RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11489
(433 letters)
>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 = 94.8 bits (236), Expect = 4e-24
Identities = 24/74 (32%), Positives = 45/74 (60%)
Query: 4 AQQESEKKLITIVVKTPKEKQNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKD 63
+ +E ++I + VKTP++ + E+++V FK+ ++K + ++L LIF GKI++D
Sbjct: 9 SGREPSSRIIRVSVKTPQDCHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRD 68
Query: 64 HENLSNHNMKDGLT 77
+ LS + DG T
Sbjct: 69 QDILSQRGILDGST 82
>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 = 93.9 bits (234), Expect = 9e-24
Identities = 29/76 (38%), Positives = 49/76 (64%)
Query: 2 AEAQQESEKKLITIVVKTPKEKQNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIM 61
+ LI + VKTPK+K++ + + ++ KE ++++F A P+QL LIFAGKI+
Sbjct: 12 SGLVPRGSPHLIKVTVKTPKDKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKIL 71
Query: 62 KDHENLSNHNMKDGLT 77
KD ++L+ ++DGLT
Sbjct: 72 KDPDSLAQCGVRDGLT 87
>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 = 92.8 bits (231), Expect = 3e-23
Identities = 29/76 (38%), Positives = 49/76 (64%)
Query: 2 AEAQQESEKKLITIVVKTPKEKQNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIM 61
+ LI + VKTPK+K++ + + ++ KE ++++F A P+QL LIFAGKI+
Sbjct: 7 GSPAPVQDPHLIKVTVKTPKDKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKIL 66
Query: 62 KDHENLSNHNMKDGLT 77
KD ++L+ ++DGLT
Sbjct: 67 KDPDSLAQCGVRDGLT 82
>2klc_A Ubiquilin-1; ubiquitin-like, structural genomics, PSI-2, protein
structur initiative, northeast structural genomics
consortium, NESG; NMR {Homo sapiens}
Length = 101
Score = 90.9 bits (226), Expect = 1e-22
Identities = 34/71 (47%), Positives = 50/71 (70%)
Query: 7 ESEKKLITIVVKTPKEKQNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHEN 66
+ K++ + VKTPKEK+ + E++SV FKE ++K+F + +QL LIFAGKI+KD +
Sbjct: 20 QGHPKIMKVTVKTPKEKEEFAVPENSSVQQFKEEISKRFKSHTDQLVLIFAGKILKDQDT 79
Query: 67 LSNHNMKDGLT 77
LS H + DGLT
Sbjct: 80 LSQHGIHDGLT 90
>1j8c_A Ubiquitin-like protein hplic-2; ubiquitin-like domain, structural
genomics; NMR {Homo sapiens} SCOP: d.15.1.1
Length = 125
Score = 86.8 bits (215), Expect = 7e-21
Identities = 37/74 (50%), Positives = 52/74 (70%)
Query: 4 AQQESEKKLITIVVKTPKEKQNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKD 63
A +E K+I + VKTPKEK+ + E++SV FKEA++K+F + +QL LIFAGKI+KD
Sbjct: 24 AAAPAEPKIIKVTVKTPKEKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKD 83
Query: 64 HENLSNHNMKDGLT 77
+ L H + DGLT
Sbjct: 84 QDTLIQHGIHDGLT 97
>3m63_B Ubiquitin domain-containing protein DSK2; armadillo-like repeats,
UBL conjugation pathway, nucleus, phosphoprotein; HET:
1PE; 2.40A {Saccharomyces cerevisiae}
Length = 101
Score = 82.0 bits (203), Expect = 2e-19
Identities = 19/77 (24%), Positives = 41/77 (53%)
Query: 1 MAEAQQESEKKLITIVVKTPKEKQNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKI 60
E + I +K+ ++K + + +++V FKEA+ K LI++GKI
Sbjct: 17 TTENLYFQGAMSLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKI 76
Query: 61 MKDHENLSNHNMKDGLT 77
+KD + + +++++DG +
Sbjct: 77 LKDDQTVESYHIQDGHS 93
>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 = 79.6 bits (197), Expect = 9e-19
Identities = 18/65 (27%), Positives = 40/65 (61%)
Query: 13 ITIVVKTPKEKQNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHNM 72
+ I +K+ ++K + + +++V FKEA+ K LI++GKI+KD + + ++++
Sbjct: 5 LNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHI 64
Query: 73 KDGLT 77
+DG +
Sbjct: 65 QDGHS 69
>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 = 73.5 bits (181), Expect = 2e-16
Identities = 18/77 (23%), Positives = 29/77 (37%)
Query: 1 MAEAQQESEKKLITIVVKTPKEKQNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKI 60
M I + VK + + + D +V D K + N LP LIF GK+
Sbjct: 1 MGHHHHHHSHSTIKLTVKFGGKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKV 60
Query: 61 MKDHENLSNHNMKDGLT 77
+ + L ++ G
Sbjct: 61 LVETSTLKQSDVGSGAK 77
>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 = 70.9 bits (174), Expect = 2e-15
Identities = 17/67 (25%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 12 LITIVVKT-PKEKQNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNH 70
++++ K KEK +++E ++ + K +A+ + Q+ LI++GK+++D + +S
Sbjct: 1 MVSLTFKNFKKEKVPLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQDSKTVSEC 60
Query: 71 NMKDGLT 77
+KDG
Sbjct: 61 GLKDGDQ 67
>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 = 64.8 bits (158), Expect = 2e-13
Identities = 11/76 (14%), Positives = 33/76 (43%), Gaps = 1/76 (1%)
Query: 2 AEAQQESEKKLITIVVKTPKEKQNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIM 61
+A K+L+ + + K K ++++ D++ ++ K+ + P +++ G +
Sbjct: 7 GDAGGGVGKELVDLKIIWNKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGL-V 65
Query: 62 KDHENLSNHNMKDGLT 77
+ + L + G
Sbjct: 66 PEDKTLREIKVTSGAK 81
>2kan_A Uncharacterized protein AR3433A; ubiquitin fold, alpha+beta,
structural genomics, protein structure initiative; NMR
{Arabidopsis thaliana}
Length = 94
Score = 62.8 bits (153), Expect = 1e-12
Identities = 16/79 (20%), Positives = 39/79 (49%), Gaps = 4/79 (5%)
Query: 13 ITIVVKTPKEKQNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKD-HENLSNHN 71
I + VK P ++ +E++ +V+ K+ + N +++ L ++G + D + NL+ +
Sbjct: 16 IHVTVKFPSKQFTVEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGIELADDYRNLNEYG 75
Query: 72 MKDGLT---SLKQLPLTKE 87
+ + LK + K+
Sbjct: 76 ITEFSEIVVFLKSINRAKD 94
>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 = 60.3 bits (146), Expect = 1e-11
Identities = 19/72 (26%), Positives = 33/72 (45%), Gaps = 2/72 (2%)
Query: 7 ESEKKLITIVVKTPKEK-QNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHE 65
S ++ VK KEK + +E+ D FK + P + ++ G +KD +
Sbjct: 2 SSGSSGYSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKD-D 60
Query: 66 NLSNHNMKDGLT 77
+ N MK+G+T
Sbjct: 61 DWGNIKMKNGMT 72
>4eew_A Large proline-rich protein BAG6; ubiquitin-like fold,
GP78-binding, chaperone; 1.30A {Homo sapiens}
Length = 88
Score = 58.1 bits (141), Expect = 5e-11
Identities = 15/60 (25%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 13 ITIVVKTPKEKQ-NIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
+ ++VKT + + +V +FKE +A + E+ LI+ G++++D + L +N
Sbjct: 18 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYN 77
>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 = 57.7 bits (140), Expect = 5e-11
Identities = 15/60 (25%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 13 ITIVVKTPKEKQ-NIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
+ ++VKT + + +V +FKE +A + E+ LI+ G++++D + L +N
Sbjct: 6 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYN 65
>2dzi_A Ubiquitin-like protein 4A; GDX, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 81
Score = 57.3 bits (139), Expect = 6e-11
Identities = 17/66 (25%), Positives = 37/66 (56%), Gaps = 1/66 (1%)
Query: 13 ITIVVKTPKEKQ-NIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
+ + VK + ++ ++++ ED V+ K+ V++K N Q L+F GK + D + LS+++
Sbjct: 8 MQLTVKALQGRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADGKRLSDYS 67
Query: 72 MKDGLT 77
+
Sbjct: 68 IGPNSK 73
>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 = 56.5 bits (136), Expect = 2e-10
Identities = 18/72 (25%), Positives = 34/72 (47%), Gaps = 5/72 (6%)
Query: 8 SEKKLITIVVKTP---KEKQNIEIEEDASVTDFKEAVAKKF--NALPEQLCLIFAGKIMK 62
S +T++VK+P + + SV K +++ + PE LI++GK++
Sbjct: 3 SGSSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLL 62
Query: 63 DHENLSNHNMKD 74
DH+ L + K
Sbjct: 63 DHQCLRDLLPKQ 74
>3shq_A UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila melanogaster}
Length = 320
Score = 59.8 bits (144), Expect = 3e-10
Identities = 29/175 (16%), Positives = 59/175 (33%), Gaps = 6/175 (3%)
Query: 9 EKKLITIVVKTPKEKQNIEIEEDASVTDFKEAVAKKFNALPEQ---LCLIFAGKIMKDHE 65
E K + ++VK ++ +++ + +V + + +K PE+ L L + GK D+
Sbjct: 2 EVKEVVVIVKWSGKEYPVDLTDQDTVEVLRHEIFRKTQVRPERQKLLNLKYKGKTAADNV 61
Query: 66 NLSNHNMKDGLTSLKQLPLTKEIMHPKEEPTLMSEQLHLVLVRWEVSGICHHENLSNHNM 125
+S +K + +I P + E + E H + +
Sbjct: 62 KISALELKPNFKLMMVGSTEADIEDACSLPDNIGEVVDDFDDADEREESVAHSAVYLAKV 121
Query: 126 KDGLTSLKQLPLTKEITHPKEEPILMSEQLHLVLVRWEAQMQQMLP---QFLQQM 177
+ + K L K + + L E + M P +FL
Sbjct: 122 QRRVRDYKIKELAPPREGKKLLVLDIDYTLFDHRSPAETGTELMRPYLHEFLTSA 176
>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 = 54.2 bits (131), Expect = 9e-10
Identities = 17/67 (25%), Positives = 33/67 (49%), Gaps = 4/67 (5%)
Query: 13 ITIVVKTPKEKQ-NIEIEEDASVTDFKEAVAKKFNAL---PEQLCLIFAGKIMKDHENLS 68
+TI +KT +++ I +E D +V KE + + LI+AGKI+ D +
Sbjct: 6 VTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIR 65
Query: 69 NHNMKDG 75
++ + +
Sbjct: 66 DYRIDEK 72
>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 = 58.8 bits (141), Expect = 1e-09
Identities = 41/316 (12%), Positives = 93/316 (29%), Gaps = 36/316 (11%)
Query: 7 ESEKKLITIVVKTPKEKQ-NIEIEEDASVTDFKEAVAKKFNAL---PEQLCLIFAGKIMK 62
+TI +KT +++ I +E D +V KE + + LI+AGKI+
Sbjct: 2 PLGSSAVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILS 61
Query: 63 DHENLSNHNMKDGLTSLKQLPLTKEIMHPKEEPTLMSEQLHLVLVRWEVSGICHHENLSN 122
D + ++ + + + + TK P + + +
Sbjct: 62 DDVPIRDYRIDEKNFVVVMVTKTKAGQGTSAPPEASPTAAPESSTSFPPAPTSGMSHPPP 121
Query: 123 HNMKDGLTSLKQLPLTK-------EITHPKEEPILMSEQLHLVLVRWEAQMQQMLP---- 171
+D S + P T + + + +E + +++
Sbjct: 122 AAREDKSPSEESAPTTSPESVSGSVPSSGSSGREEDAASTLVTGSEYETMLTEIMSMGYE 181
Query: 172 -------------------QFLQQMQNPEIQGMMANPEALSAIQQIQAGIEQLRTAAPGM 212
++L + + + +Q
Sbjct: 182 RERVVAALRASYNNPHRAVEYLLTGIPGSPEPEHGSVQESQVSEQPATEAAGENPLEFLR 241
Query: 213 EWNFRNPEINHMLNNPELLRQTMEM--ARNPSMLQELMRTQDRALSNLESIPGGYSALQR 270
+ + NP LL ++ NP +LQ++ R Q++ + L PG + +
Sbjct: 242 DQPQFQNMRQVIQQNPALLPALLQQLGQENPQLLQQISRHQEQFIQMLNEPPGELADISD 301
Query: 271 MYRDIQEPMLNAATQQ 286
+ ++ A
Sbjct: 302 VEGEVGAIGEEAPQMN 317
Score = 29.6 bits (65), Expect = 2.0
Identities = 16/90 (17%), Positives = 28/90 (31%), Gaps = 2/90 (2%)
Query: 335 NQGGNAQAPPEVRYRSQLDQLTAMGFVNREANLQGSLFGNAGMQSMMQQMMANPQLMQNM 394
G PE + N L Q+M Q + NP L+ +
Sbjct: 204 LTGIPGSPEPEHGSVQESQVSEQPATEAAGENPLEFLRDQPQFQNMRQVIQQNPALLPAL 263
Query: 395 MQAPYMQ--SMLQAMSADPSIAQRVIGTNP 422
+Q + +LQ +S +++ P
Sbjct: 264 LQQLGQENPQLLQQISRHQEQFIQMLNEPP 293
>3phx_B Ubiquitin-like protein ISG15; OTU domain, DE-ubiquitinase,
DE-isgylase, hydrolase-protein complex; 1.60A {Homo
sapiens}
Length = 79
Score = 53.2 bits (128), Expect = 2e-09
Identities = 15/66 (22%), Positives = 29/66 (43%), Gaps = 1/66 (1%)
Query: 13 ITIVVKTPKEK-QNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
++I+V+ K + E+ +V K+ V+ + L F GK ++D L +
Sbjct: 5 LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYG 64
Query: 72 MKDGLT 77
+K T
Sbjct: 65 LKPLST 70
>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 = 52.7 bits (127), Expect = 2e-09
Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 1/64 (1%)
Query: 15 IVVKTPKEKQ-NIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHNMK 73
+ V+ +E++ D S+ KE VAK+ +QL +IFAGK + +H + N +++
Sbjct: 3 VFVRFNSSYGFPVEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELPNHLTVQNCDLE 62
Query: 74 DGLT 77
Sbjct: 63 QQSI 66
>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 = 53.1 bits (128), Expect = 3e-09
Identities = 15/69 (21%), Positives = 32/69 (46%), Gaps = 4/69 (5%)
Query: 13 ITIVVKTPKEKQ-NIEIEEDASVTDFKEAVAKKFNAL---PEQLCLIFAGKIMKDHENLS 68
+ + +KT +++ I+I+ + +V KE + + LI+AGKI+ D L
Sbjct: 1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALK 60
Query: 69 NHNMKDGLT 77
+ + +
Sbjct: 61 EYKIDEKNF 69
>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 = 52.6 bits (127), Expect = 3e-09
Identities = 22/64 (34%), Positives = 33/64 (51%), Gaps = 1/64 (1%)
Query: 15 IVVKTPKEKQ-NIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHNMK 73
I VKT K+ I+IE V KE V +K P+Q LI++GK M D + +++ +
Sbjct: 3 IKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKIL 62
Query: 74 DGLT 77
G
Sbjct: 63 GGSV 66
>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 = 3e-09
Identities = 14/66 (21%), Positives = 29/66 (43%), Gaps = 1/66 (1%)
Query: 13 ITIVVKTPKEKQ-NIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
I + VK P I ++ + K+ + + +Q L F G++++D L +
Sbjct: 8 IQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYG 67
Query: 72 MKDGLT 77
++D T
Sbjct: 68 IQDSDT 73
>1wr1_B Ubiquitin-like protein DSK2; UBA domain, UBA-ubiquitin complex,
signaling protein; NMR {Saccharomyces cerevisiae} SCOP:
a.5.2.1
Length = 58
Score = 51.3 bits (123), Expect = 5e-09
Identities = 16/39 (41%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 330 PGLANNQGGNAQAPPEVRYRSQLDQLTAMGFVNREANLQ 368
PG++ GG PE RY QL QL MGF + + N+
Sbjct: 1 PGISG--GGGGILDPEERYEHQLRQLNDMGFFDFDRNVA 37
>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 = 53.7 bits (129), Expect = 6e-09
Identities = 6/64 (9%), Positives = 15/64 (23%), Gaps = 1/64 (1%)
Query: 15 IVVKTPKEKQ-NIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHNMK 73
+ ++ +EE V + A E + ++ S +
Sbjct: 3 DTEAPVEVQEDFEVVEEFTPVVLATPIPEEVQQAQTEIKLFNKWSFEEVEVKDASLVDYV 62
Query: 74 DGLT 77
Sbjct: 63 QVRQ 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 = 51.4 bits (123), Expect = 9e-09
Identities = 18/75 (24%), Positives = 32/75 (42%), Gaps = 4/75 (5%)
Query: 7 ESEKKLITIVVKTPKEKQNIE-IEEDASVTDFKEAVAKKFNALPEQ---LCLIFAGKIMK 62
S + I+VK ++ ++ + ED +V D K+ + LPE+ L L GK +
Sbjct: 2 SSGSSGLPIIVKWGGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAE 61
Query: 63 DHENLSNHNMKDGLT 77
+ L +K
Sbjct: 62 NDVKLGALKLKPNTK 76
>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 = 51.2 bits (123), Expect = 1e-08
Identities = 15/66 (22%), Positives = 29/66 (43%), Gaps = 1/66 (1%)
Query: 13 ITIVVKTPKEK-QNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
++I+V+ K + E+ +V K+ V+ + L F GK ++D L +
Sbjct: 5 LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYG 64
Query: 72 MKDGLT 77
+K T
Sbjct: 65 LKPLST 70
>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 = 51.0 bits (121), Expect = 2e-08
Identities = 15/65 (23%), Positives = 32/65 (49%), Gaps = 3/65 (4%)
Query: 16 VVKTPKEKQNIEIEEDASVTDFKEAVAKKFNA---LPEQLCLIFAGKIMKDHENLSNHNM 72
+++ P+ + S++ K+ +A K PE + LI+ G+ +KD + L + +
Sbjct: 29 ILQLPETELGEYSLGGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFYGI 88
Query: 73 KDGLT 77
+ G T
Sbjct: 89 QPGST 93
>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 = 50.5 bits (121), Expect = 2e-08
Identities = 22/66 (33%), Positives = 34/66 (51%), Gaps = 1/66 (1%)
Query: 13 ITIVVKTPKEKQ-NIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
+ I VKT K+ I+IE V KE V +K P+Q LI++GK M D + +++
Sbjct: 13 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 72
Query: 72 MKDGLT 77
+ G
Sbjct: 73 ILGGSV 78
>2knz_A Ubiquilin-4; cytoplasm, endoplasmic reticulum, nucleus,
phosphoprotein, protein binding; NMR {Mus musculus}
Length = 53
Score = 49.0 bits (117), Expect = 3e-08
Identities = 19/31 (61%), Positives = 25/31 (80%)
Query: 338 GNAQAPPEVRYRSQLDQLTAMGFVNREANLQ 368
G + PEVR++ QL+QL +MGF+NREANLQ
Sbjct: 1 GPLGSMPEVRFQQQLEQLNSMGFINREANLQ 31
>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 = 49.7 bits (119), Expect = 3e-08
Identities = 14/66 (21%), Positives = 28/66 (42%), Gaps = 3/66 (4%)
Query: 15 IVVKTPKEKQNI---EIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
I V+T +Q + V + + + + F+ P L + GK M+D L ++
Sbjct: 5 IQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDYE 64
Query: 72 MKDGLT 77
++ T
Sbjct: 65 VRLNDT 70
>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 = 50.1 bits (120), Expect = 3e-08
Identities = 13/66 (19%), Positives = 30/66 (45%), Gaps = 3/66 (4%)
Query: 15 IVVKTPKEKQNI---EIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
I V+T + ++ A++ + +E V F+ PE L + GK +++ L +++
Sbjct: 10 IQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDYD 69
Query: 72 MKDGLT 77
+
Sbjct: 70 VGLNDI 75
>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 = 51.2 bits (122), Expect = 3e-08
Identities = 23/72 (31%), Positives = 37/72 (51%), Gaps = 1/72 (1%)
Query: 13 ITIVVKTPKEK-QNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
+ I VKT K +E+E ++ + K + K P+Q LIFAGK ++D LS++N
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 72 MKDGLTSLKQLP 83
++ T L
Sbjct: 61 IQKESTLHLVLR 72
>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 = 50.5 bits (121), Expect = 3e-08
Identities = 7/66 (10%), Positives = 18/66 (27%), Gaps = 1/66 (1%)
Query: 13 ITIVVKTPKEK-QNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
+ ++ K + + +V K + P F+G+ + D
Sbjct: 24 CQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELK 83
Query: 72 MKDGLT 77
+
Sbjct: 84 IPKDYV 89
>2jy5_A Ubiquilin-1; UBA, alternative splicing, cytoplasm, nucleus,
phosphoprotein, proteasome, signaling protein; NMR {Homo
sapiens} PDB: 2jy6_B
Length = 52
Score = 48.5 bits (116), Expect = 4e-08
Identities = 20/32 (62%), Positives = 25/32 (78%)
Query: 337 GGNAQAPPEVRYRSQLDQLTAMGFVNREANLQ 368
G PEVR++ QL+QL+AMGF+NREANLQ
Sbjct: 1 GSPEFQNPEVRFQQQLEQLSAMGFLNREANLQ 32
>2bwb_A Ubiquitin-like protein DSK2; UBA, signaling protein; 2.3A
{Saccharomyces cerevisiae} SCOP: a.5.2.1 PDB: 2bwe_A
Length = 46
Score = 48.4 bits (116), Expect = 4e-08
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 343 PPEVRYRSQLDQLTAMGFVNREANLQ 368
PE RY QL QL MGF + + N+
Sbjct: 2 DPEERYEHQLRQLNDMGFFDFDRNVA 27
>2l7r_A Ubiquitin-like protein FUBI; structural genomics, PSI-biology,
protein structure initiati northeast structural
genomics consortium, NESG; NMR {Homo sapiens}
Length = 93
Score = 49.8 bits (119), Expect = 4e-08
Identities = 13/63 (20%), Positives = 24/63 (38%), Gaps = 1/63 (1%)
Query: 15 IVVKTPKEKQNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHNMKD 74
+ V+ + E+ +V K VA PE ++ AG ++D L ++
Sbjct: 22 LFVRAQELHT-FEVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPLEDEATLGQCGVEA 80
Query: 75 GLT 77
T
Sbjct: 81 LTT 83
>2kdb_A Homocysteine-responsive endoplasmic reticulum- resident
ubiquitin-like domain member...; UBL domain, membrane,
polymorphism, transmembrane; NMR {Homo sapiens}
Length = 99
Score = 49.6 bits (118), Expect = 5e-08
Identities = 13/76 (17%), Positives = 33/76 (43%), Gaps = 7/76 (9%)
Query: 9 EKKLITIVVKTP---KEKQNIEIEEDASVTDFKEAVAKKFNALP--EQLCLIFAGKIMKD 63
+ +T+++K P Q I + +V K ++ + + P + L+++G+++ D
Sbjct: 20 QGHPVTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKPLTKDQRLVYSGRLLPD 79
Query: 64 HENLSN--HNMKDGLT 77
H L + +
Sbjct: 80 HLQLKDILRKQDEYHM 95
>1vej_A Riken cDNA 4931431F19; UBA domain, three helix bundle, ubiquitin
associated domain, structural genomics; NMR {Mus
musculus} SCOP: a.5.2.1
Length = 74
Score = 48.8 bits (116), Expect = 6e-08
Identities = 16/48 (33%), Positives = 25/48 (52%)
Query: 321 ARPSSSLSTPGLANNQGGNAQAPPEVRYRSQLDQLTAMGFVNREANLQ 368
+ SS ++ E RY+ +L++L A+GF NR+ANLQ
Sbjct: 2 SSGSSGARACSQSSQTALPTSLFTEGRYQQELEELKALGFANRDANLQ 49
>2xzm_9 RPS31E; ribosome, translation; 3.93A {Tetrahymena thermophila}
PDB: 2xzn_9
Length = 189
Score = 51.7 bits (123), Expect = 7e-08
Identities = 12/58 (20%), Positives = 27/58 (46%), Gaps = 1/58 (1%)
Query: 15 IVVKTPKEKQ-NIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
+ VKT + + +E+ SV D K +++ + + L+ G I + E +++
Sbjct: 3 VQVKTLEGETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAPNTELVTDDV 60
>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 = 48.9 bits (117), Expect = 7e-08
Identities = 22/64 (34%), Positives = 33/64 (51%), Gaps = 1/64 (1%)
Query: 15 IVVKTPKEKQ-NIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHNMK 73
I VKT K+ I+IE V KE V +K P+Q LI++GK M D + +++ +
Sbjct: 3 IKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKIL 62
Query: 74 DGLT 77
G
Sbjct: 63 GGSV 66
>2dna_A Unnamed protein product; ubiquitin associated domain, DSK2 protein,
proteasome, structural genomics, NPPSFA; NMR {Mus
musculus} SCOP: a.5.2.1
Length = 67
Score = 48.0 bits (114), Expect = 1e-07
Identities = 15/58 (25%), Positives = 31/58 (53%)
Query: 333 ANNQGGNAQAPPEVRYRSQLDQLTAMGFVNREANLQGSLFGNAGMQSMMQQMMANPQL 390
++ ++ PEVR+ +++ L AMGFVN ANLQ + + + + ++ ++
Sbjct: 4 GSSGPSHSLQAPEVRFSKEMECLQAMGFVNYNANLQALIATDGDTNAAIYKLKSSQGF 61
>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 = 48.7 bits (116), Expect = 2e-07
Identities = 14/68 (20%), Positives = 29/68 (42%), Gaps = 3/68 (4%)
Query: 13 ITIVVKTPKEKQNIEIEEDA---SVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSN 69
I + + Q +EI + +V KE +A + + L +KD+ +L++
Sbjct: 30 IRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAH 89
Query: 70 HNMKDGLT 77
+N+ G
Sbjct: 90 YNVGAGEI 97
>2dah_A Ubiquilin-3; UBA domain, structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens} SCOP: a.5.2.1
Length = 54
Score = 46.6 bits (111), Expect = 2e-07
Identities = 14/26 (53%), Positives = 19/26 (73%)
Query: 343 PPEVRYRSQLDQLTAMGFVNREANLQ 368
++ QL+QL +MGF+NREANLQ
Sbjct: 4 GSSGHFQVQLEQLRSMGFLNREANLQ 29
>2kk8_A Uncharacterized protein AT4G05270; solution arabidopsis thaliana,
uncharacterized putative protein, NESG, structural
genomics; NMR {Arabidopsis thaliana}
Length = 84
Score = 47.2 bits (113), Expect = 3e-07
Identities = 7/67 (10%), Positives = 25/67 (37%), Gaps = 2/67 (2%)
Query: 13 ITIVVKTPKEKQ-NIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGK-IMKDHENLSNH 70
+ +V+ +E++ ++ K+ + + + + LI G I+++ +
Sbjct: 11 MKFLVENLNGSSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILREDLTVEQC 70
Query: 71 NMKDGLT 77
+
Sbjct: 71 QIVPTSD 77
>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 = 46.5 bits (110), Expect = 6e-07
Identities = 14/72 (19%), Positives = 29/72 (40%), Gaps = 5/72 (6%)
Query: 8 SEKKLITIVVKTPKEKQ-NIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMK-DHE 65
S I + +K + + + +V K K F Q+ LI+ G++++
Sbjct: 3 SGSSGINVRLKFLNDTEELAVARPEDTVGTLKS---KYFPGQESQMKLIYQGRLLQDPAR 59
Query: 66 NLSNHNMKDGLT 77
LS+ N+ +
Sbjct: 60 TLSSLNITNNCV 71
>1uh6_A Ubiquitin-like 5; beta-grAsp fold, structural genomics, riken
structural genomics/proteomics initiative, RSGI,
unknown function; NMR {Mus musculus} SCOP: d.15.1.1
Length = 100
Score = 46.2 bits (109), Expect = 9e-07
Identities = 16/78 (20%), Positives = 34/78 (43%), Gaps = 1/78 (1%)
Query: 1 MAEAQQESEKKLITIVVKT-PKEKQNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGK 59
+ E +I +V +K ++ D ++ D K+ +A + ++ L
Sbjct: 17 LVPRGSEGAATMIEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYT 76
Query: 60 IMKDHENLSNHNMKDGLT 77
I KDH +L ++ + DG+
Sbjct: 77 IFKDHVSLGDYEIHDGMN 94
>3n3k_B Ubiquitin; hydrolase, protease, thiol protease, DUB, zinc ribbon,
inhibitor, ubiqu acetylation, cytoplasm, isopeptide
bond, nucleus; 2.60A {Homo sapiens}
Length = 85
Score = 45.4 bits (108), Expect = 1e-06
Identities = 21/66 (31%), Positives = 36/66 (54%), Gaps = 1/66 (1%)
Query: 13 ITIVVKTPKEKQ-NIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
+ IVVKT + +E+E ++ + K + K P+Q LIFAGK ++D LS++N
Sbjct: 4 MRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 72 MKDGLT 77
+ +
Sbjct: 64 IHNHSA 69
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 49.5 bits (117), Expect = 2e-06
Identities = 29/191 (15%), Positives = 59/191 (30%), Gaps = 47/191 (24%)
Query: 10 KKLIT---------IVVKTPK----EKQNIEIEEDASVTDFKEAVAKKFNALPEQLCLI- 55
K L+T + T + ++ + D + + + + LP ++
Sbjct: 267 KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTN 326
Query: 56 -FA----GKIMKDHENLSN---HNMKDGLT-----SLKQLPLTKEIMHPKEEPTLMSEQL 102
+ ++D + H D LT SL L E + ++
Sbjct: 327 PRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE-PAEYRKMFDRLSVFPPSA 385
Query: 103 HL---VLVR-W------EVSGI---CHHENLSNHNMKDGLTSLKQLPLTKEITHPKEEPI 149
H+ +L W +V + H +L K+ S+ + L + + E
Sbjct: 386 HIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYL-ELKVKLENEY- 443
Query: 150 LMSEQLHLVLV 160
LH +V
Sbjct: 444 ----ALHRSIV 450
Score = 42.1 bits (98), Expect = 4e-04
Identities = 43/294 (14%), Positives = 88/294 (29%), Gaps = 98/294 (33%)
Query: 50 EQLCLIFAGKIMKDHENLSNHNMKDGLTSLKQLPLTKEIMHPKEEPTLMSEQLHLVLVRW 109
+ + +F + + + KD K + +EI H + +
Sbjct: 19 KDILSVFEDAFVDNFD------CKDVQDMPKSILSKEEIDHIIMSKDAV-SGTLRLFWTL 71
Query: 110 EVSGICHHENLSNHNMKDGLTS----LKQLPLTKEITHPKEEPILMSEQLHLV------- 158
E + +++ L L P+ E P + EQ +
Sbjct: 72 LSKQ----EEMVQKFVEEVLRINYKFLMS-PIKTEQRQPSMMTRMYIEQRDRLYNDNQVF 126
Query: 159 ----LVRWE--AQMQQMLPQFLQQMQNPEIQGM-------MANPEALSAIQQIQAGIEQL 205
+ R + +++Q L + L+ +N I G+ +A + + ++
Sbjct: 127 AKYNVSRLQPYLKLRQALLE-LRPAKNVLIDGVLGSGKTWVAL-DVCLS--------YKV 176
Query: 206 RTAAP-GMEW-NFRNPEINHMLNNPELLRQTMEMARNPSMLQELMRTQDRALSNLESIPG 263
+ + W N +N N+PE + +EM
Sbjct: 177 QCKMDFKIFWLNLKN------CNSPETV---LEM-------------------------- 201
Query: 264 GYSALQRMYRDIQEPMLNAATQQFSRNPYESNSSGGNPGRVKAPFRR---SKRY 314
LQ++ I +P + + S +S ++A RR SK Y
Sbjct: 202 ----LQKLLYQI-DPNWTSRSDHSSNIKLRIHS-------IQAELRRLLKSKPY 243
Score = 37.1 bits (85), Expect = 0.013
Identities = 33/222 (14%), Positives = 72/222 (32%), Gaps = 52/222 (23%)
Query: 216 FRNPEINHMLNNPELLRQTMEM-----ARNPSMLQELMRTQDRALSNLESIPGGYSALQR 270
EI+H++ + + + T+ + ++ M+Q+ + R N + + S ++
Sbjct: 46 LSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRI--NYKFL---MSPIKT 100
Query: 271 MYRDIQEPMLNAATQQFSRNPYESNSSGGNPGRVKAPFRRSKRYLGPRQC---ARPSSSL 327
R P + R+ ++ N K R + YL RQ RP+ ++
Sbjct: 101 EQRQ---PSMMTRMYIEQRDRLYND----NQVFAKYNVSRLQPYLKLRQALLELRPAKNV 153
Query: 328 STPG--------LA----NNQGGNAQAPPEVRYRSQLDQLTAMGFVNRE----ANLQGSL 371
G +A + + ++ + L + N LQ L
Sbjct: 154 LIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFW------LN-LKNCNSPETVLEMLQKLL 206
Query: 372 FGNAGMQSMMQQMMANPQLMQN---------MMQAPYMQSML 404
+ + +N +L + + PY +L
Sbjct: 207 YQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL 248
>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 = 45.0 bits (107), Expect = 2e-06
Identities = 22/66 (33%), Positives = 36/66 (54%), Gaps = 1/66 (1%)
Query: 13 ITIVVKTPKEKQ-NIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
+ I VKT K +E+E ++ + K + K P+Q LIFAGK ++D LS++N
Sbjct: 4 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 72 MKDGLT 77
++ T
Sbjct: 64 IQKWST 69
>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 = 45.0 bits (106), Expect = 2e-06
Identities = 17/69 (24%), Positives = 35/69 (50%), Gaps = 1/69 (1%)
Query: 10 KKLITIVVKT-PKEKQNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLS 68
+I +VV +K ++ + SV DFK+ ++ + P ++ L G ++KDH +L
Sbjct: 19 SHMIEVVVNDRLGKKVRVKCLGEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLE 78
Query: 69 NHNMKDGLT 77
++ + D
Sbjct: 79 DYEVHDQTN 87
>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 = 22/66 (33%), Positives = 36/66 (54%), Gaps = 1/66 (1%)
Query: 13 ITIVVKTPKEKQ-NIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
+ I VKT K +E+E ++ + K + K P+Q LIFAGK ++D LS++N
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 72 MKDGLT 77
++ T
Sbjct: 61 IQREST 66
>1sif_A Ubiquitin; hydrophobic mutants, folding, stability, structural
protein; 2.18A {Homo sapiens} SCOP: d.15.1.1
Length = 88
Score = 44.3 bits (105), Expect = 3e-06
Identities = 20/66 (30%), Positives = 36/66 (54%), Gaps = 1/66 (1%)
Query: 13 ITIVVKTPKEKQ-NIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
+ + +KT K +E+E ++ + K + K P+Q LIFAGK ++D LS++N
Sbjct: 10 LQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 69
Query: 72 MKDGLT 77
++ T
Sbjct: 70 IQKEST 75
>1yx5_B Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo sapiens} SCOP:
d.15.1.1 PDB: 1yx6_B
Length = 98
Score = 43.6 bits (103), Expect = 7e-06
Identities = 22/66 (33%), Positives = 36/66 (54%), Gaps = 1/66 (1%)
Query: 13 ITIVVKTPKEKQ-NIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
+ I VKT K +E+E ++ + K + K P+Q LIFAGK ++D LS++N
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 72 MKDGLT 77
++ T
Sbjct: 61 IQKEST 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 = 43.7 bits (103), Expect = 1e-05
Identities = 20/66 (30%), Positives = 34/66 (51%), Gaps = 1/66 (1%)
Query: 13 ITIVVKTPKEKQ-NIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
I KT K +E+E ++ + K + K P+Q LI+AGK ++D LS++N
Sbjct: 10 FQIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDYN 69
Query: 72 MKDGLT 77
++ T
Sbjct: 70 IQREST 75
>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 = 42.9 bits (101), Expect = 2e-05
Identities = 13/76 (17%), Positives = 27/76 (35%), Gaps = 11/76 (14%)
Query: 13 ITIVVKTPKEKQN-----------IEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIM 61
++I V+ P + + V+ K + + + L + G +
Sbjct: 26 VSIKVQVPNMQDKTEWKLNGQGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFI 85
Query: 62 KDHENLSNHNMKDGLT 77
KD +L+ +NM G
Sbjct: 86 KDSNSLAYYNMASGAV 101
>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 = 42.4 bits (100), Expect = 2e-05
Identities = 22/66 (33%), Positives = 36/66 (54%), Gaps = 1/66 (1%)
Query: 13 ITIVVKTPKEKQ-NIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
+ I VKT K +E+E ++ + K + K P+Q LIFAGK ++D LS++N
Sbjct: 2 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 61
Query: 72 MKDGLT 77
++ T
Sbjct: 62 IQKEST 67
>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 = 46.2 bits (109), Expect = 2e-05
Identities = 62/401 (15%), Positives = 113/401 (28%), Gaps = 142/401 (35%)
Query: 136 PLTKEITHPK-EEPILMSEQLHLVLVRWEAQMQQMLPQFLQQMQNPEIQGMMANPEALSA 194
PLT ++H E +L+ + Q+ QF + + P +G A+ E +
Sbjct: 8 PLT--LSHGSLEHVLLVPTASFFIA-------SQLQEQFNKILPEPT-EGFAADDEPTTP 57
Query: 195 I-----------QQIQAG-----IEQLRTAAPGMEWNF-RNPEINHML------NNPELL 231
++ + L E + +I H L N L
Sbjct: 58 AELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDI-HALAAKLLQENDTTL 116
Query: 232 RQTMEMARN-----PSMLQELMRTQDRALSNLESIP----------GG------Y----S 266
+T E+ +N + + + AL ++ GG Y
Sbjct: 117 VKTKELIKNYITARIMAKRPFDKKSNSAL--FRAVGEGNAQLVAIFGGQGNTDDYFEELR 174
Query: 267 ALQRMYRDIQEPMLNAAT---QQFSRNPYESNS--SGG--------NPGRVKAPFRRSKR 313
L + Y + ++ + + R ++ + G NP P K
Sbjct: 175 DLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSN--TP---DKD 229
Query: 314 YLGPRQCARPSSSLSTPG-----LAN-----NQGGNAQAPPEVRYRSQ------LDQLTA 357
YL S +S P LA+ G P E+R + +TA
Sbjct: 230 YLL-------SIPISCPLIGVIQLAHYVVTAKLLG--FTPGELRSYLKGATGHSQGLVTA 280
Query: 358 M---------GFVNREANLQGSLFGNAGMQSMMQQMMANPQLMQNMMQ--------AP-Y 399
+ F LF G++ + N L ++++ P
Sbjct: 281 VAIAETDSWESFFVSVRKAITVLFF-IGVRC--YEAYPNTSLPPSILEDSLENNEGVPSP 337
Query: 400 M-----------QSMLQAMSADPSIAQRV-IGTNPLLQNSP 428
M Q + ++ ++V I L N
Sbjct: 338 MLSISNLTQEQVQDYVNKTNSHLPAGKQVEIS----LVNGA 374
Score = 35.8 bits (82), Expect = 0.030
Identities = 36/187 (19%), Positives = 55/187 (29%), Gaps = 81/187 (43%)
Query: 216 FRNPEINHMLNNPELLRQT---------MEMARNPSMLQELMRTQDRALSNLESIPGG-- 264
FR+ + LL T ME A ++L + + L ++ G
Sbjct: 1719 FRSEK--------GLLSATQFTQPALTLMEKA----AFEDL---KSKGLIPADATFAGHS 1763
Query: 265 ---YSAL-----------------QRMYRDIQEPMLNAATQQFSRNPYESNSSGG----N 300
Y+AL R Q S+ G N
Sbjct: 1764 LGEYAALASLADVMSIESLVEVVFYR----------GMTMQVAVPRDELGRSNYGMIAIN 1813
Query: 301 PGRVKAPFRRSK-RYLGPRQCARPSSSLSTPGLAN-N----Q---GGNAQAPPEVRYRSQ 351
PGRV A F + +Y+ R R + + N N Q G+ +A
Sbjct: 1814 PGRVAASFSQEALQYVVERVGKRTGWLVE---IVNYNVENQQYVAAGDLRA--------- 1861
Query: 352 LDQLTAM 358
LD +T +
Sbjct: 1862 LDTVTNV 1868
>2ojr_A Ubiquitin; lanthide-binding TAG, terbium, TB, SAD phasing, protein
binding; 2.60A {Homo sapiens}
Length = 111
Score = 42.5 bits (100), Expect = 2e-05
Identities = 22/66 (33%), Positives = 36/66 (54%), Gaps = 1/66 (1%)
Query: 13 ITIVVKTPKEKQ-NIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
+ I VKT K +E+E ++ + K + K P+Q LIFAGK ++D LS++N
Sbjct: 36 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 95
Query: 72 MKDGLT 77
++ T
Sbjct: 96 IQKEST 101
>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 = 41.5 bits (97), Expect = 4e-05
Identities = 12/68 (17%), Positives = 32/68 (47%), Gaps = 4/68 (5%)
Query: 12 LITIVVKTPKEKQNI---EIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKD-HENL 67
LIT+ + ++ D +++F+ + E+ +++ +++ D H +L
Sbjct: 9 LITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSL 68
Query: 68 SNHNMKDG 75
++ +KDG
Sbjct: 69 GSYGLKDG 76
>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 = 42.2 bits (99), Expect = 6e-05
Identities = 15/64 (23%), Positives = 26/64 (40%), Gaps = 1/64 (1%)
Query: 15 IVVKTPKE-KQNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHNMK 73
I+V+ K E+ +V K+ V+ + L F GK ++D L + +K
Sbjct: 84 ILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLK 143
Query: 74 DGLT 77
T
Sbjct: 144 PLST 147
Score = 42.2 bits (99), Expect = 6e-05
Identities = 13/66 (19%), Positives = 26/66 (39%), Gaps = 3/66 (4%)
Query: 15 IVVKTPKEK-QNIEIEEDASVTDFKEAVAKKFNALPEQLCLIF--AGKIMKDHENLSNHN 71
+ VK + + SV++ K + +K Q L +G ++D L++
Sbjct: 5 LTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQG 64
Query: 72 MKDGLT 77
+ G T
Sbjct: 65 LGPGST 70
>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 = 39.6 bits (92), Expect = 1e-04
Identities = 15/81 (18%), Positives = 30/81 (37%), Gaps = 7/81 (8%)
Query: 4 AQQESEKKLITIVVKTPKEKQNI----EIEEDASVTDFKEAVAKKFNALP---EQLCLIF 56
+ S K + + K ++ + ++E A++ + K K + L L
Sbjct: 2 SSGSSGMKHYEVEILDAKTREKLCFLDKVEPHATIAEIKNLFTKTHPQWYPARQSLRLDP 61
Query: 57 AGKIMKDHENLSNHNMKDGLT 77
GK +KD + L + T
Sbjct: 62 KGKSLKDEDVLQKLPVGTTAT 82
>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 = 40.3 bits (94), Expect = 3e-04
Identities = 22/66 (33%), Positives = 36/66 (54%), Gaps = 1/66 (1%)
Query: 13 ITIVVKTPKEK-QNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
+ I VKT K +E+E ++ + K + K P+Q LIFAGK ++D LS++N
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 72 MKDGLT 77
++ T
Sbjct: 61 IQKEST 66
>3q3f_A Ribonuclease/ubiquitin chimeric protein; domain SWAP,
oligomerization, ubiquitin insertion, hydrolase binding;
2.17A {Bacillus amyloliquefaciens}
Length = 189
Score = 40.0 bits (93), Expect = 4e-04
Identities = 17/52 (32%), Positives = 30/52 (57%)
Query: 26 IEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHNMKDGLT 77
+E+E ++ + K + K P+Q LIFAGK ++D LS++N++ T
Sbjct: 120 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKEST 171
>1v2y_A 3300001G02RIK protein; hypothetical protein, ubiquitin-like fold,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus
musculus} SCOP: d.15.1.1
Length = 105
Score = 38.0 bits (88), Expect = 7e-04
Identities = 15/85 (17%), Positives = 32/85 (37%), Gaps = 16/85 (18%)
Query: 9 EKKLITIVVKTPKEKQNIEIEEDASVTDFKEAVAKKFNALPE---------------QLC 53
+ V K E + + ++A+V D K+A+ + E
Sbjct: 5 SSGMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYH 64
Query: 54 LIFAG-KIMKDHENLSNHNMKDGLT 77
L AG K+ +D + L ++ +++
Sbjct: 65 LTSAGEKLTEDRKKLRDYGIRNRDE 89
>2cwb_A Chimera of immunoglobulin G binding protein G and ubiquitin-like
protein SB132; helical bundle, protein binding; NMR
{Streptococcus SP} PDB: 2den_A
Length = 108
Score = 37.8 bits (87), Expect = 0.001
Identities = 8/45 (17%), Positives = 18/45 (40%)
Query: 324 SSSLSTPGLANNQGGNAQAPPEVRYRSQLDQLTAMGFVNREANLQ 368
+ + ++ +++ QL QL MG + E +L+
Sbjct: 42 DNGVDGEWTYDDATKTFTVTEGSQWQPQLQQLRDMGIQDDELSLR 86
>3u30_A Ubiquitin, linear DI-ubiquitin; immune system; 2.43A {Homo sapiens}
Length = 172
Score = 38.1 bits (88), Expect = 0.002
Identities = 17/52 (32%), Positives = 30/52 (57%)
Query: 26 IEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHNMKDGLT 77
+E+E ++ + K + K P+Q LIFAGK ++D LS++N++ T
Sbjct: 111 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKEST 162
Score = 36.6 bits (84), Expect = 0.006
Identities = 22/66 (33%), Positives = 36/66 (54%), Gaps = 1/66 (1%)
Query: 13 ITIVVKTPKEK-QNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
+ I VKT K +E+E ++ + K + K P+Q LIFAGK ++D LS++N
Sbjct: 21 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 80
Query: 72 MKDGLT 77
++ T
Sbjct: 81 IQKEST 86
>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 = 37.3 bits (86), Expect = 0.003
Identities = 22/66 (33%), Positives = 36/66 (54%), Gaps = 1/66 (1%)
Query: 13 ITIVVKTPKEK-QNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
+ I VKT K +E+E ++ + K + K P+Q LIFAGK ++D LS++N
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 72 MKDGLT 77
++ T
Sbjct: 61 IQKEST 66
Score = 36.9 bits (85), Expect = 0.004
Identities = 17/52 (32%), Positives = 30/52 (57%)
Query: 26 IEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHNMKDGLT 77
+E+E ++ + K + K P+Q LIFAGK ++D LS++N++ T
Sbjct: 91 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKEST 142
>2gow_A HCG-1 protein, ubiquitin-like protein 3; BC059385, structural
genomics, protein structure initiative, PSI; NMR {Homo
sapiens}
Length = 125
Score = 35.8 bits (82), Expect = 0.006
Identities = 14/87 (16%), Positives = 32/87 (36%), Gaps = 8/87 (9%)
Query: 23 KQNIEIEEDASVTDFKEAV--------AKKFNALPEQLCLIFAGKIMKDHENLSNHNMKD 74
+ + S +D + V ++ + P L LI+ G+ + + L +
Sbjct: 29 TKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPF 88
Query: 75 GLTSLKQLPLTKEIMHPKEEPTLMSEQ 101
G T++ L + + P + E+
Sbjct: 89 GKTTVMHLVARETLPEPNSQGQRNREK 115
>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 = 36.3 bits (83), Expect = 0.013
Identities = 17/53 (32%), Positives = 30/53 (56%)
Query: 25 NIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHNMKDGLT 77
+E+E ++ + K + K P+Q LIFAGK ++D LS++N++ T
Sbjct: 247 TLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKEST 299
>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 = 34.0 bits (77), Expect = 0.014
Identities = 18/71 (25%), Positives = 30/71 (42%), Gaps = 6/71 (8%)
Query: 13 ITIVVKTPKEKQNIEIE-----EDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHE-N 66
+T+ V EK ++ + + V D + V + LIF GK +K+ E
Sbjct: 8 LTVTVTHSNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETP 67
Query: 67 LSNHNMKDGLT 77
LS ++DG
Sbjct: 68 LSALGIQDGCR 78
>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP,
translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A
Length = 504
Score = 36.5 bits (85), Expect = 0.017
Identities = 10/57 (17%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 354 QLTAMGFVNREANLQGSLFGNAGMQSMMQQM--MANPQLMQNMMQAPYMQSMLQAMS 408
++ + + + ++ ++ + M + QQM M +P+++ +M +QSM++
Sbjct: 433 KMGGIKGLFKGGDMSKNV-SQSQMAKLNQQMAKMMDPRVLHHMGGMAGLQSMMRQFQ 488
Score = 30.7 bits (70), Expect = 0.90
Identities = 11/62 (17%), Positives = 21/62 (33%), Gaps = 7/62 (11%)
Query: 377 MQSMMQQM-----MANPQLMQNMMQAPYMQSMLQAMS--ADPSIAQRVIGTNPLLQNSPE 429
M+++M + M + M + Q M+ DP + + G L +
Sbjct: 427 FAQMVKKMGGIKGLFKGGDMSKNVSQSQMAKLNQQMAKMMDPRVLHHMGGMAGLQSMMRQ 486
Query: 430 LQ 431
Q
Sbjct: 487 FQ 488
Score = 29.5 bits (67), Expect = 2.5
Identities = 11/31 (35%), Positives = 14/31 (45%), Gaps = 2/31 (6%)
Query: 373 GNAGMQSMMQQMMANPQLMQNMMQAPYMQSM 403
G AG+QSMM+Q NM +M
Sbjct: 476 GMAGLQSMMRQFQ--QGAAGNMKGMMGFNNM 504
>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 = 33.1 bits (75), Expect = 0.051
Identities = 13/82 (15%), Positives = 30/82 (36%), Gaps = 8/82 (9%)
Query: 23 KQNIEIEEDASVTDFKEAV--------AKKFNALPEQLCLIFAGKIMKDHENLSNHNMKD 74
+ + S +D + V ++ + P L LI+ G+ + + L +
Sbjct: 28 TKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPF 87
Query: 75 GLTSLKQLPLTKEIMHPKEEPT 96
G T++ L + + P +
Sbjct: 88 GKTTVMHLVARETLPEPNSQGQ 109
>2k8h_A Small ubiquitin protein; SUMO, post-translational modifier,
signaling protein; NMR {Trypanosoma brucei}
Length = 110
Score = 32.2 bits (73), Expect = 0.073
Identities = 12/75 (16%), Positives = 26/75 (34%), Gaps = 1/75 (1%)
Query: 2 AEAQQESEKKLITIVVKTP-KEKQNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKI 60
AE + E L+ + V + I+ ++ + KK + +F G
Sbjct: 16 AEGTCKEETALVAVKVVNADGAEMFFRIKSRTALKKLIDTYCKKQGISRNSVRFLFDGTP 75
Query: 61 MKDHENLSNHNMKDG 75
+ + + M+D
Sbjct: 76 IDETKTPEELGMEDD 90
>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 = 31.7 bits (72), Expect = 0.10
Identities = 9/64 (14%), Positives = 24/64 (37%), Gaps = 1/64 (1%)
Query: 13 ITIVVKTP-KEKQNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHN 71
I + V +I+ ++ +A ++ Q+ F G+ + + + +
Sbjct: 6 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 65
Query: 72 MKDG 75
M+D
Sbjct: 66 MEDE 69
>2daf_A FLJ35834 protein; hypothetical protein FLJ35834, ubiquitin-like
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 118
Score = 31.6 bits (71), Expect = 0.16
Identities = 16/83 (19%), Positives = 35/83 (42%)
Query: 31 DASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHNMKDGLTSLKQLPLTKEIMH 90
D + K+ + L + ++GKI+K++E L H +K ++ T ++
Sbjct: 36 DTILKYLKDHFSHLLGIPHSVLQIRYSGKILKNNETLVQHGVKPQEIVQVEIFSTNPDLY 95
Query: 91 PKEEPTLMSEQLHLVLVRWEVSG 113
P +++ ++ V SG
Sbjct: 96 PVRRIDGLTDVSQIITVSGPSSG 118
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 32.1 bits (72), Expect = 0.21
Identities = 9/43 (20%), Positives = 19/43 (44%), Gaps = 7/43 (16%)
Query: 3 EAQQESEKKLITIVVKTPKEKQNIEIEE-DASVTDFKEAVAKK 44
QE E ++ +E+Q ++E DA+ ++ +K
Sbjct: 79 RLTQEPES------IRKWREEQRKRLQELDAASKVMEQEWREK 115
>2llw_A Heat shock protein STI1; DP domain, alpha helix, chaperone; NMR
{Saccharomyces cerevisiae}
Length = 71
Score = 29.8 bits (67), Expect = 0.25
Identities = 13/39 (33%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 378 QSMMQQMMANPQLMQNMMQAPYMQSMLQAMSADPSIAQR 416
+ Q+ M +P++ +MQ P MQS+LQ +P+ Q
Sbjct: 10 EETYQRAMKDPEVAA-IMQDPVMQSILQQAQQNPAALQE 47
Score = 27.1 bits (60), Expect = 2.3
Identities = 12/40 (30%), Positives = 22/40 (55%)
Query: 370 SLFGNAGMQSMMQQMMANPQLMQNMMQAPYMQSMLQAMSA 409
++ + MQS++QQ NP +Q M+ P + +Q + A
Sbjct: 24 AIMQDPVMQSILQQAQQNPAALQEHMKNPEVFKKIQTLIA 63
Score = 26.3 bits (58), Expect = 4.7
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 177 MQNPEIQGMMANPEALSAIQQIQ 199
M++PE+ +M +P S +QQ Q
Sbjct: 17 MKDPEVAAIMQDPVMQSILQQAQ 39
>2io1_B Small ubiquitin-related modifier 3 precursor; SUMO, SENP, ULP,
complex, protein binding, hydrolase; 2.60A {Homo
sapiens} SCOP: d.15.1.1
Length = 94
Score = 30.2 bits (68), Expect = 0.28
Identities = 9/73 (12%), Positives = 26/73 (35%), Gaps = 3/73 (4%)
Query: 4 AQQESEKKLITIVVKTP-KEKQNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMK 62
++ I + V +I+ ++ +A ++ Q+ F G+ +
Sbjct: 1 GSHMNDH--INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPIN 58
Query: 63 DHENLSNHNMKDG 75
+ + + M+D
Sbjct: 59 ETDTPAQLEMEDE 71
>3kyd_D Small ubiquitin-related modifier 1; SUMO, thioester, adenylation,
inhibitor, TETR intermediate, ligase, nucleus,
phosphoprotein; HET: VMX; 2.61A {Homo sapiens}
Length = 115
Score = 30.7 bits (69), Expect = 0.28
Identities = 10/74 (13%), Positives = 29/74 (39%), Gaps = 1/74 (1%)
Query: 3 EAQQESEKKLITIVVKTP-KEKQNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIM 61
+ + E + I + V + + +++ + KE+ ++ L +F G+ +
Sbjct: 31 DLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRI 90
Query: 62 KDHENLSNHNMKDG 75
D+ M++
Sbjct: 91 ADNHTPKELGMEEE 104
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 32.5 bits (74), Expect = 0.33
Identities = 29/174 (16%), Positives = 54/174 (31%), Gaps = 40/174 (22%)
Query: 234 TMEMARNPSMLQELMRTQDRALS-----------NLESIPGGYSALQRMYRDIQEP--ML 280
EMA N L L+ + L L+ +P ++ +++ E +
Sbjct: 699 QKEMAFN---LLGLLTPEVVELCQKSPVMADLNGGLQFVPELKEFTAKLRKELVETSEVR 755
Query: 281 NAATQQFSRNPYESNSSGGNPGRVKAPFRRSKRYLGPRQCARPSSSLSTPGLANNQGGNA 340
A + + + N + + + + R + L P L +
Sbjct: 756 KAVSIETALEHKVVNGNSADAAYAQVEIQP-----------RANIQLDFPELKPYKQVKQ 804
Query: 341 QAPPEVRYRSQLDQL---TAMGFVN----------REANLQGSLFGNAGMQSMM 381
AP E+ L+++ T V EA + SL G M +M
Sbjct: 805 IAPAELEGLLDLERVIVVTGFAEVGPWGSARTRWEMEAFGEFSLEGCVEMAWIM 858
>2ylm_A Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70A {Homo sapiens}
Length = 530
Score = 32.3 bits (73), Expect = 0.33
Identities = 18/112 (16%), Positives = 37/112 (33%), Gaps = 9/112 (8%)
Query: 1 MAEAQQESEKKLITIVVKTPKEKQNIEIEEDASVTDFKEAVAKKFNALPEQ-----LCLI 55
+ + + K I + + +E+ + ++ V D E K + L I
Sbjct: 331 ITDFENRRSFKCIWLNSQFREEEITLYPDKHGCVRDLLEECKKAVELGEKASGKLRLLEI 390
Query: 56 FAGKIMKDHENLSNHNMKDGLTSLKQLPLTKEIMHPKEEPTLMSEQLHLVLV 107
+ KI + + L+ E + P ++ + E LV V
Sbjct: 391 VSYKI---IGVHQEDELLECLSPATSRTFRIEEI-PLDQVDIDKENEMLVTV 438
>1wz0_A Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-like molecule,
structural genomics, sentrin2, NPPFSA; NMR {Homo
sapiens} SCOP: d.15.1.1
Length = 104
Score = 30.2 bits (68), Expect = 0.35
Identities = 12/81 (14%), Positives = 30/81 (37%), Gaps = 6/81 (7%)
Query: 1 MAEAQQESEKK-----LITIVVKTP-KEKQNIEIEEDASVTDFKEAVAKKFNALPEQLCL 54
MA+ + + K I + V +I+ ++ +A ++ Q+
Sbjct: 8 MADEKPKEGVKTENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRF 67
Query: 55 IFAGKIMKDHENLSNHNMKDG 75
F G+ + + + + M+D
Sbjct: 68 RFDGQPINETDTPAQLEMEDE 88
>2d07_B Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Homo sapiens}
SCOP: d.15.1.1 PDB: 2rpq_A 2awt_A 2io3_B 2iyd_B 1u4a_A
2k1f_A
Length = 93
Score = 29.8 bits (67), Expect = 0.37
Identities = 12/81 (14%), Positives = 30/81 (37%), Gaps = 6/81 (7%)
Query: 1 MAEAQQESEKK-----LITIVVKTP-KEKQNIEIEEDASVTDFKEAVAKKFNALPEQLCL 54
MA+ + + K I + V +I+ ++ +A ++ Q+
Sbjct: 1 MADEKPKEGVKTENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRF 60
Query: 55 IFAGKIMKDHENLSNHNMKDG 75
F G+ + + + + M+D
Sbjct: 61 RFDGQPINETDTPAQLEMEDE 81
>2jxx_A Nfatc2-interacting protein; nuclear factor of activated T-cells,
cytoplasmic 2- interacting protein, ubiquitin like
homologue; NMR {Homo sapiens}
Length = 97
Score = 29.9 bits (67), Expect = 0.42
Identities = 10/75 (13%), Positives = 26/75 (34%), Gaps = 2/75 (2%)
Query: 3 EAQQESEKKLITIVVKTPKEKQNIE--IEEDASVTDFKEAVAKKFNALPEQLCLIFAGKI 60
+ + + V+ ++ Q +E + D+ + + +L F G
Sbjct: 16 PRGSTETSQQLQLRVQGKEKHQTLEVSLSRDSPLKTLMSHYEEAMGLSGRKLSFFFDGTK 75
Query: 61 MKDHENLSNHNMKDG 75
+ E ++ M+ G
Sbjct: 76 LSGRELPADLGMESG 90
>1wyw_B Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Homo sapiens}
SCOP: d.15.1.1 PDB: 1y8r_C* 2asq_A 2pe6_B 1a5r_A 2kqs_A
3kyc_D* 3rzw_C
Length = 97
Score = 29.9 bits (67), Expect = 0.49
Identities = 10/74 (13%), Positives = 29/74 (39%), Gaps = 1/74 (1%)
Query: 3 EAQQESEKKLITIVVKTP-KEKQNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIM 61
+ + E + I + V + + +++ + KE+ ++ L +F G+ +
Sbjct: 12 DLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRI 71
Query: 62 KDHENLSNHNMKDG 75
D+ M++
Sbjct: 72 ADNHTPKELGMEEE 85
>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 = 28.9 bits (64), Expect = 0.85
Identities = 10/49 (20%), Positives = 21/49 (42%)
Query: 26 IEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHNMKD 74
++ + + ++ V+KK E L + + + LS +MKD
Sbjct: 18 MKTQPGLPYSQVRDMVSKKLELRLEHTKLSYRPRDSNELVPLSEDSMKD 66
>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 = 28.2 bits (63), Expect = 1.2
Identities = 9/65 (13%), Positives = 25/65 (38%), Gaps = 2/65 (3%)
Query: 13 ITIVVKTPKEKQNIE--IEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNH 70
+ + V+ ++ Q +E + D+ + + +L F G + E ++
Sbjct: 8 LRLRVQGKEKHQMLEISLSPDSPLKVLMSHYEEAMGLSGHKLSFFFDGTKLSGKELPADL 67
Query: 71 NMKDG 75
++ G
Sbjct: 68 GLESG 72
>2jhf_A Alcohol dehydrogenase E chain; oxidoreductase, metal coordination,
NAD, zinc, inhibition, acetylation, metal-binding; HET:
NAD; 1.0A {Equus caballus} SCOP: b.35.1.2 c.2.1.1 PDB:
1adc_A* 1adf_A* 1adg_A* 1adb_A* 1bto_A* 1heu_A* 1hf3_A*
1hld_A* 1lde_A* 1ldy_A* 1mg0_A* 1n92_A* 1p1r_A* 1ye3_A
1het_A* 2jhg_A* 2ohx_A* 2oxi_A* 3bto_A* 4dwv_A* ...
Length = 374
Score = 29.5 bits (67), Expect = 2.0
Identities = 7/24 (29%), Positives = 12/24 (50%)
Query: 93 EEPTLMSEQLHLVLVRWEVSGICH 116
EE + + H V ++ +GIC
Sbjct: 24 EEVEVAPPKAHEVRIKMVATGICR 47
>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 = 28.1 bits (62), Expect = 2.3
Identities = 10/58 (17%), Positives = 24/58 (41%)
Query: 15 IVVKTPKEKQNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHNM 72
++++ K + +E ++V + K V PE+ L +++ D + L
Sbjct: 5 LMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPEEQRLYKDDQLLDDGKTLGECGF 62
>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 = 28.5 bits (63), Expect = 2.3
Identities = 12/78 (15%), Positives = 31/78 (39%), Gaps = 12/78 (15%)
Query: 31 DASVTDFKEAV-------AKKFNALPEQLCLIFAGKIMKDHENLSNHNMKDGLTSLKQLP 83
+V+ KE V + +++ LI AGK++++ + + ++ + L
Sbjct: 37 ATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRS-----PVSNLA 91
Query: 84 LTKEIMHPKEEPTLMSEQ 101
MH + + ++
Sbjct: 92 GAVTTMHVIIQAPVTEKE 109
>2pv7_A T-protein [includes: chorismate mutase (EC 5.4.99 and prephenate
dehydrogenase (EC...; 1574749, chorismate mutase type
II; HET: MSE TYR NAD; 2.00A {Haemophilus influenzae}
SCOP: a.100.1.12 c.2.1.6
Length = 298
Score = 28.1 bits (63), Expect = 5.0
Identities = 13/93 (13%), Positives = 29/93 (31%), Gaps = 22/93 (23%)
Query: 178 QNPE----IQGMMANPEALSAIQQIQAGIEQLRTAAPGMEWNFRNPEINHMLNNPELLRQ 233
Q+ E I M E L+ I+ ++ ++ T E N+ +
Sbjct: 222 QDAELYADII--MDKSENLAVIETLKQTYDEALTF---FEN-----------NDRQGFID 265
Query: 234 TMEMARN--PSMLQELMRTQDRALSNLESIPGG 264
R+ ++ ++ + L + G
Sbjct: 266 AFHKVRDWFGDYSEQFLKESRQLLQQANDLKQG 298
>1sz2_A Glucokinase, glucose kinase; ATP-dependent, glucose binding,
transferase; HET: MSE BGC; 2.20A {Escherichia coli}
SCOP: c.55.1.7 PDB: 1q18_A*
Length = 332
Score = 28.2 bits (62), Expect = 5.5
Identities = 8/63 (12%), Positives = 21/63 (33%)
Query: 19 TPKEKQNIEIEEDASVTDFKEAVAKKFNALPEQLCLIFAGKIMKDHENLSNHNMKDGLTS 78
+ + + S+ ++ + C+ A I D ++NH +
Sbjct: 37 EISQAKTYSGLDYPSLEAVIRVYLEEHKVEVKDGCIAIACPITGDWVAMTNHTWAFSIAE 96
Query: 79 LKQ 81
+K+
Sbjct: 97 MKK 99
>1ybx_A Conserved hypothetical protein; ST genomics, PSI, protein structure
initiative, southeast COLL for structural genomics,
secsg; HET: MSE; 1.80A {Clostridium thermocellum}
Length = 143
Score = 27.4 bits (61), Expect = 5.6
Identities = 8/35 (22%), Positives = 14/35 (40%), Gaps = 2/35 (5%)
Query: 373 GNAGMQSMMQQMMANPQLMQNMMQAPYMQSMLQAM 407
G G + ++ Q MQ M+ +Q L+
Sbjct: 35 GFPGFGGNINNLVKQAQKMQRDMER--VQEELKEK 67
>3sxu_B DNA polymerase III subunit PSI; DNA replication, CHI binds to SSB
and PSI, transferase; HET: DNA; 1.85A {Escherichia coli}
PDB: 1em8_B* 3gli_O*
Length = 138
Score = 27.0 bits (59), Expect = 8.1
Identities = 14/68 (20%), Positives = 26/68 (38%), Gaps = 1/68 (1%)
Query: 132 LKQLPLTKEITHPKEEPILMSEQLHLVLVRWEAQMQQMLPQFLQQMQNPEIQGMMANPEA 191
L+ L ++ + + W + L Q+ +P + + ANP A
Sbjct: 59 LRALTVSPDQVLQLTPEKIAMLPQGSHCNSWRLGTDEPLSLEGAQVASPALTDLRANPTA 118
Query: 192 LSAI-QQI 198
+A+ QQI
Sbjct: 119 RAALWQQI 126
>1abv_A Delta subunit of the F1F0-ATP synthase; ATP synthesis, F1-ATPase,
spectroscopy; NMR {Escherichia coli} SCOP: a.70.1.1 PDB:
2a7u_B
Length = 134
Score = 26.5 bits (59), Expect = 9.1
Identities = 7/53 (13%), Positives = 18/53 (33%), Gaps = 2/53 (3%)
Query: 164 AQMQQMLPQFLQQMQNPEIQGMMANPEALSAIQQIQAGIEQLRTAAPGMEWNF 216
+ Q ML + +N ++ +++ L+ ++ I N
Sbjct: 25 ERWQDMLAFAAEVTKNEQMAELLSGA--LAPETLAESFIAVCGEQLDENGQNL 75
>2cp8_A NEXT to BRCA1 gene 1 protein; UBA domain, structural genomics,
human, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
a.5.2.1
Length = 54
Score = 25.1 bits (54), Expect = 9.9
Identities = 7/27 (25%), Positives = 14/27 (51%)
Query: 342 APPEVRYRSQLDQLTAMGFVNREANLQ 368
+ + + + L MGF +R+ NL+
Sbjct: 3 SGSSGQTAALMAHLFEMGFCDRQLNLR 29
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
0.314 0.128 0.360
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: 6,348,456
Number of extensions: 372185
Number of successful extensions: 1048
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1015
Number of HSP's successfully gapped: 142
Length of query: 433
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 337
Effective length of database: 4,021,377
Effective search space: 1355204049
Effective search space used: 1355204049
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: 59 (26.5 bits)