASPAQKLAMRQELYGGLYESTGDKKINCLGDIF 126
A H+ + S V+ Q + + + T D L
Sbjct: 184 VATPEHLRQICSDKYGCRVV-----------QTI---------IEKLTADSMNVDLTSAA 223
Query: 127 EQSPEMKTAILSVTKKTILKSLQKTQVTGSALLHAVLLDFISHSSDSPDLMEVLEMLAPL 186
+ E L + + L + + ++ +S+ + ++E
Sbjct: 224 QNLRERALQRLMTSVTNRCQELATNE-----YANYIIQHIVSNDDLAVYRECIIEKCLMR 278
Query: 187 PLLPFVHSKAGASVAMHIIWNATNKLKKKIVKEL-----------KGHLREVATSEFGHL 235
LL K + V +A +L +++ E+ K L + +FG+
Sbjct: 279 NLLSLSQEKFASHVVEKAFLHAPLELLAEMMDEIFDGYIPHPDTGKDALDIMMFHQFGNY 338
Query: 236 VLVTLLDNVDDTLLLKKALLPELLAEVVPLANHEYGRKVIA 276
V+ +L D + + ++ ++ +K+ +
Sbjct: 339 VVQCMLTICCDA--VSGRRQTKEGGYDHAISFQDWLKKLHS 377
Score = 48.2 bits (114), Expect = 7e-06
Identities = 30/299 (10%), Positives = 95/299 (31%), Gaps = 41/299 (13%)
Query: 2 GQIV-FSHDM--SRIIQWLLKLSSPQMKKDIVKELL----PFTVAMIKSKYSNALVKHML 54
G ++ F+ D + ++ +K S +K + E + + + + + N LV+ ++
Sbjct: 29 GDLMKFAVDKTGCQFLEKAVKGSLTSYQKFQLFEQVIGRKDDFLKLSTNIFGNYLVQSVI 88
Query: 55 KS-------GDENTKNEIIKALQPHVVTLLSHTTASPVLMYAHDQVASPAQ-KLAMRQEL 106
G + ++ + + + A V+ + + KL
Sbjct: 89 GISLATNDDGYTKRQEKLKNFISSQMTDMCLDKFACRVIQSSLQNMDLSLACKLVQALPR 148
Query: 107 YGGLYESTGDKKIN-CLGDIFEQSPEMKTAILSVTKKTILKSLQKTQVTGSALLHAVLLD 165
L D+ N + + P + + +
Sbjct: 149 DARLIAICVDQNANHVIQKVVAVIPLKNWEFI--------------------VDFVATPE 188
Query: 166 FISHSSDSPDLMEVLEMLAPLPLLPFVHSKAGASVAMHIIWNATNKLKKKIVKELKGHLR 225
+ V++ ++ + + + N + ++++ + +
Sbjct: 189 HLRQICSDKYGCRVVQ-----TIIEKLTADSMNVDLTSAAQNLRERALQRLMTSVTNRCQ 243
Query: 226 EVATSEFGHLVLVTLLDNVDDTLLLKKALLPELLAEVVPLANHEYGRKVIAHLVSWCDP 284
E+AT+E+ + ++ ++ N D + + + L+ ++ L+ ++ V+
Sbjct: 244 ELATNEYANYIIQHIVSNDDLAVYRECIIEKCLMRNLLSLSQEKFASHVVEKAFLHAPL 302
Score = 38.2 bits (88), Expect = 0.009
Identities = 17/111 (15%), Positives = 43/111 (38%), Gaps = 3/111 (2%)
Query: 8 HDMSRIIQWLLKLSSPQMKKDIVKELLPFTVAMIKSKYSNALVKHMLKSGD--ENTKNEI 65
M+ + + + + ++ + + ++Y+N +++H++ + D + I
Sbjct: 213 DSMNVDLTSAAQNLRERALQRLMTSVTNRCQELATNEYANYIIQHIVSNDDLAVYRECII 272
Query: 66 IKALQPHVVTLLSHTTASPVLMYAHDQVASPAQKLAMRQELYGGLYESTGD 116
K L ++++L AS V+ A A M E++ G
Sbjct: 273 EKCLMRNLLSLSQEKFASHVVEKA-FLHAPLELLAEMMDEIFDGYIPHPDT 322
>2kan_A Uncharacterized protein AR3433A; ubiquitin fold, alpha+beta,
structural genomics, protein structure initiative; NMR
{Arabidopsis thaliana}
Length = 94
Score = 46.6 bits (111), Expect = 1e-06
Identities = 11/69 (15%), Positives = 30/69 (43%), Gaps = 2/69 (2%)
Query: 607 INIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKEL-EDTTIISECDL 665
+ +K V +D + ++K+ I + +++ ++G EL +D ++E +
Sbjct: 18 VTVK-FPSKQFTVEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGIELADDYRNLNEYGI 76
Query: 666 GQQSILHAV 674
+ S +
Sbjct: 77 TEFSEIVVF 85
>3ai5_A Yeast enhanced green fluorescent protein, ubiquit; ubiquitin,
fusion protein, fluore protein, transcription; HET: CR2;
1.40A {Aequorea victoria} PDB: 3ako_B*
Length = 307
Score = 48.6 bits (115), Expect = 3e-06
Identities = 27/82 (32%), Positives = 49/82 (59%)
Query: 593 HLFWISRKPDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGK 652
F + ++ I +K+ TG T+ + ++P+ I NVK I K G+ ++ ++IFAGK
Sbjct: 222 LEFVTAAGITGSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGK 281
Query: 653 ELEDTTIISECDLGQQSILHAV 674
+LED +S+ ++ ++S LH V
Sbjct: 282 QLEDGRTLSDYNIQKESTLHLV 303
>1v5o_A 1700011N24RIK protein; hypothetical protein, ubiquitin-like fold,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus musculus}
SCOP: d.15.1.1
Length = 102
Score = 42.7 bits (100), Expect = 3e-05
Identities = 13/86 (15%), Positives = 35/86 (40%), Gaps = 1/86 (1%)
Query: 604 TLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKEL-EDTTIISE 662
T+ + T T + ++P ++ N + + + G+ EE +I++ + L +D +
Sbjct: 11 TVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGS 70
Query: 663 CDLGQQSILHAVKSSPENNKIQKSKP 688
L ++ ++ + P
Sbjct: 71 YGLKDGDMVVLLQKDNVGLRTPGRTP 96
>1wgg_A Ubiquitin carboxyl-terminal hydrolase 14; ubiquitin specific
protease 14, USP14, ubiquitin-like fold, structural
genomics; NMR {Mus musculus} SCOP: d.15.1.1
Length = 96
Score = 42.2 bits (99), Expect = 5e-05
Identities = 11/92 (11%), Positives = 28/92 (30%), Gaps = 1/92 (1%)
Query: 601 PDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTII 660
+ + +K V L+ K + G++ K++ G L+D
Sbjct: 4 GSSGYSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDDD-W 62
Query: 661 SECDLGQQSILHAVKSSPENNKIQKSKPMNST 692
+ + + S+ + +K +
Sbjct: 63 GNIKMKNGMTVLMMGSADALPEEPSAKTSGPS 94
>3q3f_A Ribonuclease/ubiquitin chimeric protein; domain SWAP,
oligomerization, ubiquitin insertion, hydrolase binding;
2.17A {Bacillus amyloliquefaciens}
Length = 189
Score = 43.8 bits (103), Expect = 6e-05
Identities = 26/73 (35%), Positives = 45/73 (61%)
Query: 602 DNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIIS 661
I +K+ TG T+ + ++P+ I NVK I K G+ ++ ++IFAGK+LED +S
Sbjct: 103 HYGGQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLS 162
Query: 662 ECDLGQQSILHAV 674
+ ++ ++S LH V
Sbjct: 163 DYNIQKESTLHLV 175
Score = 37.3 bits (86), Expect = 0.008
Identities = 14/77 (18%), Positives = 25/77 (32%), Gaps = 10/77 (12%)
Query: 589 NEILHLFWISRKPDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKII 648
+E L W++ K + + KS G+ N + + K G + E I
Sbjct: 29 SEAQALGWVASKGNLADVAPGKSIGGDI----------FSNREGKLPGKSGRTWREADIN 78
Query: 649 FAGKELEDTTIISECDL 665
+ I+ D
Sbjct: 79 YTSGFRNSDRILYSSDW 95
>1wgd_A Homocysteine-responsive endoplasmic reticulum- resident
ubiquitin-like domain member...; ENDPLASMIC reticulum
stress, UBL domain; NMR {Homo sapiens} SCOP: d.15.1.1
Length = 93
Score = 40.7 bits (95), Expect = 1e-04
Identities = 14/83 (16%), Positives = 37/83 (44%), Gaps = 6/83 (7%)
Query: 601 PDNTLMINIKS--NTGNTVCVNLDPASDIRNVKEMIAPKLGLKY--EEVKIIFAGKELED 656
+ + + +KS + ++ D + ++K ++ + E+ ++I++GK L D
Sbjct: 4 GSSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLD 63
Query: 657 TTIISECDLGQQS--ILHAVKSS 677
+ + Q+ +LH V +
Sbjct: 64 HQCLRDLLPKQEKRHVLHLVCNV 86
>1v86_A DNA segment, CHR 7, wayne state university 128, expressed;
ubiquitin fold, structural genomics, D7WSU128E protein;
HET: DNA; NMR {Mus musculus} SCOP: d.15.1.1
Length = 95
Score = 39.4 bits (92), Expect = 3e-04
Identities = 16/79 (20%), Positives = 29/79 (36%), Gaps = 2/79 (2%)
Query: 601 PDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTII 660
+ + I N V + S +K+ I GL K+++ G ED T +
Sbjct: 14 GKELVDLKIIWN-KTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGLVPEDKT-L 71
Query: 661 SECDLGQQSILHAVKSSPE 679
E + + + V S+
Sbjct: 72 REIKVTSGAKIMVVGSTIS 90
>2gow_A HCG-1 protein, ubiquitin-like protein 3; BC059385, structural
genomics, protein structure initiative, PSI; NMR {Homo
sapiens}
Length = 125
Score = 40.0 bits (93), Expect = 5e-04
Identities = 13/108 (12%), Positives = 36/108 (33%), Gaps = 14/108 (12%)
Query: 598 SRKPDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMI--------APKLGLKYEEVKIIF 649
S P + + + + +G T P ++ + + + +++I+
Sbjct: 11 SNVPADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIY 70
Query: 650 AGKELEDTTIISECDL--GQQSILHAV----KSSPENNKIQKSKPMNS 691
G+ L + L G+ +++H V P + + +
Sbjct: 71 QGRFLHGNVTLGALKLPFGKTTVMHLVARETLPEPNSQGQRNREKTGE 118
>1wia_A Hypothetical ubiquitin-like protein (riken cDNA 2010008E23);
'structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus musculus}
SCOP: d.15.1.1
Length = 95
Score = 37.7 bits (87), Expect = 0.001
Identities = 13/92 (14%), Positives = 32/92 (34%), Gaps = 4/92 (4%)
Query: 602 DNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKEL-EDTTII 660
+ + + +K P + +K P ++K+I+ G+ L + +
Sbjct: 5 SSGINVRLKFLNDTEELAVARPEDTVGTLKSKYFPGQE---SQMKLIYQGRLLQDPARTL 61
Query: 661 SECDLGQQSILHAVKSSPENNKIQKSKPMNST 692
S ++ ++H +S P S +
Sbjct: 62 SSLNITNNCVIHCHRSPPGAAVSGPSASSGPS 93
>1wgh_A Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fold, structural
genomics, riken structural genomics/proteomics
initiative, RSGI, unknown function; NMR {Mus musculus}
SCOP: d.15.1.1
Length = 116
Score = 35.4 bits (81), Expect = 0.012
Identities = 16/104 (15%), Positives = 39/104 (37%), Gaps = 13/104 (12%)
Query: 598 SRKPDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMI--------APKLGLKYEEVKIIF 649
S P + + + + +G T P ++ + + + +++I+
Sbjct: 10 SHVPADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIY 69
Query: 650 AGKELEDTTIISECDL--GQQSILHAV---KSSPENNKIQKSKP 688
G+ L + L G+ +++H V N++ Q+S P
Sbjct: 70 QGRFLHGNVTLGALKLPFGKTTVMHLVARETLPEPNSQGQRSGP 113
>1x1m_A Ubiquitin-like protein SB132; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Mus musculus} SCOP: d.15.1.1
Length = 107
Score = 34.8 bits (79), Expect = 0.024
Identities = 14/61 (22%), Positives = 28/61 (45%), Gaps = 3/61 (4%)
Query: 623 PASDIRNVKEMIAPKLGLKY---EEVKIIFAGKELEDTTIISECDLGQQSILHAVKSSPE 679
I +K++IA KL E + +I+ G++L+D + + S +H ++ S
Sbjct: 43 GGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFYGIQPGSTVHVLRKSWS 102
Query: 680 N 680
Sbjct: 103 G 103
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 35.1 bits (80), Expect = 0.047
Identities = 14/66 (21%), Positives = 27/66 (40%), Gaps = 12/66 (18%)
Query: 371 ERRVPLELKKDFASGNKNKQK---KAAQQNKGGEKNQTAQGKKGTEGKKEAGNEKEEETT 427
E+R L+ + D A+ +Q+ KA + + + Q+ Q +K K +
Sbjct: 93 EQRKRLQ-ELD-AASKVMEQEWREKAKKDLEEWNQRQSEQVEKN---KINNRIADKA--- 144
Query: 428 PFIEHP 433
F + P
Sbjct: 145 -FYQQP 149
>3h8k_A Ubiquitin-conjugating enzyme E2 G2; alpha beta, all alpha, ligase,
UBL conjugation pathway, endo reticulum, membrane,
metal-binding; 1.80A {Homo sapiens} PDB: 3fsh_A 2cyx_A
2kly_A
Length = 164
Score = 34.6 bits (80), Expect = 0.050
Identities = 12/43 (27%), Positives = 20/43 (46%), Gaps = 3/43 (6%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
RL+ E + +G I G N+++ W +I+GP T
Sbjct: 7 RLMAEYKQLTLNPPEG-IVAGPMNEENFF--EWEALIMGPEDT 46
>2kdb_A Homocysteine-responsive endoplasmic reticulum- resident
ubiquitin-like domain member...; UBL domain, membrane,
polymorphism, transmembrane; NMR {Homo sapiens}
Length = 99
Score = 33.4 bits (76), Expect = 0.060
Identities = 10/79 (12%), Positives = 31/79 (39%), Gaps = 6/79 (7%)
Query: 602 DNTLMINIKS--NTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEV--KIIFAGKELEDT 657
+ + + IK+ + ++ + +K ++ K +++++G+ L D
Sbjct: 21 GHPVTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKPLTKDQRLVYSGRLLPDH 80
Query: 658 TIISECDLGQQS--ILHAV 674
+ + Q ++H V
Sbjct: 81 LQLKDILRKQDEYHMVHLV 99
>1wju_A NEDD8 ultimate buster-1; ubiquitin-like domain, structural
genomics, riken structural genomics/proteomics
initiative, RSGI, protein binding; NMR {Homo sapiens}
SCOP: d.15.1.1
Length = 100
Score = 33.1 bits (75), Expect = 0.061
Identities = 17/74 (22%), Positives = 30/74 (40%), Gaps = 7/74 (9%)
Query: 604 TLMINIKSNTGNTVCVNLDPASDI--RNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIIS 661
T+ + + L+ I R ++ IA GL+ +KI+ K+L+
Sbjct: 17 TIEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQL----- 71
Query: 662 ECDLGQQSILHAVK 675
L +Q + H VK
Sbjct: 72 GKTLEEQGVAHNVK 85
>2ucz_A UBC7, ubiquitin conjugating enzyme; ubiquitin conjugation, ligase,
yeast; 2.93A {Saccharomyces cerevisiae} SCOP: d.20.1.1
Length = 165
Score = 33.9 bits (78), Expect = 0.088
Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
RLL+EL+ + G I G ++++++ W +I GPP T
Sbjct: 8 RLLKELQQLIKDSPPG-IVAGPKSENNIF--IWDCLIQGPPDT 47
>2awf_A Ubiquitin-conjugating enzyme E2 G1; ligase, UBL conjugation
pathway, structural genomics, structural genomics
consortium SGC; 2.10A {Homo sapiens} SCOP: d.20.1.1 PDB:
1pzv_A
Length = 172
Score = 33.9 bits (78), Expect = 0.095
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
L +L + +G S GL +D+D+ W +IIGPP T
Sbjct: 21 LLRRQLAELNKNPVEG-FSAGLIDDNDLY--RWEVLIIGPPDT 60
>3rz3_A Ubiquitin-conjugating enzyme E2 R1; ubiquitin conjugating enzyme
domain, E2 domain, ligase-ligas inhibitor complex; HET:
U94; 2.30A {Homo sapiens} PDB: 2ob4_A
Length = 183
Score = 33.9 bits (78), Expect = 0.096
Identities = 15/43 (34%), Positives = 20/43 (46%), Gaps = 3/43 (6%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
LL EL+ Q +G L ++ D L +W I GPP T
Sbjct: 11 ALLLELKGLQEEPVEG-FRVTLVDEGD--LYNWEVAIFGPPNT 50
>2daf_A FLJ35834 protein; hypothetical protein FLJ35834, ubiquitin-like
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 118
Score = 33.1 bits (75), Expect = 0.11
Identities = 11/68 (16%), Positives = 33/68 (48%), Gaps = 2/68 (2%)
Query: 627 IRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIISECDLGQQSILHAVKSS--PENNKIQ 684
++ +K+ + LG+ + ++I ++GK L++ + + + Q I+ S P+ ++
Sbjct: 39 LKYLKDHFSHLLGIPHSVLQIRYSGKILKNNETLVQHGVKPQEIVQVEIFSTNPDLYPVR 98
Query: 685 KSKPMNST 692
+ +
Sbjct: 99 RIDGLTDV 106
>1fxt_A Ubiquitin-conjugating enzyme E2-24 kDa; ligase; NMR {Saccharomyces
cerevisiae} SCOP: d.20.1.1 PDB: 1fzy_A
Length = 149
Score = 32.6 bits (75), Expect = 0.22
Identities = 10/43 (23%), Positives = 21/43 (48%), Gaps = 3/43 (6%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
R+++E++ + I+ ++ D+ H G +GPP T
Sbjct: 5 RIMKEIQAVKDDPAAH-ITLEFVSESDIH--HLKGTFLGPPGT 44
>2f4z_A Tgtwinscan_2721 - E2 domain; ubiquitin conjugating tgtwinscan_2721,
structural genomics, structural genomics consortium,
SGC; 2.11A {Toxoplasma gondii} SCOP: d.20.1.1
Length = 193
Score = 32.8 bits (75), Expect = 0.28
Identities = 18/80 (22%), Positives = 26/80 (32%), Gaps = 15/80 (18%)
Query: 503 SPFKTKLSSQKFSGAKVLLIVPRNFRLLEELEHGQRGVGDGT------------ISWGLE 550
S + L Q + A+ RLL+EL Q+ +S +
Sbjct: 11 SSGRENLYFQGMATAQPRGTPREQARLLKELADIQQLQRAHDSEPAATHSTSHGVSAQIV 70
Query: 551 NDDDMTLTHWTGMIIGPPRT 570
D + W G I GP T
Sbjct: 71 GGD---IHRWRGFIAGPLGT 87
>1tte_A Ubiquitin-conjugating enzyme E2-24 kDa; UBC1, ubiquitin-dependent
degradation, ligase; NMR {Saccharomyces cerevisiae}
SCOP: a.5.2.1 d.20.1.1
Length = 215
Score = 32.9 bits (75), Expect = 0.29
Identities = 10/43 (23%), Positives = 21/43 (48%), Gaps = 3/43 (6%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
R+++E++ + I+ ++ D+ H G +GPP T
Sbjct: 6 RIMKEIQAVKDDPAAH-ITLEFVSESDIH--HLKGTFLGPPGT 45
>2fnj_B Transcription elongation factor B polypeptide 2; beta-sandwich,
lectin-like, SPRY, protein transport/signaling protein
complex; 1.80A {Mus musculus} SCOP: d.15.1.1 PDB: 1lm8_B
1lqb_A 1vcb_A 2c9w_B 2izv_B 2jz3_B 2xai_C 3dcg_A 3zrc_A*
3zrf_A
Length = 118
Score = 31.5 bits (71), Expect = 0.30
Identities = 11/54 (20%), Positives = 24/54 (44%)
Query: 616 TVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIISECDLGQQS 669
T+ + +S + +K ++ L EE ++ + L+D + EC Q+
Sbjct: 13 TIFTDAKESSTVFELKRIVEGILKRPPEEQRLYKDDQLLDDGKTLGECGFTSQT 66
>1v5t_A 8430435I17RIK protein; hypothetical protein, ubiquitin-like fold,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus musculus}
SCOP: d.15.1.1 PDB: 2kx3_A
Length = 90
Score = 30.6 bits (69), Expect = 0.37
Identities = 12/82 (14%), Positives = 28/82 (34%), Gaps = 3/82 (3%)
Query: 601 PDNTLMINIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKII---FAGKELEDT 657
+ L I +K L + ++K+ + G+ E K++ GK E+
Sbjct: 4 GSSGLPIIVKWGGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAEND 63
Query: 658 TIISECDLGQQSILHAVKSSPE 679
+ L + + + +
Sbjct: 64 VKLGALKLKPNTKIMMMGTRES 85
>1yrv_A Ubiquitin-conjugating ligase MGC351130; structural genomics
consortium, SGC, ubiquitin- conjugating enzyme; 2.18A
{Homo sapiens} SCOP: d.20.1.1
Length = 169
Score = 31.9 bits (73), Expect = 0.41
Identities = 7/43 (16%), Positives = 14/43 (32%), Gaps = 4/43 (9%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
L + + G I+ ++D + W I G +
Sbjct: 27 LLHRDFCDLKENNYKG-ITAKPVSED---MMEWEVEIEGLQNS 65
>2bep_A Ubiquitin-conjugating enzyme E2-25 kDa; ligase, E2 conjugating
enzyme, protein degradatio structural proteomics in
europe, spine; 1.8A {Bos taurus} SCOP: d.20.1.1 PDB:
2bf8_A
Length = 159
Score = 31.9 bits (73), Expect = 0.44
Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 4/46 (8%)
Query: 525 RNFRLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
R R +E+ + + I L +++ T G I GPP T
Sbjct: 12 RIKREFKEVLKSEETSKNQ-IKVDLVDEN---FTELRGEIAGPPDT 53
>2y9m_A Ubiquitin-conjugating enzyme E2-21 kDa; ligase-transport protein
complex, ubiquitin conjugating ENZY complex, peroxisomal
protein; 2.60A {Saccharomyces cerevisiae} PDB: 2y9p_A
2y9o_A
Length = 172
Score = 32.0 bits (73), Expect = 0.47
Identities = 10/53 (18%), Positives = 20/53 (37%), Gaps = 12/53 (22%)
Query: 528 RLLEELEHGQRGVGDG----------TISWGLENDDDMTLTHWTGMIIGPPRT 570
R+++E + + + S ++ D L+ W +I GP T
Sbjct: 10 RIVKEYKVILKTLASDDPIANPYRGIIESLNPIDETD--LSKWEAIISGPSDT 60
>3k9o_A Ubiquitin-conjugating enzyme E2 K; E2-25K, complex structure,
ATP-binding, isopeptide BO ligase, nucleotide-binding,
UBL conjugation pathway; 1.80A {Homo sapiens} PDB:
3k9p_A 1yla_A 2o25_A
Length = 201
Score = 32.0 bits (73), Expect = 0.56
Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 4/46 (8%)
Query: 525 RNFRLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
R R +E+ + + I L +++ T G I GPP T
Sbjct: 9 RIKREFKEVLKSEETSKNQ-IKVDLVDEN---FTELRGEIAGPPDT 50
>1ayz_A UBC2, ubiquitin-conjugating enzyme RAD6; ubiquitin conjugation;
2.60A {Saccharomyces cerevisiae} SCOP: d.20.1.1
Length = 169
Score = 31.5 bits (72), Expect = 0.59
Identities = 12/43 (27%), Positives = 19/43 (44%), Gaps = 4/43 (9%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
RL+ + + + G +S D+ + W MIIGP T
Sbjct: 8 RLMRDFKRMKEDAPPG-VSASPLPDN---VMVWNAMIIGPADT 46
>2e2c_A Ubiquitin conjugating enzyme; ubiquitin conjugation, ubiquitin
carrier protein, thioester ligase; 2.00A {Spisula
solidissima} SCOP: d.20.1.1
Length = 156
Score = 31.1 bits (71), Expect = 0.63
Identities = 12/43 (27%), Positives = 17/43 (39%), Gaps = 4/43 (9%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
RL +EL G I+ + D+ L W + GP T
Sbjct: 13 RLQQELRTLLMSGDPG-ITAFPDGDN---LFKWVATLDGPKDT 51
>2kzr_A Ubiquitin thioesterase OTU1; structural genomics, northeast
structural genomics consortiu PSI-2, protein structure
initiative, hydrolase; NMR {Mus musculus}
Length = 86
Score = 29.8 bits (67), Expect = 0.66
Identities = 9/51 (17%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 607 INIKSNTGNTVCVNLDPASDIRNVKEMIAPKLGLKYEEVKII--FAGKELE 655
+ K+ G + L + +R ++ IA G+ +I+ + + L+
Sbjct: 3 VRCKAKGGTHLLQGLSSRTRLRELQGQIAAITGIAPGSQRILVGYPPECLD 53
>2grr_A Ubiquitin-conjugating enzyme E2 I; ubiquitin, conjugation, small
ubiquitin like modifer, SMT3, ligase; 1.30A {Homo
sapiens} PDB: 2grq_A 2grn_A 2pe6_A 2gro_A 2grp_A 1u9a_A
1u9b_A 2vrr_A 2px9_B 1z5s_A 2xwu_A 3uin_A 3uio_A 3uip_A*
1kps_A 2o25_C 1a3s_A 3a4s_A 2uyz_A
Length = 161
Score = 31.1 bits (71), Expect = 0.68
Identities = 11/44 (25%), Positives = 19/44 (43%), Gaps = 1/44 (2%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMT-LTHWTGMIIGPPRT 570
RL +E + ++ G ++ +N D L +W I G T
Sbjct: 11 RLAQERKAWRKDHPFGFVAVPTKNPDGTMNLMNWECAIPGKKGT 54
>2a7l_A Hypothetical ubiquitin-conjugating enzyme LOC55284; structural
genomics consortium, (SGC), ligase; 1.82A {Homo sapiens}
SCOP: d.20.1.1
Length = 136
Score = 30.8 bits (70), Expect = 0.69
Identities = 11/43 (25%), Positives = 20/43 (46%), Gaps = 2/43 (4%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
RL +EL Q G ++ ++ + ++T W + G P T
Sbjct: 26 RLQKELLALQNDPPPG-MTLNEKSVQN-SITQWIVDMEGAPGT 66
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 31.6 bits (71), Expect = 0.70
Identities = 8/72 (11%), Positives = 18/72 (25%), Gaps = 13/72 (18%)
Query: 710 SPDITQEPVTPSKAHFYLRVRCAQCKSGAVIVDRDPQSWSDVLEPRQISC-HC---TEEH 765
+ + + + + + C +CK + + C C +
Sbjct: 3 TRESIDKRAGRRGPNLNIVLTCPECKVYPPKIVERFSE-------GDVVCALCGLVLSDK 55
Query: 766 CT-TGPVSWAEF 776
T W F
Sbjct: 56 LVDTRS-EWRTF 66
>2gjd_A Ubiquitin-conjugating enzyme E2-18 kDa; UBC9P, SMT3,
crystallography, ligase; 1.75A {Saccharomyces
cerevisiae} PDB: 2eke_A 3ong_B
Length = 157
Score = 31.1 bits (71), Expect = 0.81
Identities = 11/45 (24%), Positives = 15/45 (33%), Gaps = 3/45 (6%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMT--LTHWTGMIIGPPRT 570
RL EE + ++ G D + L W I G T
Sbjct: 8 RLQEERKKWRKDHPFG-FYAKPVKKADGSMDLQKWEAGIPGKEGT 51
>2aak_A UBC1, ubiquitin conjugating enzyme; ubiquitin conjugation, ligase;
2.40A {Arabidopsis thaliana} SCOP: d.20.1.1 PDB: 1jas_A
2y4w_A 2yb6_A 2ybf_A 1q34_A 1z3d_A
Length = 152
Score = 30.7 bits (70), Expect = 0.83
Identities = 11/43 (25%), Positives = 21/43 (48%), Gaps = 4/43 (9%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
RL+ + + Q+ G IS ++++ + W +I GP T
Sbjct: 8 RLMRDFKRLQQDPPAG-ISGAPQDNN---IMLWNAVIFGPDDT 46
>3e46_A Ubiquitin-conjugating enzyme E2-25 kDa; huntington interacting,
ligase, alternative splicing, cytoplasm, UBL
conjugation, UBL conjugation pathway; 1.86A {Homo
sapiens} SCOP: a.5.2.1 d.20.1.1 PDB: 3f92_A*
Length = 253
Score = 31.4 bits (71), Expect = 0.90
Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 4/46 (8%)
Query: 525 RNFRLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
R R +E+ + + I L +++ T G I GPP T
Sbjct: 61 RIKREFKEVLKSEETSKNQ-IKVDLVDEN---FTELRGEIAGPPDT 102
>1i7k_A Ubiquitin-conjugating enzyme E2 H10; ligase; 1.95A {Homo sapiens}
SCOP: d.20.1.1
Length = 179
Score = 30.8 bits (70), Expect = 1.0
Identities = 16/43 (37%), Positives = 19/43 (44%), Gaps = 4/43 (9%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
RL +EL GD IS E+D+ L W G I G T
Sbjct: 34 RLQQELMTLMMS-GDKGISAFPESDN---LFKWVGTIHGAAGT 72
>2fo3_A Ubiquitin-conjugating enzyme; SGC, UBC, structural genomics,
structural genomics consortium, unknown function; 1.86A
{Plasmodium vivax} SCOP: d.20.1.1
Length = 125
Score = 30.3 bits (69), Expect = 1.1
Identities = 6/43 (13%), Positives = 15/43 (34%), Gaps = 4/43 (9%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
R+ +EL + + + ++ + W +G T
Sbjct: 10 RIQKELHNFLNNPPIN-CTLDVHPNN---IRIWIVKYVGLENT 48
>1oey_A P67-PHOX, neutrophil cytosol factor 2; immune system, PB1
heterodimer/complex, NADPH oxidase, PB1 D
heterodimerization; 2.0A {Homo sapiens} SCOP: d.15.2.2
Length = 83
Score = 29.3 bits (65), Expect = 1.2
Identities = 12/50 (24%), Positives = 25/50 (50%)
Query: 616 TVCVNLDPASDIRNVKEMIAPKLGLKYEEVKIIFAGKELEDTTIISECDL 665
TV + P V++M++ KL L+ E K+ + ++ + +SE +
Sbjct: 15 TVVMKTQPGLPYSQVRDMVSKKLELRLEHTKLSYRPRDSNELVPLSEDSM 64
>3fn1_B NEDD8-conjugating enzyme UBE2F; ligase, ATP-binding, cell cycle,
nucleotide-binding, UBL CON pathway; 2.50A {Homo
sapiens} PDB: 2edi_A
Length = 167
Score = 30.4 bits (69), Expect = 1.5
Identities = 5/47 (10%), Positives = 16/47 (34%), Gaps = 4/47 (8%)
Query: 524 PRNFRLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
R+ L++E+ + + + + + H + + P
Sbjct: 14 VRDKLLVKEVAELEANLPCT-CKVHFPDPNKL---HCFQLTVTPDEG 56
>2kny_A LRP-1, linker, APO-E; lipoprotein receptor, ligand binding module,
COMP repeat, calcium, cell membrane, coated PIT,
cytoplasm, DEVE protein; NMR {Homo sapiens}
Length = 80
Score = 28.7 bits (64), Expect = 1.6
Identities = 13/63 (20%), Positives = 18/63 (28%), Gaps = 16/63 (25%)
Query: 733 QCKSGAVIVDRDPQSW-----------SDVLEPRQISCHCTEEHCTTGPVSWAEFYFKCA 781
C V V P+ W +D E C +G S E + A
Sbjct: 15 SCPGTHVCV---PERWLCDGDKDCADGAD--ESIAAGCLYNSTGSGSGSGSTEELRVRLA 69
Query: 782 QHV 784
H+
Sbjct: 70 SHL 72
>2h2y_A Ubiquitin-conjugating enzyme; structural genomics, unknown
function, structural genomics consortium, SGC; 2.80A
{Plasmodium falciparum 3D7}
Length = 136
Score = 29.6 bits (67), Expect = 1.7
Identities = 6/43 (13%), Positives = 15/43 (34%), Gaps = 4/43 (9%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
R+ +EL + + + + + + W +G T
Sbjct: 24 RIQKELNNFLKNPPIN-CTIDVHPSN---IRIWIVQYVGLENT 62
>3rcz_B SUMO-conjugating enzyme UBC9; SUMO-like domain, protein:protein
interaction, protein ligase complex; HET: DNA; 1.90A
{Schizosaccharomyces pombe}
Length = 163
Score = 30.0 bits (68), Expect = 1.8
Identities = 13/45 (28%), Positives = 17/45 (37%), Gaps = 3/45 (6%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMT--LTHWTGMIIGPPRT 570
RL EE + +R G D L +W I G P+T
Sbjct: 14 RLQEERKQWRRDHPFG-FYAKPCKSSDGGLDLMNWKVGIPGKPKT 57
>1zuo_A Hypothetical protein LOC92912; ligase, ubiquitin-conjugating
enzyme, structural genomics consortium ,SGC; 1.80A {Homo
sapiens} SCOP: d.20.1.1 PDB: 2qgx_A
Length = 186
Score = 29.9 bits (67), Expect = 2.4
Identities = 11/45 (24%), Positives = 18/45 (40%), Gaps = 1/45 (2%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRTST 572
RL++EL R T + +E +D +L W + S
Sbjct: 31 RLMKELRDIYRSQSYKTGIYSVELIND-SLYDWHVKLQKVDPDSP 74
>1z2u_A Ubiquitin-conjugating enzyme E2 2; PSI, secsg, proteosome pathway,
structural genomics, protein structure initiative; 1.10A
{Caenorhabditis elegans} SCOP: d.20.1.1 PDB: 3tgd_A
2esk_A 1ur6_A 1w4u_A 4a49_B* 4a4b_C* 4a4c_C* 3eb6_B
3l1y_A 2esp_A 2eso_A 2esq_A 3l1z_A 2oxq_A 3a33_A 4ddg_D
4ddi_D 1x23_A 3rpg_A 2fuh_A ...
Length = 150
Score = 29.5 bits (67), Expect = 2.4
Identities = 15/43 (34%), Positives = 20/43 (46%), Gaps = 4/43 (9%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
R+ +EL+ R S G DD L HW I+GPP +
Sbjct: 8 RIQKELQDLGRDPPAQ-CSAGPVGDD---LFHWQATIMGPPES 46
>2c2v_B Ubiquitin-conjugating enzyme E2 N; chaperone, heat-shock protein
complex, E3 ligase, ubiquitiny TPR, heat-shock protein;
2.9A {Homo sapiens} SCOP: d.20.1.1
Length = 154
Score = 29.5 bits (67), Expect = 2.5
Identities = 7/43 (16%), Positives = 17/43 (39%), Gaps = 4/43 (9%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
R+++E + G I + + ++ +I GP +
Sbjct: 9 RIIKETQRLLAEPVPG-IKAEPDESN---ARYFHVVIAGPQDS 47
>2ayv_A Ubiquitin-conjugating enzyme E2; structural genomics, structural
genomics consortium, ubiquit ubiquitin-conjugating
enzyme, SGC, ligase; 2.00A {Toxoplasma gondii} SCOP:
d.20.1.1
Length = 166
Score = 29.2 bits (66), Expect = 2.9
Identities = 12/43 (27%), Positives = 18/43 (41%), Gaps = 4/43 (9%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
R+ +EL + S G DD + HW I+GP +
Sbjct: 25 RINKELNDLSKDPPTN-CSAGPVGDD---MFHWQATIMGPEDS 63
>1jat_A Ubiquitin-conjugating enzyme E2-17.5 kDa; UEV, ligase; 1.60A
{Saccharomyces cerevisiae} SCOP: d.20.1.1 PDB: 1jbb_A
2gmi_A 3hct_B 3hcu_B 4dhi_D 1j7d_B 4dhj_C 4dhz_F
Length = 155
Score = 29.2 bits (66), Expect = 3.1
Identities = 10/43 (23%), Positives = 20/43 (46%), Gaps = 4/43 (9%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
R+++E E G I+ +D+ L ++ I GP ++
Sbjct: 9 RIIKETEKLVSDPVPG-ITAEPHDDN---LRYFQVTIEGPEQS 47
>2r0j_A Ubiquitin carrier protein; ubiquitin conjugating, malaria, ligas
conjugation pathway, structural genomics, structural
genomi consortium; 1.85A {Plasmodium falciparum} PDB:
3e95_A
Length = 149
Score = 29.1 bits (66), Expect = 3.2
Identities = 9/43 (20%), Positives = 17/43 (39%), Gaps = 4/43 (9%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
R+ +E ++ G I ++ H+ +I GP T
Sbjct: 5 RITKETQNLANEPPPG-IMAVPVPEN---YRHFNILINGPDGT 43
>2c4o_A Ubiquitin-conjugating enzyme E2 D2; thioesterification, ligase, UBL
conjugation pathway; HET: CME; 1.94A {Homo sapiens}
SCOP: d.20.1.1 PDB: 2clw_A* 2c4p_A
Length = 165
Score = 29.2 bits (66), Expect = 3.3
Identities = 13/43 (30%), Positives = 18/43 (41%), Gaps = 4/43 (9%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
R+ +EL R S G DD + HW I+GP +
Sbjct: 23 RIHKELNDLARDPPAQ-CSAGPVGDD---MFHWQATIMGPNDS 61
>2dzj_A Synaptic glycoprotein SC2; ubiquitin-like fold, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 88
Score = 28.0 bits (62), Expect = 3.6
Identities = 11/69 (15%), Positives = 31/69 (44%), Gaps = 3/69 (4%)
Query: 607 INIKSNTGNTVCVNLDPASDIRNVKEMIA---PKLGLKYEEVKIIFAGKELEDTTIISEC 663
++ K+ ++P + I +K + P+ + +++ GK L+D ++ +
Sbjct: 16 LDAKTREKLCFLDKVEPHATIAEIKNLFTKTHPQWYPARQSLRLDPKGKSLKDEDVLQKL 75
Query: 664 DLGQQSILH 672
+G + L+
Sbjct: 76 PVGTTATLY 84
>1zdn_A Ubiquitin-conjugating enzyme E2S; structural genomics consortium,
ubiquitin-conjuga enzyme, ligase, SGC; 1.93A {Homo
sapiens} SCOP: d.20.1.1
Length = 158
Score = 29.1 bits (66), Expect = 3.7
Identities = 11/43 (25%), Positives = 15/43 (34%), Gaps = 4/43 (9%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
+ +E+ DG I +D LT I GP T
Sbjct: 17 LVYKEVTTLTADPPDG-IKVFPNEED---LTDLQVTIEGPEGT 55
>2pwq_A Ubiquitin conjugating enzyme; structural genomics consortium, SGC,
ligase; 1.90A {Plasmodium yoelii}
Length = 216
Score = 29.4 bits (66), Expect = 3.8
Identities = 11/43 (25%), Positives = 18/43 (41%), Gaps = 4/43 (9%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
RL +EL+ + I +++ + W G I GP T
Sbjct: 27 RLQKELKDIENENVQE-IDAHIKDSN---FFEWVGFIKGPEGT 65
>3bzh_A Ubiquitin-conjugating enzyme E2 E1; structural genomics consortium,
ubiquitin-conjuga enzyme, ligase, SGC, UBL conjugation
pathway; 1.60A {Homo sapiens} PDB: 1y6l_A
Length = 194
Score = 29.3 bits (66), Expect = 4.1
Identities = 18/79 (22%), Positives = 30/79 (37%), Gaps = 7/79 (8%)
Query: 493 SCVSELKSKLSPFKTKLSSQKFSGAKVLL-IVPRNFRLLEELEHGQRGVGDGTISWGLEN 551
S + + + + K K S S LL + R+ +EL S G +
Sbjct: 18 SSNQQTEKETNTPKKKESKVSMSKNSKLLSTSAK--RIQKELADITLDPPPN-CSAGPKG 74
Query: 552 DDDMTLTHWTGMIIGPPRT 570
D+ + W I+GPP +
Sbjct: 75 DN---IYEWRSTILGPPGS 90
>1d8w_A L-rhamnose isomerase; beta-alpha-8-barrels, aldose-ketose
isomerization, hydride shift; 1.60A {Escherichia coli}
SCOP: c.1.15.2 PDB: 1de5_A* 1de6_A*
Length = 426
Score = 29.5 bits (66), Expect = 5.1
Identities = 15/62 (24%), Positives = 23/62 (37%), Gaps = 11/62 (17%)
Query: 287 FHPTCIAHVKSGDEFSTSKKDRDIRNK---------EILEAVSEPLLSSIAKDADFWLST 337
F+P+C +H S D F+ S D IR + E L + + W+
Sbjct: 138 FNPSCFSHPLSADGFTLSHADDSIRQFWIDHCKASRRVSAYFGEQLGTPSV--MNIWIPD 195
Query: 338 GS 339
G
Sbjct: 196 GM 197
>4ddg_A Ubiquitin-conjugating enzyme E2 D2, ubiquitin THI OTUB1;
inhibition, hydrolase-ligase complex; 3.30A {Homo
sapiens} PDB: 4ddi_A
Length = 399
Score = 29.5 bits (66), Expect = 5.4
Identities = 13/43 (30%), Positives = 18/43 (41%), Gaps = 4/43 (9%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
R+ +EL R S G DD + HW I+GP +
Sbjct: 7 RIHKELNDLARDPPAQ-CSAGPVGDD---MFHWQATIMGPNDS 45
>2hl0_A Threonyl-tRNA synthetase; translation, editing, aminoacyl-tRNA
synthetase, enzyme mechanism, enantioselectivity,
ligase; HET: A3S; 1.86A {Pyrococcus abyssi} PDB: 2hkz_A
1y2q_A* 2hl2_A* 3pd2_A* 2hl1_A* 3pd3_A* 3pd4_A* 3pd5_A*
Length = 143
Score = 28.4 bits (63), Expect = 5.4
Identities = 19/90 (21%), Positives = 36/90 (40%), Gaps = 5/90 (5%)
Query: 26 KKDIVKELLPFTVAMIKSKYSNALVKHM-LKSGDENTKNEIIKALQPHVVTLLSHTTASP 84
K +K P + M + + LV + ++ DE E+ + + A
Sbjct: 16 KDKALKNPEPISEDMKRGRMEEVLVAFISVEKVDEKNPEEVSLKAIEEISKVAEQVKAEN 75
Query: 85 VLMY--AH--DQVASPAQKLAMRQELYGGL 110
V +Y AH ++A P+ + + +Y GL
Sbjct: 76 VFVYPFAHLSSELAKPSVAMDILNRVYQGL 105
>1yh2_A HSPC150 protein similar to ubiquitin-conjugating enzyme; structural
genomics consortium, HSCP150, ligase, SGC; 2.00A {Homo
sapiens} SCOP: d.20.1.1
Length = 169
Score = 28.5 bits (64), Expect = 6.0
Identities = 10/43 (23%), Positives = 14/43 (32%), Gaps = 4/43 (9%)
Query: 528 RLLEELEHGQRGVGDGTISWGLENDDDMTLTHWTGMIIGPPRT 570
RL EL G I+ + D + I+G T
Sbjct: 8 RLKRELHMLATEPPPG-ITCWQDKDQ---MDDLRAQILGGANT 46
>1se9_A Ubiquitin family; ubiquitin-like, cell-free, wheat GERM, structural
genomics, protein structure initiative, CESG; NMR
{Arabidopsis thaliana} SCOP: d.15.1.1
Length = 126
Score = 27.7 bits (61), Expect = 6.9
Identities = 20/90 (22%), Positives = 34/90 (37%), Gaps = 21/90 (23%)
Query: 620 NLDPASDIRNVKEMI----------APKLGLKYEEVKIIFAGKELEDTTIISECDL---- 665
A+ + +KE + PK +EVK+I AGK LE++ + +
Sbjct: 33 AFPDATTVSALKETVISEWPREKENGPK---TVKEVKLISAGKVLENSKTVKDYRSPVSN 89
Query: 666 --GQQSILHAV--KSSPENNKIQKSKPMNS 691
G + +H + E K K P +
Sbjct: 90 LAGAVTTMHVIIQAPVTEKEKKPKGDPKMN 119
>2hz7_A Glutaminyl-tRNA synthetase; rossmann fold, GLNRS core, class I
aminoacyl-tRNA synthetase, ligase; 2.30A {Deinococcus
radiodurans}
Length = 851
Score = 28.7 bits (64), Expect = 9.9
Identities = 19/95 (20%), Positives = 30/95 (31%), Gaps = 3/95 (3%)
Query: 354 PGLKEAFDSVANVIVDLERRVPLELKKDFASGNKNKQKKAAQQNKGGEKNQTAQGKKGTE 413
P E DS + +V R + L K + Q+KA + + K + +G
Sbjct: 606 PVELERVDSREDALV-FGRIITL--KDTWGKQGGGTQQKAEGKKRPSTKGRGPDEVRGEG 662
Query: 414 GKKEAGNEKEEETTPFIEHPGFHTVLKKLLQHDRD 448
A + E T L L + D
Sbjct: 663 SSSPAKAHAPKAQPLTPEQDAEFTRLLGLGASEGD 697
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
0.316 0.132 0.383
Gapped
Lambda K H
0.267 0.0716 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 12,016,885
Number of extensions: 731850
Number of successful extensions: 1524
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1447
Number of HSP's successfully gapped: 155
Length of query: 816
Length of database: 6,701,793
Length adjustment: 101
Effective length of query: 715
Effective length of database: 3,881,772
Effective search space: 2775466980
Effective search space used: 2775466980
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 (21.6 bits)
S2: 61 (27.3 bits)