RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7993
(300 letters)
>2ksn_A Ubiquitin domain-containing protein 2; UBTD2, DC-UBP, signaling
protein; NMR {Homo sapiens}
Length = 137
Score = 148 bits (374), Expect = 6e-45
Identities = 73/108 (67%), Positives = 87/108 (80%)
Query: 20 DNANAPNAGLRKNHPLCHEIIRWKSDVPLTEGQLRSKRDEFWDTAPAFEGRKEIWDALHA 79
+N+ L +N PL E +WKSD P+T+GQLRSKRDEFWDTAPAFEGRKEIWDAL A
Sbjct: 5 ENSEGTGVALGRNQPLKKEKPKWKSDYPMTDGQLRSKRDEFWDTAPAFEGRKEIWDALKA 64
Query: 80 AASAAEGNDFQLAQAILDGANISVPNGFLTESYDELGNKYMVPVYCLS 127
AA A E ND +LAQAI+DGANI++P+G LTE YDELGN+Y +PVYCL+
Sbjct: 65 AAHAFESNDHELAQAIIDGANITLPHGALTECYDELGNRYQLPVYCLA 112
>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 = 59.8 bits (145), Expect = 9e-12
Identities = 35/110 (31%), Positives = 59/110 (53%), Gaps = 9/110 (8%)
Query: 181 ITKETSGRDSPIEVFDLEEGVGGQEIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLE 240
+ +E S ++ G E L+LRLS T +D+++ V + +TV +K+RL + E
Sbjct: 1 MIEEKSDIETLDI--PEPPPNSGYECQLRLRLS-TGKDLKLVVRSTDTVFHMKRRLHAAE 57
Query: 241 GIETSKQRWYYGGKLLSDKMKISD--IQNLASGFVIQVIINNLAGPKLVP 288
G+E QRW++ G+ L+DKMK + I +V+QVI+ + P
Sbjct: 58 GVEPGSQRWFFSGRPLTDKMKFEELKIPK---DYVVQVIV-SQPVQNPTP 103
>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 = 50.8 bits (121), Expect = 3e-07
Identities = 48/286 (16%), Positives = 78/286 (27%), Gaps = 80/286 (27%)
Query: 27 AGLRKNHP--LCHEIIRWKSDVP----LTEGQLRSKRDEFWDTAPA----FEGRKEIWDA 76
R P L H + VP QL+ ++F P F E
Sbjct: 4 YSTR---PLTLSHGSLEHVLLVPTASFFIASQLQ---EQFNKILPEPTEGFAADDEP--- 54
Query: 77 LHAAASAAEGNDFQLAQAILDGANISVPNGFLTESYDELGNKYMVPVYCLSYLKFLLLHM 136
+ AE L L G+++ + V L L
Sbjct: 55 ----TTPAE-----LVGKFL---------GYVSSLVEPSKVGQFDQV-----LNLCLTEF 91
Query: 137 -SQPLR----HVLVCANCYFPHPGFLTESYDELGNKYMVPVYCLSYPINITKE------- 184
+ L H L A + L ++ + + N Y+ P +
Sbjct: 92 ENCYLEGNDIHALA-AKLLQENDTTLVKTKELIKN-YITARIMAKRPFDKKSNSALFRAV 149
Query: 185 TSGRDSPIEVFDLEEGVGGQ---EIALK-LR-LSNTCQDVRMKVFTQETVAMIKKRLQSL 239
G + +F GGQ + + LR L T V + + + L L
Sbjct: 150 GEGNAQLVAIF------GGQGNTDDYFEELRDLYQT-----YHVLVGDLIKFSAETLSEL 198
Query: 240 EGIETSKQRWYYGG----KLLSDKMKISDIQNLASGFV----IQVI 277
++ + G + L + D L S + I VI
Sbjct: 199 IRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVI 244
Score = 34.3 bits (78), Expect = 0.063
Identities = 37/277 (13%), Positives = 82/277 (29%), Gaps = 105/277 (37%)
Query: 59 EFWDTAPAFEGRKEIWDALHAAASAAEGNDFQLAQAILDG-ANISVPNG-----FLTESY 112
+ + T+ A +++W+ A + F + +++ N+++ G + E+Y
Sbjct: 1634 DLYKTSKAA---QDVWNR--ADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENY 1688
Query: 113 DELGNKYMVPVYCLSYLKFLLLHMSQPLRHVLVCANCYFPHP-GFL--TES--------- 160
+ + V + + +++ F G L T+
Sbjct: 1689 SAM--IFETIVDGKLKTEKIFKEINEHSTSYT------FRSEKGLLSATQFTQPALTLME 1740
Query: 161 ---YDELGNKYMVPV-----------Y----CLSYPINITKETSGRDSPIEVFDLEEGVG 202
+++L +K ++P Y L+ +V +E V
Sbjct: 1741 KAAFEDLKSKGLIPADATFAGHSLGEYAALASLA----------------DVMSIESLVE 1784
Query: 203 -----GQEIALKL-RLSNTCQDVRM---------KVFTQETVAMIKKRLQSLEGIETSKQ 247
G + + + R + M F+QE + + +R+ T
Sbjct: 1785 VVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGK----RT--- 1837
Query: 248 RWYYGGKLLSDKMKISDIQNL-ASGFVIQVIINNLAG 283
G L+ I N Q + AG
Sbjct: 1838 -----GWLVE-------IVNYNVENQ--QYVA---AG 1857
>4dbg_A Ranbp-type and C3HC4-type zinc finger-containing; ubiquitin fold,
ubiquitination, ligase; 2.71A {Homo sapiens} PDB: 2lgy_A
Length = 105
Score = 46.9 bits (111), Expect = 4e-07
Identities = 11/46 (23%), Positives = 19/46 (41%)
Query: 219 VRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
+ + V TVA +K + G Q+W G +L D+ +
Sbjct: 39 IWLTVRPDMTVASLKDMVFLDYGFPPVLQQWVIGQRLARDQETLHS 84
>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 = 45.4 bits (108), Expect = 8e-07
Identities = 14/73 (19%), Positives = 31/73 (42%), Gaps = 3/73 (4%)
Query: 205 EIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
I L ++ + V TV +K +LQ + + Q+ + GK+L + +
Sbjct: 12 TIKLTVKFGGKSIPLS--VSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVETSTLKQ 69
Query: 265 IQNLASGFVIQVI 277
++ SG + ++
Sbjct: 70 S-DVGSGAKLMLM 81
>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 = 45.6 bits (108), Expect = 1e-06
Identities = 19/83 (22%), Positives = 34/83 (40%), Gaps = 14/83 (16%)
Query: 203 GQEIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKI 262
GQ + L L++ + K ++ G+ KQ+ Y G + D +
Sbjct: 45 GQGLVFTLPLTDQVSVI-------------KVKIHEATGMPAGKQKLQYEGIFIKDSNSL 91
Query: 263 SDIQNLASGFVIQVIINNLAGPK 285
+ N+ASG VI + + +GP
Sbjct: 92 AYY-NMASGAVIHLALKERSGPS 113
>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 = 44.7 bits (106), Expect = 2e-06
Identities = 10/43 (23%), Positives = 21/43 (48%), Gaps = 2/43 (4%)
Query: 227 ETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQN 267
T+ +++R+ +L + QR +Y GK L + + D +
Sbjct: 30 ATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDYDVGL 72
>3m63_B Ubiquitin domain-containing protein DSK2; armadillo-like repeats,
UBL conjugation pathway, nucleus, phosphoprotein; HET:
1PE; 2.40A {Saccharomyces cerevisiae}
Length = 101
Score = 44.6 bits (106), Expect = 2e-06
Identities = 19/81 (23%), Positives = 32/81 (39%), Gaps = 4/81 (4%)
Query: 189 DSPIEVFDLEEGVGGQEIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQR 248
D I + G + + ++ +V V + TV K+ + GI + QR
Sbjct: 12 DYDIPTTENLYFQGAMSLNIHIKSGQDKWEVN--VAPESTVLQFKEAINKANGIPVANQR 69
Query: 249 WYYGGKLLSDKMKISD--IQN 267
Y GK+L D + IQ+
Sbjct: 70 LIYSGKILKDDQTVESYHIQD 90
>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 = 44.2 bits (105), Expect = 2e-06
Identities = 18/55 (32%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQN 267
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD IQ
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQR 63
>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 = 44.3 bits (105), Expect = 2e-06
Identities = 12/58 (20%), Positives = 25/58 (43%), Gaps = 1/58 (1%)
Query: 227 ETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVIQVIINNLAGP 284
V KK++ + + GK+L D+ +S + G + V++ + +GP
Sbjct: 37 SNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQR-GILDGSTVHVVVRSHSGP 93
>3n3k_B Ubiquitin; hydrolase, protease, thiol protease, DUB, zinc ribbon,
inhibitor, ubiqu acetylation, cytoplasm, isopeptide
bond, nucleus; 2.60A {Homo sapiens}
Length = 85
Score = 43.5 bits (103), Expect = 3e-06
Identities = 17/55 (30%), Positives = 29/55 (52%), Gaps = 2/55 (3%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQN 267
+ + ++V +T+ +K ++Q EGI +QR + GK L D +SD I N
Sbjct: 12 MGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIHN 66
>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 = 43.5 bits (103), Expect = 3e-06
Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 227 ETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVIQVIINNLAGPKL 286
+ V IK+R++ EGI +QR Y GK ++D+ +D + G V+ +++ G L
Sbjct: 21 DKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADY-KILGGSVLHLVLALRGGGGL 79
>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 = 43.6 bits (103), Expect = 4e-06
Identities = 18/55 (32%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQN 267
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD IQ
Sbjct: 10 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQK 64
>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 = 43.0 bits (102), Expect = 4e-06
Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 227 ETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQN 267
+ V IK+R++ EGI +QR Y GK ++D+ +D I
Sbjct: 21 DKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILG 63
>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 = 44.4 bits (105), Expect = 5e-06
Identities = 5/71 (7%), Positives = 18/71 (25%), Gaps = 1/71 (1%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVI 274
Q+ V V + + ++ +T + + + S + +
Sbjct: 9 EVQEDFEVVEEFTPVVLATPIPEEVQQAQTEIKLFNKWSFEEVEVKDASLV-DYVQVRQP 67
Query: 275 QVIINNLAGPK 285
+ +
Sbjct: 68 IFVAHTAGRYA 78
>1sif_A Ubiquitin; hydrophobic mutants, folding, stability, structural
protein; 2.18A {Homo sapiens} SCOP: d.15.1.1
Length = 88
Score = 42.7 bits (101), Expect = 6e-06
Identities = 17/55 (30%), Positives = 29/55 (52%), Gaps = 2/55 (3%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQN 267
T + +++ +T+ +K ++Q EGI +QR + GK L D +SD IQ
Sbjct: 18 TGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQK 72
>2l7r_A Ubiquitin-like protein FUBI; structural genomics, PSI-biology,
protein structure initiati northeast structural genomics
consortium, NESG; NMR {Homo sapiens}
Length = 93
Score = 42.8 bits (101), Expect = 7e-06
Identities = 21/81 (25%), Positives = 28/81 (34%), Gaps = 14/81 (17%)
Query: 203 GQEIALKLRLSNTCQDVRMKVF------------TQETVAMIKKRLQSLEGIETSKQRWY 250
G S M++F QETVA IK + SLEGI Q
Sbjct: 2 GSSHHHHHHSSGLVPRGSMQLFVRAQELHTFEVTGQETVAQIKAHVASLEGIAPEDQVVL 61
Query: 251 YGGKLLSDKMKISD--IQNLA 269
G L D+ + ++ L
Sbjct: 62 LAGAPLEDEATLGQCGVEALT 82
>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 = 42.3 bits (100), Expect = 7e-06
Identities = 11/43 (25%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 227 ETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQN 267
V +++++Q L +E QR +Y GK + D + D ++
Sbjct: 25 TKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDYEVRL 67
>2kk8_A Uncharacterized protein AT4G05270; solution arabidopsis thaliana,
uncharacterized putative protein, NESG, structural
genomics; NMR {Arabidopsis thaliana}
Length = 84
Score = 42.2 bits (100), Expect = 8e-06
Identities = 10/53 (18%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 227 ETVAMIKKRLQSLEGIETSKQRWYYGGK-LLSDKMKISDIQNLASGFVIQVII 278
+T+ ++K++++ + I SKQ G +L + + + + IQ+ +
Sbjct: 31 DTLLVVKQKIERSQHIPVSKQTLIVDGIVILREDLTVEQC-QIVPTSDIQLEV 82
>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 = 42.2 bits (100), Expect = 9e-06
Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 2/47 (4%)
Query: 223 VFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQN 267
V + TV K+ + GI + QR Y GK+L D + IQ+
Sbjct: 20 VAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQD 66
>2klc_A Ubiquilin-1; ubiquitin-like, structural genomics, PSI-2, protein
structur initiative, northeast structural genomics
consortium, NESG; NMR {Homo sapiens}
Length = 101
Score = 42.8 bits (101), Expect = 9e-06
Identities = 12/62 (19%), Positives = 24/62 (38%), Gaps = 1/62 (1%)
Query: 223 VFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVIQVIINNLA 282
V +V K+ + T + + GK+L D+ +S + G + ++I
Sbjct: 41 VPENSSVQQFKEEISKRFKSHTDQLVLIFAGKILKDQDTLSQH-GIHDGLTVHLVIKTQN 99
Query: 283 GP 284
P
Sbjct: 100 RP 101
>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 = 42.5 bits (100), Expect = 9e-06
Identities = 24/90 (26%), Positives = 47/90 (52%), Gaps = 4/90 (4%)
Query: 196 DLEEGVGGQEIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKL 255
D GVG + + LK+ + T DV+ V T + +K+++ S+ G+ + Q+ Y G +
Sbjct: 8 DAGGGVGKELVDLKIIWNKTKHDVK--VPLDSTGSELKQKIHSITGLPPAMQKVMYKGLV 65
Query: 256 LSDKMKISDIQNLASGFVIQVIINNLAGPK 285
+ + +I + SG I V+ + ++GP
Sbjct: 66 P-EDKTLREI-KVTSGAKIMVVGSTISGPS 93
>1yx5_B Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo sapiens} SCOP:
d.15.1.1 PDB: 1yx6_B
Length = 98
Score = 42.5 bits (100), Expect = 1e-05
Identities = 18/55 (32%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQN 267
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD IQ
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQK 63
>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 = 42.4 bits (100), Expect = 1e-05
Identities = 20/87 (22%), Positives = 36/87 (41%), Gaps = 21/87 (24%)
Query: 185 TSGRDSPIEVF--DLEEGVGGQEIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGI 242
+ G + + L G+EI + + + + V IK+R++ EGI
Sbjct: 6 SVGSGGSMLIKVKTLT----GKEIEIDIEPT-------------DKVERIKERVEEKEGI 48
Query: 243 ETSKQRWYYGGKLLSDKMKISD--IQN 267
+QR Y GK ++D+ +D I
Sbjct: 49 PPQQQRLIYSGKQMNDEKTAADYKILG 75
>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 = 42.3 bits (100), Expect = 1e-05
Identities = 18/55 (32%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQN 267
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD IQ
Sbjct: 12 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQK 66
>2kdi_A Ubiquitin, vacuolar protein sorting-associated protein 27 fusion
protein; ubiquitin interacting motif, UIM, protein
domain interface; NMR {Saccharomyces cerevisiae}
Length = 114
Score = 42.9 bits (101), Expect = 1e-05
Identities = 18/55 (32%), Positives = 31/55 (56%), Gaps = 2/55 (3%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQN 267
T + + ++V + +T+ +K ++Q EGI +QR + GK L D +SD IQ
Sbjct: 18 TGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDYNIQR 72
>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 = 42.5 bits (100), Expect = 1e-05
Identities = 13/58 (22%), Positives = 28/58 (48%), Gaps = 1/58 (1%)
Query: 227 ETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVIQVIINNLAGP 284
E V +K+++ I +KQ+ L D M ++ N+ +G ++ + + +GP
Sbjct: 52 ENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAHY-NVGAGEILTLSLRERSGP 108
>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 = 42.3 bits (100), Expect = 1e-05
Identities = 7/47 (14%), Positives = 19/47 (40%), Gaps = 2/47 (4%)
Query: 223 VFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQN 267
V T+ +K+ + + + GK+L D ++ +++
Sbjct: 38 VTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRD 84
>2ojr_A Ubiquitin; lanthide-binding TAG, terbium, TB, SAD phasing, protein
binding; 2.60A {Homo sapiens}
Length = 111
Score = 42.5 bits (100), Expect = 1e-05
Identities = 18/55 (32%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQN 267
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD IQ
Sbjct: 44 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQK 98
>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 = 41.9 bits (99), Expect = 2e-05
Identities = 16/85 (18%), Positives = 27/85 (31%), Gaps = 21/85 (24%)
Query: 187 GRDSPIEVF--DLEEGVGGQEIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIET 244
G +EV L Q + V K+ + + I +
Sbjct: 1 GEPDSLEVLVKTL----DSQTRTFIVGAQ-------------MNVKEFKEHIAASVSIPS 43
Query: 245 SKQRWYYGGKLLSDKMKISD--IQN 267
KQR Y G++L D K+ + +
Sbjct: 44 EKQRLIYQGRVLQDDKKLQEYNVGG 68
>4eew_A Large proline-rich protein BAG6; ubiquitin-like fold, GP78-binding,
chaperone; 1.30A {Homo sapiens}
Length = 88
Score = 41.5 bits (98), Expect = 2e-05
Identities = 14/55 (25%), Positives = 23/55 (41%), Gaps = 2/55 (3%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQN 267
Q V Q V K+ + + I + KQR Y G++L D K+ + +
Sbjct: 26 DSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNVGG 80
>2dzi_A Ubiquitin-like protein 4A; GDX, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 81
Score = 41.5 bits (98), Expect = 2e-05
Identities = 13/55 (23%), Positives = 27/55 (49%), Gaps = 2/55 (3%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQN 267
++ ++V E V+ +K+ + + +QR + GK L+D ++SD I
Sbjct: 16 QGRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADGKRLSDYSIGP 70
>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 = 42.0 bits (99), Expect = 2e-05
Identities = 14/76 (18%), Positives = 29/76 (38%), Gaps = 4/76 (5%)
Query: 227 ETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQNLASGFVIQVIINNLAGP 284
T+ K +L E S+ + Y GK+L D +S+ +++ V+ ++ +
Sbjct: 22 NTILETKTKLAQSISCEESQIKLIYSGKVLQDSKTVSECGLKD--GDQVVFMVSQKKSTK 79
Query: 285 KLVPPVESMKSVTSSS 300
V + S
Sbjct: 80 TKVTERDPNSSSVDKL 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 = 41.5 bits (97), Expect = 2e-05
Identities = 21/88 (23%), Positives = 36/88 (40%), Gaps = 4/88 (4%)
Query: 202 GGQEIALKLRLSN-TCQDVRMKVFTQETVAMIKKRLQSL--EGIETSKQRWYYGGKLLSD 258
G + L ++ N +D+ + +V +K L + E QR Y GKLL D
Sbjct: 4 GSSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLD 63
Query: 259 KMKISDI-QNLASGFVIQVIINNLAGPK 285
+ D+ V+ ++ N +GP
Sbjct: 64 HQCLRDLLPKQEKRHVLHLVCNVKSGPS 91
>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 = 41.6 bits (98), Expect = 3e-05
Identities = 9/67 (13%), Positives = 22/67 (32%), Gaps = 1/67 (1%)
Query: 223 VFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVIQVIINNLA 282
V T+ +K+ + + + GK+L D ++ + G + ++I
Sbjct: 33 VTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQC-GVRDGLTVHLVIKRQH 91
Query: 283 GPKLVPP 289
Sbjct: 92 RAMGNEC 98
>1j8c_A Ubiquitin-like protein hplic-2; ubiquitin-like domain, structural
genomics; NMR {Homo sapiens} SCOP: d.15.1.1
Length = 125
Score = 41.4 bits (97), Expect = 4e-05
Identities = 11/67 (16%), Positives = 24/67 (35%), Gaps = 1/67 (1%)
Query: 223 VFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVIQVIINNLA 282
V +V K+ + +T + + GK+L D+ + + G + ++I
Sbjct: 48 VPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQH-GIHDGLTVHLVIKRDP 106
Query: 283 GPKLVPP 289
V
Sbjct: 107 NSSSVDK 113
>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 = 39.3 bits (92), Expect = 1e-04
Identities = 8/55 (14%), Positives = 25/55 (45%), Gaps = 2/55 (3%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQN 267
+ + +K++++ +G+ +Q+ + G++L D + + IQ+
Sbjct: 16 DGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYGIQD 70
>2kdb_A Homocysteine-responsive endoplasmic reticulum- resident
ubiquitin-like domain member...; UBL domain, membrane,
polymorphism, transmembrane; NMR {Homo sapiens}
Length = 99
Score = 39.5 bits (92), Expect = 1e-04
Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 3/66 (4%)
Query: 203 GQEIALKLRLSN-TCQDVRMKVFTQETVAMIKKRLQSL--EGIETSKQRWYYGGKLLSDK 259
G + L ++ N D + F TV +K L ++ T QR Y G+LL D
Sbjct: 21 GHPVTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKPLTKDQRLVYSGRLLPDH 80
Query: 260 MKISDI 265
+++ DI
Sbjct: 81 LQLKDI 86
>2kan_A Uncharacterized protein AR3433A; ubiquitin fold, alpha+beta,
structural genomics, protein structure initiative; NMR
{Arabidopsis thaliana}
Length = 94
Score = 39.3 bits (92), Expect = 1e-04
Identities = 13/44 (29%), Positives = 22/44 (50%), Gaps = 5/44 (11%)
Query: 227 ETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLAS 270
ETV+ +K ++ +E + + YY G L+D D +NL
Sbjct: 35 ETVSSLKDKIHIVENTPIKRMQLYYSGIELAD-----DYRNLNE 73
>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 = 38.1 bits (89), Expect = 2e-04
Identities = 12/55 (21%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQN 267
+ +V +TVA +K+++ LEG++ + GK L D++ + + ++
Sbjct: 13 KGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKP 67
>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 = 37.7 bits (88), Expect = 3e-04
Identities = 6/43 (13%), Positives = 21/43 (48%), Gaps = 2/43 (4%)
Query: 227 ETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQN 267
++ +K+ + +G+ + R + GK L + + + + ++
Sbjct: 21 TSILQLKEVVAKQQGVPADQLRVIFAGKELPNHLTVQNCDLEQ 63
>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 = 39.6 bits (92), Expect = 3e-04
Identities = 18/63 (28%), Positives = 34/63 (53%), Gaps = 2/63 (3%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQNLASGF 272
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD IQ ++
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLH 68
Query: 273 VIQ 275
++
Sbjct: 69 LVL 71
Score = 35.8 bits (82), Expect = 0.005
Identities = 16/43 (37%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 227 ETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQN 267
+T+ +K ++Q EGI +QR + GK L D +SD IQ
Sbjct: 97 DTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQK 139
>3phx_B Ubiquitin-like protein ISG15; OTU domain, DE-ubiquitinase,
DE-isgylase, hydrolase-protein complex; 1.60A {Homo
sapiens}
Length = 79
Score = 37.7 bits (88), Expect = 3e-04
Identities = 12/55 (21%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQN 267
+ +V +TVA +K+++ LEG++ + GK L D++ + + ++
Sbjct: 13 KGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKP 67
>3q3f_A Ribonuclease/ubiquitin chimeric protein; domain SWAP,
oligomerization, ubiquitin insertion, hydrolase binding;
2.17A {Bacillus amyloliquefaciens}
Length = 189
Score = 39.6 bits (92), Expect = 5e-04
Identities = 18/77 (23%), Positives = 37/77 (48%), Gaps = 1/77 (1%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVI 274
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD N+ +
Sbjct: 114 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY-NIQKESTL 172
Query: 275 QVIINNLAGPKLVPPVE 291
+++ G + +
Sbjct: 173 HLVLRLRGGGQTFTKIR 189
Score = 31.1 bits (70), Expect = 0.27
Identities = 6/56 (10%), Positives = 13/56 (23%)
Query: 204 QEIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDK 259
Q + N K + + + +L G + Y +
Sbjct: 32 QALGWVASKGNLADVAPGKSIGGDIFSNREGKLPGKSGRTWREADINYTSGFRNSD 87
>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 = 37.2 bits (87), Expect = 6e-04
Identities = 17/56 (30%), Positives = 32/56 (57%), Gaps = 7/56 (12%)
Query: 227 ETVAMIKKRLQSLEG---IETSKQRWYYGGKLLSDKMKISD--IQNLASGFVIQVI 277
ETV ++K+++++ +G + Q+ Y GK+LSD + I D I FV+ ++
Sbjct: 26 ETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDE--KNFVVVMV 79
>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 = 37.7 bits (87), Expect = 8e-04
Identities = 16/53 (30%), Positives = 29/53 (54%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQN 267
T + + ++V + +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 9 TGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 61
>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 = 36.9 bits (86), Expect = 0.001
Identities = 13/46 (28%), Positives = 25/46 (54%), Gaps = 5/46 (10%)
Query: 227 ETVAMIKKRLQSLEG---IETSKQRWYYGGKLLSDKMKISD--IQN 267
ETV +K++++S +G + Q+ Y GK+L+D + + I
Sbjct: 21 ETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDE 66
>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 = 36.9 bits (85), Expect = 0.001
Identities = 22/99 (22%), Positives = 39/99 (39%), Gaps = 9/99 (9%)
Query: 202 GGQEIALKLRLSN-TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKM 260
G I ++L+ N T + + ++TV +K + + S+ + Y G+LL D
Sbjct: 4 GSSGINVRLKFLNDTEELAVAR--PEDTVGTLKSKYFP---GQESQMKLIYQGRLLQDPA 58
Query: 261 KISDIQNLASGFVIQVIINNLAGPKLVPPVESMKSVTSS 299
+ N+ + VI + P S S SS
Sbjct: 59 RTLSSLNITNNCVIHCHRSP---PGAAVSGPSASSGPSS 94
>3u30_A Ubiquitin, linear DI-ubiquitin; immune system; 2.43A {Homo sapiens}
Length = 172
Score = 38.1 bits (88), Expect = 0.001
Identities = 20/83 (24%), Positives = 42/83 (50%), Gaps = 1/83 (1%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVI 274
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD N+ +
Sbjct: 29 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD-YNIQKESTL 87
Query: 275 QVIINNLAGPKLVPPVESMKSVT 297
+++ G ++ + K++T
Sbjct: 88 HLVLRLRGGMQIFVKTLTGKTIT 110
Score = 35.4 bits (81), Expect = 0.009
Identities = 16/43 (37%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 227 ETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQN 267
+T+ +K ++Q EGI +QR + GK L D +SD IQ
Sbjct: 117 DTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQK 159
>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 = 36.8 bits (85), Expect = 0.001
Identities = 16/74 (21%), Positives = 33/74 (44%), Gaps = 4/74 (5%)
Query: 225 TQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVIQVIINNLAGP 284
T E + K +L +L G++ ++Q+ G L D +I + +G + ++ + A P
Sbjct: 26 TDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD-DWGNI-KMKNGMTVLMMGSADALP 83
Query: 285 KLVPPVESMKSVTS 298
+ P +S
Sbjct: 84 E--EPSAKTSGPSS 95
>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 = 37.6 bits (87), Expect = 0.002
Identities = 11/62 (17%), Positives = 28/62 (45%), Gaps = 3/62 (4%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYY--GGKLLSDKMKISDIQNLASGF 272
+ ++ + + +V+ +K ++ G+ +QR G L D++ ++ Q L G
Sbjct: 11 AGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLAS-QGLGPGS 69
Query: 273 VI 274
+
Sbjct: 70 TV 71
Score = 36.1 bits (83), Expect = 0.005
Identities = 11/43 (25%), Positives = 25/43 (58%), Gaps = 2/43 (4%)
Query: 227 ETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQN 267
+TVA +K+++ LEG++ + GK L D++ + + ++
Sbjct: 102 QTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKP 144
>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 = 37.5 bits (86), Expect = 0.004
Identities = 18/55 (32%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQN 267
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD IQ
Sbjct: 242 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQK 296
>2xzm_9 RPS31E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_9
Length = 189
Score = 36.6 bits (84), Expect = 0.004
Identities = 6/38 (15%), Positives = 14/38 (36%)
Query: 227 ETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
+V +K ++ G E G + + ++D
Sbjct: 21 TSVLDLKSQISQDMGFEIDMMTLVNNGFIAPNTELVTD 58
>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 = 37.3 bits (85), Expect = 0.004
Identities = 21/77 (27%), Positives = 39/77 (50%), Gaps = 3/77 (3%)
Query: 227 ETVAMIKKRLQSLEG---IETSKQRWYYGGKLLSDKMKISDIQNLASGFVIQVIINNLAG 283
ETV ++K+++++ +G + Q+ Y GK+LSD + I D + FV+ ++ AG
Sbjct: 28 ETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVTKTKAG 87
Query: 284 PKLVPPVESMKSVTSSS 300
P E+ + S
Sbjct: 88 QGTSAPPEASPTAAPES 104
>1t0y_A Tubulin folding cofactor B; ubiquitin-like, cytoskeleton,
microtubule, CESG, structural genomics, protein
structure initiative, PSI; NMR {Caenorhabditis elegans}
SCOP: d.15.1.1
Length = 122
Score = 35.7 bits (82), Expect = 0.005
Identities = 15/94 (15%), Positives = 28/94 (29%), Gaps = 10/94 (10%)
Query: 202 GGQEIALKLRLSNTCQDVRM--KVFTQETVAMIKKRLQSLEGIETSKQRWYY-------G 252
G L ++ D M K ++ +KK+L+ + G R
Sbjct: 1 GSMTEVYDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLK 60
Query: 253 GKLLSDKMKISDIQNLASGFVIQVIINNLAGPKL 286
G+L + D + G+ I +
Sbjct: 61 GELTDGAKSLKD-LGVRDGYRIHAVDVTGGNEDF 93
>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 = 34.2 bits (78), Expect = 0.011
Identities = 10/85 (11%), Positives = 33/85 (38%), Gaps = 7/85 (8%)
Query: 207 ALKLRLSNTCQDVRMKVFTQE-----TVAMIKKRLQSLEGIETSKQRWYYGGKLLSD-KM 260
+ + + +D+ F+ + ++ + + G+ + + Y +LL+D
Sbjct: 7 GMLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHC 66
Query: 261 KISDIQNLASGFVIQVIINNLAGPK 285
+ L G ++ ++ + G +
Sbjct: 67 SLGSY-GLKDGDMVVLLQKDNVGLR 90
>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 = 34.9 bits (80), Expect = 0.013
Identities = 16/50 (32%), Positives = 29/50 (58%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V + +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 9 TGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58
>1wxv_A BAG-family molecular chaperone regulator-1; structural genomics,
apoptosis, riken structural genomics/proteomics
initiative, RSGI, NPPSFA; NMR {Homo sapiens} SCOP:
d.15.1.1
Length = 92
Score = 32.4 bits (73), Expect = 0.030
Identities = 11/65 (16%), Positives = 27/65 (41%)
Query: 221 MKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVIQVIINN 280
+ ++ V + + ++ + G+ S Q+ + GK L + + G + +I
Sbjct: 26 QQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLIGKK 85
Query: 281 LAGPK 285
+GP
Sbjct: 86 NSGPS 90
>3plu_A Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-1, SNU66, peptide
binding protein; 1.40A {Saccharomyces cerevisiae} PDB:
3plv_A 1m94_A 1p0r_A
Length = 93
Score = 32.2 bits (73), Expect = 0.036
Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 3/60 (5%)
Query: 205 EIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
E+ + RL VR+K +++V KK L G + +K GG +L D + + D
Sbjct: 23 EVVVNDRLGKK---VRVKCLGEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLED 79
>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 = 31.9 bits (72), Expect = 0.092
Identities = 9/38 (23%), Positives = 18/38 (47%)
Query: 227 ETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
TV +K+ ++ + +QR Y +LL D + +
Sbjct: 22 STVFELKRIVEGILKRPPEEQRLYKDDQLLDDGKTLGE 59
>2io0_B Small ubiquitin-related modifier 2 precursor; SUMO, SENP, ULP,
complex, protein binding, hydrolase; 2.30A {Homo
sapiens} SCOP: d.15.1.1
Length = 91
Score = 29.8 bits (67), Expect = 0.25
Identities = 12/83 (14%), Positives = 31/83 (37%), Gaps = 2/83 (2%)
Query: 201 VGGQEIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKM 260
+ I LK+ V+ K+ ++ + K +G+ + R+ + G+ +++
Sbjct: 1 MANDHINLKVA-GQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETD 59
Query: 261 KISDIQNLASGFVIQVIINNLAG 283
+ + + I V G
Sbjct: 60 TPAQL-EMEDEDTIDVFQQQTGG 81
>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 = 29.1 bits (64), Expect = 0.96
Identities = 9/38 (23%), Positives = 14/38 (36%), Gaps = 11/38 (28%)
Query: 43 KSDVPLTEGQLRSKRDEFWDTAPAFEGRKEIWDALHAA 80
K + + L+ D D+APA A+ A
Sbjct: 19 KQALKKLQASLKLYAD---DSAPAL--------AIKAT 45
>3abf_A 4-oxalocrotonate tautomerase; isomerase; 1.94A {Thermus
thermophilus}
Length = 64
Score = 27.3 bits (61), Expect = 1.4
Identities = 10/41 (24%), Positives = 20/41 (48%), Gaps = 2/41 (4%)
Query: 221 MKVFTQETVAMIKKRLQSLEGI--ETSKQRWYYGGKLLSDK 259
++ T+ ++ + + + I E + +W GG L SDK
Sbjct: 21 VRRLTEMASRLLGEPYEEVRVILYEVRRDQWAAGGVLFSDK 61
>2x4k_A 4-oxalocrotonate tautomerase; isomerase; 1.10A {Staphylococcus
aureus}
Length = 63
Score = 26.9 bits (60), Expect = 1.7
Identities = 6/41 (14%), Positives = 12/41 (29%), Gaps = 2/41 (4%)
Query: 221 MKVFTQETVAMIKKRLQSLEGI--ETSKQRWYYGGKLLSDK 259
+ T Q++ + E + G SD+
Sbjct: 23 VSEVTDAVEKTTGANRQAIHVVIEEMKPNHYGVAGVRKSDQ 63
>2dzm_A FAS-associated factor 1; ubiquitin-like domain, HFAF1, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 100
Score = 27.7 bits (61), Expect = 1.9
Identities = 16/79 (20%), Positives = 32/79 (40%), Gaps = 2/79 (2%)
Query: 208 LKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWY-YGGKLLSDKMKISDIQ 266
L R+ ++V + + TV IK+ L++ I SK + + D + +
Sbjct: 10 LDFRVEYRDRNVDVVLEDTCTVGEIKQILENELQIPVSKMLLKGWKTGDVEDSTVLKSL- 68
Query: 267 NLASGFVIQVIINNLAGPK 285
+L + V+ +L P
Sbjct: 69 HLPKNNSLYVLTPDLPPPS 87
>4fx5_A VON willebrand factor type A; structural genomics, PSI-biology,
midwest center for structu genomics, MCSG, blood
clotting; HET: MSE; 1.73A {Catenulispora acidiphila}
Length = 464
Score = 28.0 bits (62), Expect = 3.8
Identities = 10/57 (17%), Positives = 15/57 (26%), Gaps = 4/57 (7%)
Query: 72 EIWDALHAAASAAEGNDFQLAQAIL--DGANISVPNGFLTESYDELGNKYMVPVYCL 126
+ L A + + AIL DG + S L + C
Sbjct: 161 AMGRWLAQAGRIFDTAPSAIKHAILLTDGKDESETPADLARAIQSSIGN--FTADCR 215
>3a4r_A Nfatc2-interacting protein; ubiquitin fold, coiled coil, cytoplasm,
methylation, nucleus, transcription; 1.00A {Mus
musculus} PDB: 3a4s_C 3rd2_A
Length = 79
Score = 25.9 bits (57), Expect = 4.9
Identities = 17/75 (22%), Positives = 36/75 (48%), Gaps = 1/75 (1%)
Query: 202 GGQEIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMK 261
G QE+ L+++ Q + + + + ++ + G+ K +++ G LS K
Sbjct: 4 GSQELRLRVQGKEKHQMLEISLSPDSPLKVLMSHYEEAMGLSGHKLSFFFDGTKLSGKEL 63
Query: 262 ISDIQNLASGFVIQV 276
+D+ L SG +I+V
Sbjct: 64 PADL-GLESGDLIEV 77
>3ui2_A Signal recognition particle 43 kDa protein, chlor; ankyrin repeat,
chromodomain, aromatic CAGE, signal recognit particle,
protein targeting; 3.18A {Arabidopsis thaliana} PDB:
1x3q_A 2hug_A
Length = 244
Score = 27.2 bits (61), Expect = 6.7
Identities = 8/48 (16%), Positives = 14/48 (29%), Gaps = 12/48 (25%)
Query: 66 AFEGRKEIWDALHAAA------------SAAEGNDFQLAQAILDGANI 101
+G W A +AA D Q +L+ ++
Sbjct: 23 WKDGHSPSWVPSSYIAADVVSEYETPWWTAARKADEQALSQLLEDRDV 70
>3deo_A Signal recognition particle 43 kDa protein; chloroplast SRP system,
signal sequence, ankyrin repeat, chromodomain, type I
turn; 1.50A {Arabidopsis thaliana} SCOP: b.34.13.2
k.37.1.1 PDB: 3dep_A 1x32_A
Length = 183
Score = 26.7 bits (60), Expect = 8.6
Identities = 8/48 (16%), Positives = 14/48 (29%), Gaps = 12/48 (25%)
Query: 66 AFEGRKEIWDALHAAA------------SAAEGNDFQLAQAILDGANI 101
+G W A +AA D Q +L+ ++
Sbjct: 22 WKDGHSPSWVPSSYIAADVVSEYETPWWTAARKADEQALSQLLEDRDV 69
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.319 0.135 0.408
Gapped
Lambda K H
0.267 0.0561 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,584,586
Number of extensions: 267470
Number of successful extensions: 546
Number of sequences better than 10.0: 1
Number of HSP's gapped: 539
Number of HSP's successfully gapped: 78
Length of query: 300
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 207
Effective length of database: 4,105,140
Effective search space: 849763980
Effective search space used: 849763980
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (26.1 bits)