RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10057
(99 letters)
>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 = 80.2 bits (198), Expect = 2e-21
Identities = 39/76 (51%), Positives = 50/76 (65%), Gaps = 1/76 (1%)
Query: 19 KKIRSEESLIPEQVFLSKMATPNVTFNVVVPNMTDKPEWKLNGQTLSLSLDLRTSVTALK 78
+E+SL+PE+ FL + P V+ V VPNM DK EWKLNGQ L +L L V+ +K
Sbjct: 4 GSSGTEDSLMPEEEFLRRNKGP-VSIKVQVPNMQDKTEWKLNGQGLVFTLPLTDQVSVIK 62
Query: 79 SQIHDLIGMPAGKQKL 94
+IH+ GMPAGKQKL
Sbjct: 63 VKIHEATGMPAGKQKL 78
>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 = 55.6 bits (134), Expect = 1e-11
Identities = 28/81 (34%), Positives = 41/81 (50%), Gaps = 10/81 (12%)
Query: 16 PVGKKIRSEES-LIPEQVFLSKMATPNVTFNVVVPNMTDKPEWKLNGQTLSLSLD-LRTS 73
G + +ES L+PE FL++ P T V PN D GQ + +++ L +
Sbjct: 2 SSGSSGKFDESALVPEDQFLAQHPGP-ATIRVSKPNEND-------GQFMEITVQSLSEN 53
Query: 74 VTALKSQIHDLIGMPAGKQKL 94
V +LK +I I +PA KQKL
Sbjct: 54 VGSLKEKIAGEIQIPANKQKL 74
>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 = 38.6 bits (90), Expect = 3e-05
Identities = 10/37 (27%), Positives = 19/37 (51%)
Query: 58 KLNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
N + + L ++ + LK +IH + G+P QK+
Sbjct: 23 IWNKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKV 59
>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 = 38.0 bits (89), Expect = 3e-05
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 58 KLNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
K G+++ LS+ +V LKSQ+ + + QKL
Sbjct: 18 KFGGKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKL 54
>4eew_A Large proline-rich protein BAG6; ubiquitin-like fold,
GP78-binding, chaperone; 1.30A {Homo sapiens}
Length = 88
Score = 36.1 bits (84), Expect = 2e-04
Identities = 10/36 (27%), Positives = 19/36 (52%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
L+ QT + + + +V K I + +P+ KQ+L
Sbjct: 25 LDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRL 60
>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 = 37.1 bits (86), Expect = 2e-04
Identities = 3/36 (8%), Positives = 9/36 (25%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
+ Q ++ T V ++ +
Sbjct: 8 VEVQEDFEVVEEFTPVVLATPIPEEVQQAQTEIKLF 43
>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 = 35.7 bits (83), Expect = 3e-04
Identities = 10/36 (27%), Positives = 19/36 (52%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
L+ QT + + + +V K I + +P+ KQ+L
Sbjct: 13 LDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRL 48
>3shq_A UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila melanogaster}
Length = 320
Score = 36.7 bits (84), Expect = 4e-04
Identities = 12/58 (20%), Positives = 21/58 (36%), Gaps = 11/58 (18%)
Query: 37 MATPNVTFNVVVPNMTDKPEWKLNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
M V V K +G+ + L + +V L+ +I + +QKL
Sbjct: 1 MEVKEVVVIV-----------KWSGKEYPVDLTDQDTVEVLRHEIFRKTQVRPERQKL 47
>2xzm_9 RPS31E; ribosome, translation; 3.93A {Tetrahymena thermophila}
PDB: 2xzn_9
Length = 189
Score = 36.2 bits (83), Expect = 5e-04
Identities = 14/36 (38%), Positives = 18/36 (50%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
L G+T +L+ TSV LKSQI +G L
Sbjct: 8 LEGETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTL 43
>2kan_A Uncharacterized protein AR3433A; ubiquitin fold, alpha+beta,
structural genomics, protein structure initiative; NMR
{Arabidopsis thaliana}
Length = 94
Score = 33.9 bits (78), Expect = 0.002
Identities = 9/37 (24%), Positives = 20/37 (54%)
Query: 58 KLNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
K + ++ +D +V++LK +IH + P + +L
Sbjct: 21 KFPSKQFTVEVDRTETVSSLKDKIHIVENTPIKRMQL 57
>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 = 33.0 bits (76), Expect = 0.002
Identities = 8/36 (22%), Positives = 20/36 (55%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
L G+ + + ++ V +K ++ + G+P +Q+L
Sbjct: 8 LTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRL 43
>2dzi_A Ubiquitin-like protein 4A; GDX, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 81
Score = 33.4 bits (77), Expect = 0.002
Identities = 10/36 (27%), Positives = 19/36 (52%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
L G+ SL + V+ LK + + + +P +Q+L
Sbjct: 15 LQGRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRL 50
>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 = 33.1 bits (76), Expect = 0.002
Identities = 8/36 (22%), Positives = 20/36 (55%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
L G+ + + ++ V +K ++ + G+P +Q+L
Sbjct: 20 LTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRL 55
>2kk8_A Uncharacterized protein AT4G05270; solution arabidopsis thaliana,
uncharacterized putative protein, NESG, structural
genomics; NMR {Arabidopsis thaliana}
Length = 84
Score = 33.4 bits (77), Expect = 0.002
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
LNG + L +D R ++ +K +I +P KQ L
Sbjct: 18 LNGSSFELEVDYRDTLLVVKQKIERSQHIPVSKQTL 53
>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 = 33.1 bits (76), Expect = 0.002
Identities = 8/36 (22%), Positives = 20/36 (55%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
L G+ + + ++ V +K ++ + G+P +Q+L
Sbjct: 8 LTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRL 43
>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 = 31.6 bits (72), Expect = 0.008
Identities = 11/37 (29%), Positives = 24/37 (64%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKLH 95
L G+T++L ++ ++ +K++I D G+P +Q+L
Sbjct: 11 LTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLI 47
>3n3k_B Ubiquitin; hydrolase, protease, thiol protease, DUB, zinc ribbon,
inhibitor, ubiqu acetylation, cytoplasm, isopeptide
bond, nucleus; 2.60A {Homo sapiens}
Length = 85
Score = 31.6 bits (72), Expect = 0.010
Identities = 11/37 (29%), Positives = 23/37 (62%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKLH 95
L G+T+ L ++ ++ +K++I D G+P +Q+L
Sbjct: 11 LMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLI 47
>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 = 31.2 bits (71), Expect = 0.016
Identities = 9/36 (25%), Positives = 17/36 (47%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
G+ L L + +V +K ++H G+ G Q+
Sbjct: 31 STGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRW 66
>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 = 31.2 bits (71), Expect = 0.019
Identities = 6/36 (16%), Positives = 15/36 (41%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
+ + L L+ ++ K+++ I + KL
Sbjct: 9 FKKEKVPLDLEPSNTILETKTKLAQSISCEESQIKL 44
>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 = 31.1 bits (70), Expect = 0.028
Identities = 16/41 (39%), Positives = 23/41 (56%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKLHLDVS 99
L G +SL SV+ LK+QI IG+ A +Q+L + S
Sbjct: 10 LAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPS 50
>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 = 30.0 bits (68), Expect = 0.032
Identities = 8/36 (22%), Positives = 17/36 (47%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
+ + +D TS+ LK + G+PA + ++
Sbjct: 8 NSSYGFPVEVDSDTSILQLKEVVAKQQGVPADQLRV 43
>2ojr_A Ubiquitin; lanthide-binding TAG, terbium, TB, SAD phasing,
protein binding; 2.60A {Homo sapiens}
Length = 111
Score = 30.6 bits (69), Expect = 0.034
Identities = 11/37 (29%), Positives = 24/37 (64%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKLH 95
L G+T++L ++ ++ +K++I D G+P +Q+L
Sbjct: 43 LTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLI 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 = 30.1 bits (68), Expect = 0.036
Identities = 11/37 (29%), Positives = 24/37 (64%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKLH 95
L G+T++L ++ ++ +K++I D G+P +Q+L
Sbjct: 9 LTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLI 45
>1sif_A Ubiquitin; hydrophobic mutants, folding, stability, structural
protein; 2.18A {Homo sapiens} SCOP: d.15.1.1
Length = 88
Score = 30.0 bits (68), Expect = 0.043
Identities = 11/37 (29%), Positives = 23/37 (62%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKLH 95
L G+T ++ ++ ++ LK++I D G+P +Q+L
Sbjct: 17 LTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLI 53
>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 = 29.7 bits (67), Expect = 0.052
Identities = 10/36 (27%), Positives = 21/36 (58%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
+G + + +++ + + LK QI D G+P +Q+L
Sbjct: 15 PDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQL 50
>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 = 30.0 bits (67), Expect = 0.057
Identities = 12/37 (32%), Positives = 24/37 (64%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKLH 95
L G+T++L ++ ++ +KS+I D G+P +Q+L
Sbjct: 8 LTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLI 44
>2kdi_A Ubiquitin, vacuolar protein sorting-associated protein 27 fusion
protein; ubiquitin interacting motif, UIM, protein
domain interface; NMR {Saccharomyces cerevisiae}
Length = 114
Score = 29.8 bits (67), Expect = 0.058
Identities = 12/37 (32%), Positives = 24/37 (64%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKLH 95
L G+T++L ++ ++ +KS+I D G+P +Q+L
Sbjct: 17 LTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLI 53
>1yx5_B Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo sapiens} SCOP:
d.15.1.1 PDB: 1yx6_B
Length = 98
Score = 29.8 bits (67), Expect = 0.062
Identities = 11/37 (29%), Positives = 24/37 (64%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKLH 95
L G+T++L ++ ++ +K++I D G+P +Q+L
Sbjct: 8 LTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLI 44
>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 = 29.2 bits (66), Expect = 0.072
Identities = 11/37 (29%), Positives = 24/37 (64%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKLH 95
L G+T++L ++ ++ +K++I D G+P +Q+L
Sbjct: 8 LTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLI 44
>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 = 29.3 bits (65), Expect = 0.080
Identities = 6/38 (15%), Positives = 17/38 (44%)
Query: 58 KLNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKLH 95
+ + + + L+ +V +K + + + +P K L
Sbjct: 15 EYRDRNVDVVLEDTCTVGEIKQILENELQIPVSKMLLK 52
>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 = 29.3 bits (66), Expect = 0.084
Identities = 8/37 (21%), Positives = 12/37 (32%)
Query: 58 KLNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
K L ++V K QI + A + L
Sbjct: 23 KTPQDCHEFFLAENSNVRRFKKQISKYLHCNADRLVL 59
>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 = 29.2 bits (66), Expect = 0.088
Identities = 6/37 (16%), Positives = 11/37 (29%)
Query: 58 KLNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
K S+ ++ LK +I + L
Sbjct: 28 KTPKDKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVL 64
>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 = 28.7 bits (65), Expect = 0.089
Identities = 8/37 (21%), Positives = 16/37 (43%)
Query: 58 KLNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
K +++ ++V K I+ G+P Q+L
Sbjct: 10 KSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRL 46
>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 = 29.6 bits (66), Expect = 0.11
Identities = 11/39 (28%), Positives = 24/39 (61%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKLHLD 97
L G+T++L ++ ++ +K++I D G+P +Q+L
Sbjct: 8 LTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFA 46
>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 = 28.7 bits (64), Expect = 0.12
Identities = 8/39 (20%), Positives = 16/39 (41%), Gaps = 1/39 (2%)
Query: 58 KLNGQTLS-LSLDLRTSVTALKSQIHDLIGMPAGKQKLH 95
K + + L+ K+Q+ L G+ +QK+
Sbjct: 13 KWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVM 51
>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 = 28.4 bits (64), Expect = 0.13
Identities = 12/39 (30%), Positives = 17/39 (43%), Gaps = 3/39 (7%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIG---MPAGKQKL 94
L QT + ++ +V LK +I G P QKL
Sbjct: 13 LQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKL 51
>2kj6_A Tubulin folding cofactor B; methods development, NESG, solution
PSI-2, structural genomics, protein structure
initiative; NMR {Arabidopsis thaliana}
Length = 97
Score = 28.3 bits (63), Expect = 0.17
Identities = 8/38 (21%), Positives = 13/38 (34%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKLHL 96
L + + SV A+K ++ G L L
Sbjct: 24 LKSFSADARFSPQMSVEAVKEKLWKKCGTSVNSMALEL 61
>2kjr_A CG11242; UBL, ubiquitin, ubiquitin-like, structural genomics,
PSI-2, protein structure initiative; NMR {Drosophila
melanogaster}
Length = 95
Score = 28.3 bits (63), Expect = 0.18
Identities = 12/62 (19%), Positives = 21/62 (33%), Gaps = 8/62 (12%)
Query: 35 SKMATPNVTFNVVVPNMTDKPEWKLNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
S + + NV + L +V LK+++ L G AG K+
Sbjct: 9 SHGKSDFIKVNVSNSHNDAVAFEV--------KLAKDLTVAQLKTKLEILTGGCAGTMKV 60
Query: 95 HL 96
+
Sbjct: 61 QV 62
>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 = 28.3 bits (63), Expect = 0.19
Identities = 13/38 (34%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 58 KLNGQTLSL-SLDLRTSVTALKSQIHDLIGMPAGKQKL 94
K GQ S+ +L +V LK + L G+ +QKL
Sbjct: 13 KWGGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKL 50
>3u30_A Ubiquitin, linear DI-ubiquitin; immune system; 2.43A {Homo
sapiens}
Length = 172
Score = 28.9 bits (64), Expect = 0.22
Identities = 11/39 (28%), Positives = 24/39 (61%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKLHLD 97
L G+T++L ++ ++ +K++I D G+P +Q+L
Sbjct: 28 LTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFA 66
>3q3f_A Ribonuclease/ubiquitin chimeric protein; domain SWAP,
oligomerization, ubiquitin insertion, hydrolase binding;
2.17A {Bacillus amyloliquefaciens}
Length = 189
Score = 28.8 bits (64), Expect = 0.22
Identities = 11/54 (20%), Positives = 26/54 (48%)
Query: 42 VTFNVVVPNMTDKPEWKLNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKLH 95
+ + L G+T++L ++ ++ +K++I D G+P +Q+L
Sbjct: 96 LIYKTTDHYGGQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLI 149
>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 = 28.9 bits (64), Expect = 0.26
Identities = 23/101 (22%), Positives = 36/101 (35%), Gaps = 29/101 (28%)
Query: 3 RKHPAPEPQLDEEPVGKKIR-SEESLIPEQVFLSKMATPNVTFNVVVPNMTD-------- 53
RK AP LD+ +I SE L FL +A+P F+ +
Sbjct: 394 RKAKAP-SGLDQ----SRIPFSERKLKFSNRFL-PVASP---FHS--HLLVPASDLINKD 442
Query: 54 --KPEWKLNGQTLSLSL-------DLRTSVTALKSQIHDLI 85
K N + + + + DLR ++ +I D I
Sbjct: 443 LVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCI 483
>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 = 28.4 bits (63), Expect = 0.27
Identities = 12/36 (33%), Positives = 24/36 (66%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
L G+T++L ++ ++ +KS+I D G+P +Q+L
Sbjct: 8 LTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRL 43
>3m63_B Ubiquitin domain-containing protein DSK2; armadillo-like repeats,
UBL conjugation pathway, nucleus, phosphoprotein; HET:
1PE; 2.40A {Saccharomyces cerevisiae}
Length = 101
Score = 27.7 bits (62), Expect = 0.30
Identities = 8/37 (21%), Positives = 16/37 (43%)
Query: 58 KLNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
K +++ ++V K I+ G+P Q+L
Sbjct: 34 KSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRL 70
>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 = 28.0 bits (62), Expect = 0.34
Identities = 5/29 (17%), Positives = 12/29 (41%)
Query: 68 LDLRTSVTALKSQIHDLIGMPAGKQKLHL 96
S+ LK ++ ++G ++ L
Sbjct: 24 YPAGMSLNDLKKKLELVVGTTVDSMRIQL 52
>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 = 28.4 bits (62), Expect = 0.34
Identities = 12/39 (30%), Positives = 17/39 (43%), Gaps = 3/39 (7%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIG---MPAGKQKL 94
L QT + ++ +V LK +I G P QKL
Sbjct: 15 LQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKL 53
>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 = 27.3 bits (61), Expect = 0.37
Identities = 14/39 (35%), Positives = 18/39 (46%), Gaps = 3/39 (7%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIG---MPAGKQKL 94
L QT + +D +V ALK +I G P QKL
Sbjct: 8 LQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKL 46
>4dbg_A Ranbp-type and C3HC4-type zinc finger-containing; ubiquitin fold,
ubiquitination, ligase; 2.71A {Homo sapiens} PDB:
2lgy_A
Length = 105
Score = 27.7 bits (61), Expect = 0.41
Identities = 15/72 (20%), Positives = 30/72 (41%), Gaps = 4/72 (5%)
Query: 23 SEESLIPEQVFLSKMATPNVTFNVVVPNMTDKPEWKLNGQTLSLSLDLRTSVTALKSQIH 82
S +P V L +P + V ++ D +++ T+ L++ +V +LK +
Sbjct: 2 SHMQRVPLSVQLKPEVSPTQDIRLWV-SVEDA---QMHTVTIWLTVRPDMTVASLKDMVF 57
Query: 83 DLIGMPAGKQKL 94
G P Q+
Sbjct: 58 LDYGFPPVLQQW 69
>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 = 27.3 bits (61), Expect = 0.45
Identities = 6/37 (16%), Positives = 11/37 (29%)
Query: 58 KLNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
K S+ ++ LK +I + L
Sbjct: 23 KTPKDKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVL 59
>2kzr_A Ubiquitin thioesterase OTU1; structural genomics, northeast
structural genomics consortiu PSI-2, protein structure
initiative, hydrolase; NMR {Mus musculus}
Length = 86
Score = 27.1 bits (60), Expect = 0.46
Identities = 11/35 (31%), Positives = 17/35 (48%)
Query: 60 NGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
G L L RT + L+ QI + G+ G Q++
Sbjct: 9 GGTHLLQGLSSRTRLRELQGQIAAITGIAPGSQRI 43
>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 = 27.8 bits (61), Expect = 0.52
Identities = 11/36 (30%), Positives = 24/36 (66%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
L G+T++L ++ ++ +K++I D G+P +Q+L
Sbjct: 241 LTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRL 276
>2klc_A Ubiquilin-1; ubiquitin-like, structural genomics, PSI-2, protein
structur initiative, northeast structural genomics
consortium, NESG; NMR {Homo sapiens}
Length = 101
Score = 27.0 bits (60), Expect = 0.53
Identities = 6/37 (16%), Positives = 12/37 (32%)
Query: 58 KLNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
K + ++ +SV K +I + L
Sbjct: 31 KTPKEKEEFAVPENSSVQQFKEEISKRFKSHTDQLVL 67
>2l7r_A Ubiquitin-like protein FUBI; structural genomics, PSI-biology,
protein structure initiati northeast structural
genomics consortium, NESG; NMR {Homo sapiens}
Length = 93
Score = 26.7 bits (59), Expect = 0.66
Identities = 5/35 (14%), Positives = 15/35 (42%)
Query: 60 NGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
+ + + + +V +K+ + L G+ Q +
Sbjct: 26 AQELHTFEVTGQETVAQIKAHVASLEGIAPEDQVV 60
>3v8x_A Transferrin-binding protein 1; iron binding protein, transferrin
binding protein A, iron binding/scavenging, membrane
protein-metal transport comple; HET: C8E NAG BMA MAN GAL
SIA; 2.60A {Neisseria meningitidis serogroup B} PDB:
3v89_A
Length = 904
Score = 27.8 bits (60), Expect = 0.72
Identities = 4/23 (17%), Positives = 7/23 (30%)
Query: 32 VFLSKMATPNVTFNVVVPNMTDK 54
V + T V N+ +
Sbjct: 839 VSGYYTVKKHFTLRAGVYNLLNY 861
>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 = 26.2 bits (58), Expect = 1.1
Identities = 9/38 (23%), Positives = 16/38 (42%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKLHL 96
G++ + + L +V LK Q+ L G+ L
Sbjct: 12 NKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTF 49
>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 = 25.7 bits (56), Expect = 1.9
Identities = 7/37 (18%), Positives = 16/37 (43%)
Query: 58 KLNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
L T SL ++ ++ + G+PA + ++
Sbjct: 18 DLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQI 54
>3phx_B Ubiquitin-like protein ISG15; OTU domain, DE-ubiquitinase,
DE-isgylase, hydrolase-protein complex; 1.60A {Homo
sapiens}
Length = 79
Score = 25.0 bits (55), Expect = 2.8
Identities = 9/37 (24%), Positives = 16/37 (43%)
Query: 59 LNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKLH 95
G++ + + L +V LK Q+ L G+ L
Sbjct: 12 NKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLT 48
>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 = 24.6 bits (54), Expect = 3.9
Identities = 10/32 (31%), Positives = 15/32 (46%)
Query: 63 TLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
SL T V L+ +I +L + G Q+L
Sbjct: 16 HTVDSLSRLTKVEELRRKIQELFHVEPGLQRL 47
>1v6e_A Cytoskeleton-associated protein 1; tubulin-specific chaperone B,
tubulin folding cofactor B, microtubule, ubiquitin-like
fold, structural genomics; NMR {Mus musculus} SCOP:
d.15.1.1
Length = 95
Score = 24.8 bits (54), Expect = 3.9
Identities = 6/29 (20%), Positives = 13/29 (44%)
Query: 68 LDLRTSVTALKSQIHDLIGMPAGKQKLHL 96
++ K ++ ++G PA +L L
Sbjct: 25 YSRSLTIAEFKCKLELVVGSPASCMELEL 53
>1j8c_A Ubiquitin-like protein hplic-2; ubiquitin-like domain, structural
genomics; NMR {Homo sapiens} SCOP: d.15.1.1
Length = 125
Score = 24.4 bits (53), Expect = 5.3
Identities = 6/37 (16%), Positives = 11/37 (29%)
Query: 58 KLNGQTLSLSLDLRTSVTALKSQIHDLIGMPAGKQKL 94
K + ++ +SV K I + L
Sbjct: 38 KTPKEKEEFAVPENSSVQQFKEAISKRFKSQTDQLVL 74
>3jwh_A HEN1; methyltransferase; HET: SAH; 2.20A {Anabaena variabilis} PDB:
3jwj_A
Length = 217
Score = 24.9 bits (54), Expect = 5.5
Identities = 8/25 (32%), Positives = 14/25 (56%), Gaps = 3/25 (12%)
Query: 27 LIPEQVFLSKMATPNVTFNVVVPNM 51
P+ V ++ TPN+ +NV N+
Sbjct: 131 AQPKIVIVT---TPNIEYNVKFANL 152
>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 = 23.9 bits (52), Expect = 6.6
Identities = 4/30 (13%), Positives = 13/30 (43%)
Query: 66 LSLDLRTSVTALKSQIHDLIGMPAGKQKLH 95
+ + ++ L+ ++ L + Q+L
Sbjct: 24 EDVSRKATIEELRERVWALFDVRPECQRLF 53
>1bgx_T TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhibition,
helix-coil dynamics, inhibitor design, complex
(polymerase/inhibitor); 2.30A {Thermus aquaticus} SCOP:
a.60.7.1 c.120.1.2 c.55.3.5 e.8.1.1 PDB: 1cmw_A 1tau_A*
1taq_A*
Length = 832
Score = 24.4 bits (54), Expect = 8.8
Identities = 9/32 (28%), Positives = 18/32 (56%), Gaps = 1/32 (3%)
Query: 58 KLNGQTLS-LSLDLRTSVTALKSQIHDLIGMP 88
+L+ L LSL++ + L++++ L G P
Sbjct: 450 RLDVAYLRALSLEVAEEIARLEAEVFRLAGHP 481
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
0.312 0.130 0.371
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: 1,426,778
Number of extensions: 69114
Number of successful extensions: 176
Number of sequences better than 10.0: 1
Number of HSP's gapped: 173
Number of HSP's successfully gapped: 66
Length of query: 99
Length of database: 6,701,793
Length adjustment: 65
Effective length of query: 34
Effective length of database: 4,886,928
Effective search space: 166155552
Effective search space used: 166155552
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (23.4 bits)