RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2142
(168 letters)
>3iz6_Z 40S ribosomal protein S30 (S30E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum}
Length = 62
Score = 73.6 bits (180), Expect = 2e-18
Identities = 26/45 (57%), Positives = 34/45 (75%)
Query: 124 KTEMVEKQEKKKKKTGRAKRRVQYNRRFVNVVQTFGRRRGPNANS 168
+T V KQ+KKKK GRA +R+QYNRRFV V FG++RGPN++
Sbjct: 17 QTPKVAKQDKKKKPRGRAHKRMQYNRRFVTAVVGFGKKRGPNSSE 61
>3u5c_E RP5, S7, YS6, 40S ribosomal protein S4-A; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3izb_D 3u5g_E
Length = 261
Score = 73.5 bits (180), Expect = 3e-18
Identities = 0/46 (0%), Positives = 11/46 (23%), Gaps = 1/46 (2%)
Query: 124 KTEMVEKQEKKKKKTGRAKRRVQYNRRFVNVVQTFGRRR-GPNANS 168
+ + + +++ + + ++ +
Sbjct: 17 HWLLDKLSGCYAPRPSAGPHKLRESLPLIVFLRNRLKYALNGREVK 62
>2xzm_X RPS30E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_X 3j0o_X 3j0l_X 3j0p_X 3j0q_X
Length = 80
Score = 67.1 bits (163), Expect = 1e-15
Identities = 16/48 (33%), Positives = 29/48 (60%), Gaps = 3/48 (6%)
Query: 124 KTEMVEKQEKKKKK-TGRAKRRVQYNRRFVNVVQTFG--RRRGPNANS 168
+T VEK++K +K GR+ +R+ YNRR+ + +R+ PN ++
Sbjct: 17 QTPKVEKKDKPRKTPKGRSYKRILYNRRYAPHILATDPKKRKSPNWHA 64
>2l7r_A Ubiquitin-like protein FUBI; structural genomics, PSI-biology,
protein structure initiati northeast structural genomics
consortium, NESG; NMR {Homo sapiens}
Length = 93
Score = 55.9 bits (135), Expect = 3e-11
Identities = 24/72 (33%), Positives = 41/72 (56%), Gaps = 3/72 (4%)
Query: 52 IIVRGQSNYVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD--LESG 109
+ VR Q + E ETV+ +K VASLE +A ED ++ +G L D+ ++ +E+
Sbjct: 22 LFVRAQELHTFEVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPLEDEATLGQCGVEAL 81
Query: 110 S-IEIFVPLLGG 120
+ +E+ +LGG
Sbjct: 82 TTLEVAGRMLGG 93
>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 = 44.0 bits (104), Expect = 2e-06
Identities = 5/78 (6%), Positives = 12/78 (15%), Gaps = 14/78 (17%)
Query: 62 LECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD--LESGS-IEIFVPLL 118
++ V +++ E + S
Sbjct: 15 EVVEEFTPVVLATPIPEEVQQAQTEIKLFNKWSFEEVEVKDASLVDYVQVRQPIFVAHTA 74
Query: 119 GGKLLKTEMVEKQEKKKK 136
G K+
Sbjct: 75 GRY-----------ANKR 81
>2hj8_A Interferon-induced 17 kDa protein; HR2873B, human ISG15, structure,
northeast structural genomics consortium, protein
structure initiative, NESG; NMR {Homo sapiens}
Length = 88
Score = 40.5 bits (95), Expect = 2e-05
Identities = 29/83 (34%), Positives = 44/83 (53%), Gaps = 8/83 (9%)
Query: 45 MIENMKRIIVR---GQSNYVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDL 101
M E + I+VR G+S E + +TV+HLK +V+ LE V + F L GK L D L
Sbjct: 1 MDEPL-SILVRNNKGRS-STYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQL 58
Query: 102 SISD--LESGS-IEIFVPLLGGK 121
+ + L+ S + + + L GG
Sbjct: 59 PLGEYGLKPLSTVFMNLRLRGGL 81
>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 = 43.1 bits (101), Expect = 2e-05
Identities = 37/189 (19%), Positives = 70/189 (37%), Gaps = 47/189 (24%)
Query: 6 LIRLAHSIELC-TWHLNP-----------------VTSTYYLSKASFGTKFDVAVITMIE 47
+I+LAH + P VT+ +++ F V+V I
Sbjct: 243 VIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVA-IAETDSWESFFVSVRKAIT 301
Query: 48 NMKRIIVRGQSNY---------VLECQQN-ETV-SHLKNKVASLEKVALEDF-SLICSGK 95
+ I VR Y + + +N E V S + + +++L + ++D+ + S
Sbjct: 302 VLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLS-ISNLTQEQVQDYVNKTNSHL 360
Query: 96 TLTDDLSISDLESGSIEIFV----P--LLGGKLLKTEMVEKQEKKKKKTGRAKRRVQYNR 149
+ IS L +G+ + V P L G L + K K +G + R+ ++
Sbjct: 361 PAGKQVEIS-LVNGA-KNLVVSGPPQSLYG---LNLTL----RKAKAPSGLDQSRIPFSE 411
Query: 150 RFVNVVQTF 158
R + F
Sbjct: 412 RKLKFSNRF 420
Score = 30.4 bits (68), Expect = 0.34
Identities = 20/82 (24%), Positives = 34/82 (41%), Gaps = 30/82 (36%)
Query: 53 IVRGQSNYVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISDLESGSIE 112
IV NY +E QQ VA+ + AL+ T+T+ L+ ++ I+
Sbjct: 1843 IV----NYNVENQQ---Y------VAAGDLRALD---------TVTNVLNF--IKLQKID 1878
Query: 113 IFVPLLGGKLLKTEMVEKQEKK 134
I +L K+ +E+ E
Sbjct: 1879 I------IELQKSLSLEEVEGH 1894
>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 = 40.4 bits (95), Expect = 2e-05
Identities = 14/64 (21%), Positives = 26/64 (40%), Gaps = 3/64 (4%)
Query: 51 RIIVRGQSN-YVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD--LE 107
R+ V+ + + +N V K +++ + LI +GK L D +S +
Sbjct: 19 RVSVKTPQDCHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRGIL 78
Query: 108 SGSI 111
GS
Sbjct: 79 DGST 82
>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 = 40.1 bits (94), Expect = 3e-05
Identities = 13/59 (22%), Positives = 25/59 (42%), Gaps = 3/59 (5%)
Query: 49 MKRIIVR--GQSNYVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD 105
+ + + + L+ + + T+ K K+A LI SGK L D ++S+
Sbjct: 2 VS-LTFKNFKKEKVPLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQDSKTVSE 59
>2xzm_9 RPS31E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_9
Length = 189
Score = 41.3 bits (96), Expect = 4e-05
Identities = 15/98 (15%), Positives = 40/98 (40%), Gaps = 10/98 (10%)
Query: 61 VLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISDLESGSIEIFVPLLGG 120
+ +Q +V LK++++ ++ +L+ +G + ++D
Sbjct: 14 IYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAPNTELVTD---DVTYYLS----- 65
Query: 121 KLLKTEMVEKQEKKKKKTGRAKRRVQYNRRFVNVVQTF 158
LK +K++KKK T + K + ++ + + +
Sbjct: 66 --LKLLGGKKKKKKKSYTTKKKTKHRHVHTKLGALAFY 101
>2klc_A Ubiquilin-1; ubiquitin-like, structural genomics, PSI-2, protein
structur initiative, northeast structural genomics
consortium, NESG; NMR {Homo sapiens}
Length = 101
Score = 39.7 bits (93), Expect = 4e-05
Identities = 13/64 (20%), Positives = 26/64 (40%), Gaps = 3/64 (4%)
Query: 51 RIIVRGQSN-YVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD--LE 107
++ V+ +N +V K +++ K + LI +GK L D ++S +
Sbjct: 27 KVTVKTPKEKEEFAVPENSSVQQFKEEISKRFKSHTDQLVLIFAGKILKDQDTLSQHGIH 86
Query: 108 SGSI 111
G
Sbjct: 87 DGLT 90
>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 = 39.2 bits (92), Expect = 4e-05
Identities = 13/60 (21%), Positives = 24/60 (40%)
Query: 47 ENMKRIIVRGQSNYVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISDL 106
+K + G + L + TV LK+++ + V LI GK L + ++
Sbjct: 11 STIKLTVKFGGKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVETSTLKQS 70
>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 = 38.8 bits (91), Expect = 5e-05
Identities = 16/64 (25%), Positives = 32/64 (50%), Gaps = 3/64 (4%)
Query: 60 YVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD--LESGS-IEIFVP 116
++ + + V +K +V E + + LI SGK + D+ + +D + GS + + +
Sbjct: 13 IEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLA 72
Query: 117 LLGG 120
L GG
Sbjct: 73 LRGG 76
>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 = 38.7 bits (91), Expect = 5e-05
Identities = 13/50 (26%), Positives = 21/50 (42%)
Query: 56 GQSNYVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD 105
GQ + + TV K + + + + LI SGK L DD ++
Sbjct: 12 GQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVES 61
>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 = 38.4 bits (90), Expect = 6e-05
Identities = 15/52 (28%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 62 LECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD--LESGSI 111
+E + ++ LK VA + V + +I +GK L + L++ + LE SI
Sbjct: 15 VEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELPNHLTVQNCDLEQQSI 66
>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 = 38.9 bits (91), Expect = 7e-05
Identities = 18/64 (28%), Positives = 35/64 (54%), Gaps = 3/64 (4%)
Query: 60 YVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD--LESGS-IEIFVP 116
LE + ++T+ ++K K+ E + + LI +GK L D ++SD ++ S + + +
Sbjct: 16 ITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKWSTLFLLLR 75
Query: 117 LLGG 120
L GG
Sbjct: 76 LRGG 79
>2dzi_A Ubiquitin-like protein 4A; GDX, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 81
Score = 38.4 bits (90), Expect = 9e-05
Identities = 15/46 (32%), Positives = 22/46 (47%)
Query: 60 YVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD 105
L+ ++E VS LK V+ V + L+ GK L D +SD
Sbjct: 20 CSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADGKRLSD 65
>3n3k_B Ubiquitin; hydrolase, protease, thiol protease, DUB, zinc ribbon,
inhibitor, ubiqu acetylation, cytoplasm, isopeptide
bond, nucleus; 2.60A {Homo sapiens}
Length = 85
Score = 38.5 bits (90), Expect = 9e-05
Identities = 18/62 (29%), Positives = 35/62 (56%), Gaps = 3/62 (4%)
Query: 62 LECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD--LESGS-IEIFVPLL 118
LE + ++T+ ++K K+ E + + LI +GK L D ++SD + + S + + + L
Sbjct: 18 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIHNHSALYLLLKLR 77
Query: 119 GG 120
GG
Sbjct: 78 GG 79
>2kdi_A Ubiquitin, vacuolar protein sorting-associated protein 27 fusion
protein; ubiquitin interacting motif, UIM, protein
domain interface; NMR {Saccharomyces cerevisiae}
Length = 114
Score = 38.6 bits (90), Expect = 1e-04
Identities = 20/79 (25%), Positives = 41/79 (51%), Gaps = 3/79 (3%)
Query: 60 YVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD--LESGS-IEIFVP 116
LE + ++T+ ++K+K+ E + + LI +GK L D ++SD ++ S + + +
Sbjct: 22 ITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDYNIQRESTLHLVLR 81
Query: 117 LLGGKLLKTEMVEKQEKKK 135
L GG + E+ +K
Sbjct: 82 LRGGSMGGAADEEELIRKA 100
>1j8c_A Ubiquitin-like protein hplic-2; ubiquitin-like domain, structural
genomics; NMR {Homo sapiens} SCOP: d.15.1.1
Length = 125
Score = 39.1 bits (91), Expect = 1e-04
Identities = 12/64 (18%), Positives = 25/64 (39%), Gaps = 3/64 (4%)
Query: 51 RIIVR-GQSNYVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD--LE 107
++ V+ + +N +V K ++ K + LI +GK L D ++ +
Sbjct: 34 KVTVKTPKEKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHGIH 93
Query: 108 SGSI 111
G
Sbjct: 94 DGLT 97
>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 = 38.0 bits (89), Expect = 1e-04
Identities = 11/61 (18%), Positives = 24/61 (39%), Gaps = 3/61 (4%)
Query: 47 ENMKRIIVR--GQSNYVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSIS 104
++++ ++V+ V K +A+ + E LI G+ L DD +
Sbjct: 4 DSLE-VLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQ 62
Query: 105 D 105
+
Sbjct: 63 E 63
>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 = 40.4 bits (93), Expect = 1e-04
Identities = 17/65 (26%), Positives = 31/65 (47%), Gaps = 6/65 (9%)
Query: 47 ENMKRIIVR--GQSNYVLECQQNETVSHLKNKVASLEKVA---LEDFSLICSGKTLTDDL 101
+ I ++ Q + + + +ETV LK K+ + + + LI +GK L+DD+
Sbjct: 6 SAVT-ITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDV 64
Query: 102 SISDL 106
I D
Sbjct: 65 PIRDY 69
>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 = 38.1 bits (89), Expect = 1e-04
Identities = 16/63 (25%), Positives = 32/63 (50%), Gaps = 3/63 (4%)
Query: 62 LECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD--LESGS-IEIFVPLL 118
++ + + V +K +V E + + LI SGK + D+ + +D + GS + + + L
Sbjct: 15 IDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALR 74
Query: 119 GGK 121
GG
Sbjct: 75 GGG 77
>3m63_B Ubiquitin domain-containing protein DSK2; armadillo-like repeats,
UBL conjugation pathway, nucleus, phosphoprotein; HET:
1PE; 2.40A {Saccharomyces cerevisiae}
Length = 101
Score = 38.5 bits (90), Expect = 1e-04
Identities = 13/50 (26%), Positives = 21/50 (42%)
Query: 56 GQSNYVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD 105
GQ + + TV K + + + + LI SGK L DD ++
Sbjct: 36 GQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVES 85
>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 = 38.3 bits (89), Expect = 1e-04
Identities = 11/56 (19%), Positives = 22/56 (39%), Gaps = 1/56 (1%)
Query: 56 GQSNYVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDD-LSISDLESGS 110
+ +E +E K ++ +L V ++ G TL DD +++G
Sbjct: 16 KEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDDDWGNIKMKNGM 71
>3u30_A Ubiquitin, linear DI-ubiquitin; immune system; 2.43A {Homo sapiens}
Length = 172
Score = 39.3 bits (91), Expect = 1e-04
Identities = 18/65 (27%), Positives = 35/65 (53%), Gaps = 3/65 (4%)
Query: 59 NYVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD--LESGS-IEIFV 115
LE + ++T+ ++K K+ E + + LI +GK L D ++SD ++ S + + +
Sbjct: 108 TITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL 167
Query: 116 PLLGG 120
L GG
Sbjct: 168 RLRGG 172
Score = 31.9 bits (72), Expect = 0.062
Identities = 14/44 (31%), Positives = 26/44 (59%)
Query: 62 LECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD 105
LE + ++T+ ++K K+ E + + LI +GK L D ++SD
Sbjct: 35 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 78
>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 = 38.5 bits (90), Expect = 1e-04
Identities = 14/72 (19%), Positives = 29/72 (40%), Gaps = 3/72 (4%)
Query: 47 ENMKRIIVR-GQSNYVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD 105
++ ++ V+ + T+ LK +++ K + LI +GK L D S++
Sbjct: 15 PHLIKVTVKTPKDKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQ 74
Query: 106 --LESGSIEIFV 115
+ G V
Sbjct: 75 CGVRDGLTVHLV 86
>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 = 38.1 bits (89), Expect = 2e-04
Identities = 14/68 (20%), Positives = 27/68 (39%), Gaps = 3/68 (4%)
Query: 51 RIIVRGQSN-YVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD--LE 107
++ V+ + T+ LK +++ K + LI +GK L D S++ +
Sbjct: 24 KVTVKTPKDKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVR 83
Query: 108 SGSIEIFV 115
G V
Sbjct: 84 DGLTVHLV 91
>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 = 38.5 bits (89), Expect = 2e-04
Identities = 12/54 (22%), Positives = 25/54 (46%)
Query: 52 IIVRGQSNYVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD 105
+I R ++ + +++ TV LK V + K E+ L + L D ++ +
Sbjct: 6 MIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPEEQRLYKDDQLLDDGKTLGE 59
>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 = 37.8 bits (88), Expect = 2e-04
Identities = 12/44 (27%), Positives = 21/44 (47%)
Query: 62 LECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD 105
L + +TV H+K ++ + E V SG+ LTD + +
Sbjct: 38 LVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEE 81
>3phx_B Ubiquitin-like protein ISG15; OTU domain, DE-ubiquitinase,
DE-isgylase, hydrolase-protein complex; 1.60A {Homo
sapiens}
Length = 79
Score = 37.0 bits (86), Expect = 2e-04
Identities = 17/44 (38%), Positives = 25/44 (56%)
Query: 62 LECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD 105
E + +TV+HLK +V+ LE V + F L GK L D L + +
Sbjct: 19 YEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGE 62
>1sif_A Ubiquitin; hydrophobic mutants, folding, stability, structural
protein; 2.18A {Homo sapiens} SCOP: d.15.1.1
Length = 88
Score = 37.3 bits (87), Expect = 3e-04
Identities = 19/82 (23%), Positives = 46/82 (56%), Gaps = 8/82 (9%)
Query: 45 MIENMKRIIVR---GQSNYVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDL 101
++ ++ + ++ G++ + +E + ++T+ +LK K+ E + + LI +GK L D
Sbjct: 6 HLQGLQ-LFIKTLTGKT-FTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGR 63
Query: 102 SISD--LESGS-IEIFVPLLGG 120
++SD ++ S + + + L GG
Sbjct: 64 TLSDYNIQKESTLHLVLRLRGG 85
>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 = 37.5 bits (87), Expect = 3e-04
Identities = 12/62 (19%), Positives = 23/62 (37%), Gaps = 3/62 (4%)
Query: 62 LECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD--LESGS-IEIFVPLL 118
+ VS +K K+ + L G + D S++ + SG+ I + +
Sbjct: 50 FTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMASGAVIHLALKER 109
Query: 119 GG 120
G
Sbjct: 110 SG 111
>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 = 38.1 bits (88), Expect = 3e-04
Identities = 24/99 (24%), Positives = 44/99 (44%), Gaps = 6/99 (6%)
Query: 25 STYYLSKASFGTKFDVAVITMIENMKRIIVRGQSNYVLECQQNETVSHLKNKVASLEKVA 84
S Y + K S M +K + LE + ++T+ ++K K+ E +
Sbjct: 57 SDYNIQKESTLHLVLRLRGGMQIFVKTLT---GKTITLEVEPSDTIENVKAKIQDKEGIP 113
Query: 85 LEDFSLICSGKTLTDDLSISD--LESGS-IEIFVPLLGG 120
+ LI +GK L D ++SD ++ S + + + L GG
Sbjct: 114 PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 152
Score = 33.1 bits (75), Expect = 0.020
Identities = 14/44 (31%), Positives = 26/44 (59%)
Query: 62 LECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD 105
LE + ++T+ ++K K+ E + + LI +GK L D ++SD
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58
>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 = 37.0 bits (86), Expect = 3e-04
Identities = 9/46 (19%), Positives = 17/46 (36%)
Query: 60 YVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD 105
Y N + LK ++ + + + L G+ L D L +
Sbjct: 20 YAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGI 65
>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 = 37.0 bits (86), Expect = 3e-04
Identities = 16/64 (25%), Positives = 32/64 (50%), Gaps = 3/64 (4%)
Query: 60 YVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD--LESGS-IEIFVP 116
++ + + V +K +V E + + LI SGK + D+ + +D + GS + + +
Sbjct: 25 IEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLR 84
Query: 117 LLGG 120
L GG
Sbjct: 85 LRGG 88
>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 = 38.0 bits (88), Expect = 3e-04
Identities = 26/84 (30%), Positives = 41/84 (48%), Gaps = 5/84 (5%)
Query: 42 VITMIENMKRIIVRGQSNY--VLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTD 99
V+ + I+VR E + +TV+HLK +V+ LE V + F L GK L D
Sbjct: 74 VVDKSDEPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLED 133
Query: 100 DLSISD--LESGS-IEIFVPLLGG 120
L + + L+ S + + + L GG
Sbjct: 134 QLPLGEYGLKPLSTVFMNLRLRGG 157
Score = 31.1 bits (70), Expect = 0.086
Identities = 10/46 (21%), Positives = 18/46 (39%), Gaps = 2/46 (4%)
Query: 62 LECQQNETVSHLKNKVASLEKVALEDFSLI--CSGKTLTDDLSISD 105
+ + +VS LK ++ V L SG L D + ++
Sbjct: 17 VSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLAS 62
>4eew_A Large proline-rich protein BAG6; ubiquitin-like fold, GP78-binding,
chaperone; 1.30A {Homo sapiens}
Length = 88
Score = 36.9 bits (86), Expect = 3e-04
Identities = 10/46 (21%), Positives = 16/46 (34%)
Query: 60 YVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD 105
V K +A+ + E LI G+ L DD + +
Sbjct: 30 RTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQE 75
>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 = 36.5 bits (85), Expect = 4e-04
Identities = 18/64 (28%), Positives = 35/64 (54%), Gaps = 3/64 (4%)
Query: 60 YVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD--LESGS-IEIFVP 116
LE + ++T+ ++K K+ E + + LI +GK L D ++SD ++ S + + +
Sbjct: 13 ITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQRESTLHLVLR 72
Query: 117 LLGG 120
L GG
Sbjct: 73 LRGG 76
>2kan_A Uncharacterized protein AR3433A; ubiquitin fold, alpha+beta,
structural genomics, protein structure initiative; NMR
{Arabidopsis thaliana}
Length = 94
Score = 36.6 bits (85), Expect = 4e-04
Identities = 15/52 (28%), Positives = 25/52 (48%)
Query: 49 MKRIIVRGQSNYVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDD 100
+ + + +E + ETVS LK+K+ +E ++ L SG L DD
Sbjct: 16 IHVTVKFPSKQFTVEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGIELADD 67
>2ojr_A Ubiquitin; lanthide-binding TAG, terbium, TB, SAD phasing, protein
binding; 2.60A {Homo sapiens}
Length = 111
Score = 36.8 bits (85), Expect = 6e-04
Identities = 18/64 (28%), Positives = 35/64 (54%), Gaps = 3/64 (4%)
Query: 60 YVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD--LESGS-IEIFVP 116
LE + ++T+ ++K K+ E + + LI +GK L D ++SD ++ S + + +
Sbjct: 48 ITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR 107
Query: 117 LLGG 120
L GG
Sbjct: 108 LRGG 111
>1yx5_B Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo sapiens} SCOP:
d.15.1.1 PDB: 1yx6_B
Length = 98
Score = 36.3 bits (84), Expect = 6e-04
Identities = 20/78 (25%), Positives = 40/78 (51%), Gaps = 3/78 (3%)
Query: 60 YVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD--LESGS-IEIFVP 116
LE + ++T+ ++K K+ E + + LI +GK L D ++SD ++ S + + +
Sbjct: 13 ITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR 72
Query: 117 LLGGKLLKTEMVEKQEKK 134
L GG+ + V+K
Sbjct: 73 LRGGRDPNSSSVDKLAAA 90
>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 = 36.3 bits (84), Expect = 7e-04
Identities = 8/61 (13%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 47 ENMKRIIVR-GQSNYVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD 105
+ + + + ++ + ++ + T S LK K+ S+ + ++ G + +D ++ +
Sbjct: 15 KELVDLKIIWNKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGL-VPEDKTLRE 73
Query: 106 L 106
+
Sbjct: 74 I 74
>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 = 38.3 bits (88), Expect = 8e-04
Identities = 21/126 (16%), Positives = 42/126 (33%), Gaps = 28/126 (22%)
Query: 27 YYLSKASFGTKF-DVAVITMIENMKRIIV-----RGQSNYVLECQQNETVSHLKNKVAS- 79
++L+ V+ M++ + I R + ++ + + + L+ + S
Sbjct: 185 FWLN---LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK 241
Query: 80 --------LEKV----ALEDFSLICSGKTL--TDDLSISDLESGSIEIFVPL--LGGKLL 123
L V A F+L C K L T ++D S + + L L
Sbjct: 242 PYENCLLVLLNVQNAKAWNAFNLSC--KILLTTRFKQVTDFLSAATTTHISLDHHSMTLT 299
Query: 124 KTEMVE 129
E+
Sbjct: 300 PDEVKS 305
Score = 36.0 bits (82), Expect = 0.004
Identities = 35/211 (16%), Positives = 66/211 (31%), Gaps = 59/211 (27%)
Query: 8 RLAHSIELCTWHLNPV-TSTYYLSKASF--GTKFDVAVITMI-ENMK----RIIVRGQSN 59
+L IE L P + + F ++++I ++ ++V
Sbjct: 354 KLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHK 413
Query: 60 Y-VLECQQNE-TVS----HLKNKV-----ASLEKVALEDFSLICSGKTLTDDLSISDLES 108
Y ++E Q E T+S +L+ KV +L + ++ +++ +DDL
Sbjct: 414 YSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPK--TFDSDDLIP-PYLD 470
Query: 109 GSIEIFVPLLGGKLLKTEMVEKQ-------------EKKKKKTGRA-------------- 141
+G L E E+ E+K + A
Sbjct: 471 QYFYSH---IGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQL 527
Query: 142 ---KRRVQYN----RRFVNVVQTFGRRRGPN 165
K + N R VN + F + N
Sbjct: 528 KFYKPYICDNDPKYERLVNAILDFLPKIEEN 558
Score = 32.1 bits (72), Expect = 0.092
Identities = 19/122 (15%), Positives = 49/122 (40%), Gaps = 20/122 (16%)
Query: 56 GQSNYVLECQQNETVSHLKNK-VASLEKVALEDFSL-ICSGKTLTDDLSISDLESGSIEI 113
G+ Y Q + +S ++ V + + ++D I S + + + D SG++ +
Sbjct: 12 GEHQY----QYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRL 67
Query: 114 FVPLLG----------GKLLKTE---MVEK-QEKKKKKTGRAKRRVQYNRRFVNVVQTFG 159
F LL ++L+ ++ + ++++ + + ++ R N Q F
Sbjct: 68 FWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFA 127
Query: 160 RR 161
+
Sbjct: 128 KY 129
>3q3f_A Ribonuclease/ubiquitin chimeric protein; domain SWAP,
oligomerization, ubiquitin insertion, hydrolase binding;
2.17A {Bacillus amyloliquefaciens}
Length = 189
Score = 37.3 bits (86), Expect = 8e-04
Identities = 18/67 (26%), Positives = 35/67 (52%), Gaps = 3/67 (4%)
Query: 57 QSNYVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD--LESGS-IEI 113
LE + ++T+ ++K K+ E + + LI +GK L D ++SD ++ S + +
Sbjct: 115 GKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHL 174
Query: 114 FVPLLGG 120
+ L GG
Sbjct: 175 VLRLRGG 181
>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 = 35.8 bits (83), Expect = 9e-04
Identities = 11/45 (24%), Positives = 21/45 (46%)
Query: 61 VLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD 105
+ + + T+ L+ +V +L V E L GK L + ++ D
Sbjct: 23 IEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFD 67
>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 = 35.9 bits (83), Expect = 0.001
Identities = 17/64 (26%), Positives = 34/64 (53%), Gaps = 3/64 (4%)
Query: 60 YVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD--LESGS-IEIFVP 116
LE + ++T+ ++K K+ E + + LI +GK L D ++SD ++ S + + +
Sbjct: 14 ITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR 73
Query: 117 LLGG 120
L G
Sbjct: 74 LRGY 77
>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 = 35.7 bits (82), Expect = 0.001
Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 2/52 (3%)
Query: 57 QSNYVLECQQNETVSHLKNKVASL--EKVALEDFSLICSGKTLTDDLSISDL 106
+ L + +V HLK ++ + E+ ED LI SGK L D + DL
Sbjct: 19 HRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDL 70
>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 = 35.0 bits (81), Expect = 0.001
Identities = 11/46 (23%), Positives = 17/46 (36%)
Query: 60 YVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD 105
V + V L+ K+ L V L GK + D ++ D
Sbjct: 17 TVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFD 62
>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 = 36.2 bits (83), Expect = 0.001
Identities = 21/90 (23%), Positives = 38/90 (42%)
Query: 60 YVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISDLESGSIEIFVPLLG 119
LE + ++T+ ++K+K+ E + + LI +GK L D ++SD +L
Sbjct: 13 ITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR 72
Query: 120 GKLLKTEMVEKQEKKKKKTGRAKRRVQYNR 149
+ E K K ++ R Y R
Sbjct: 73 LRGGIIEPSLKALASKYNCDKSVCRKCYAR 102
>2kdb_A Homocysteine-responsive endoplasmic reticulum- resident
ubiquitin-like domain member...; UBL domain, membrane,
polymorphism, transmembrane; NMR {Homo sapiens}
Length = 99
Score = 34.9 bits (80), Expect = 0.002
Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 57 QSNYVLECQQNETVSHLKNKVASL--EKVALEDFSLICSGKTLTDDLSISDL 106
S+ + C N TV LK ++++ K +D L+ SG+ L D L + D+
Sbjct: 35 YSDQTISCFLNWTVGKLKTHLSNVYPSKPLTKDQRLVYSGRLLPDHLQLKDI 86
>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 = 36.1 bits (83), Expect = 0.002
Identities = 14/46 (30%), Positives = 27/46 (58%)
Query: 61 VLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISDL 106
LE + ++T+ ++K+K+ E + + LI +GK L D ++SD
Sbjct: 14 TLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
>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 = 34.8 bits (80), Expect = 0.003
Identities = 12/57 (21%), Positives = 25/57 (43%), Gaps = 3/57 (5%)
Query: 67 NETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD--LESGS-IEIFVPLLGG 120
+E V LK K+A ++ L L D++S++ + +G + + + G
Sbjct: 51 SENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAHYNVGAGEILTLSLRERSG 107
>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 = 33.8 bits (78), Expect = 0.004
Identities = 16/62 (25%), Positives = 30/62 (48%), Gaps = 6/62 (9%)
Query: 49 MKRIIVR--GQSNYVLECQQNETVSHLKNKVASLEKVALEDFS---LICSGKTLTDDLSI 103
M+ + ++ Q + ++ ETV LK K+ S + + LI +GK L DD ++
Sbjct: 1 MQ-VTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTAL 59
Query: 104 SD 105
+
Sbjct: 60 KE 61
>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 = 33.8 bits (78), Expect = 0.004
Identities = 17/62 (27%), Positives = 31/62 (50%), Gaps = 6/62 (9%)
Query: 49 MKRIIVR--GQSNYVLECQQNETVSHLKNKVASLEKVALEDFS---LICSGKTLTDDLSI 103
+ I ++ Q + + + +ETV LK K+ + + + LI +GK L+DD+ I
Sbjct: 6 VT-ITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPI 64
Query: 104 SD 105
D
Sbjct: 65 RD 66
>2kk8_A Uncharacterized protein AT4G05270; solution arabidopsis thaliana,
uncharacterized putative protein, NESG, structural
genomics; NMR {Arabidopsis thaliana}
Length = 84
Score = 31.1 bits (71), Expect = 0.037
Identities = 15/62 (24%), Positives = 30/62 (48%), Gaps = 4/62 (6%)
Query: 47 ENMKRIIVR--GQSNYVLECQQNETVSHLKNKVASLEKVALEDFSLICSGK-TLTDDLSI 103
+MK +V S++ LE +T+ +K K+ + + + +LI G L +DL++
Sbjct: 9 SHMK-FLVENLNGSSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILREDLTV 67
Query: 104 SD 105
Sbjct: 68 EQ 69
>1v5t_A 8430435I17RIK protein; hypothetical protein, ubiquitin-like fold,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus musculus}
SCOP: d.15.1.1 PDB: 2kx3_A
Length = 90
Score = 30.6 bits (69), Expect = 0.071
Identities = 15/55 (27%), Positives = 24/55 (43%), Gaps = 3/55 (5%)
Query: 55 RGQSNYVLECQQNETVSHLKNKVASLEKVALEDFSLI---CSGKTLTDDLSISDL 106
GQ V +++TV LK + +L V E L+ GK +D+ + L
Sbjct: 15 GGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLGAL 69
>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 = 29.8 bits (66), Expect = 0.17
Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 5/49 (10%)
Query: 67 NETVSHLKNKVASLEKVAL---EDFSLICSGKTLTDDLSISD--LESGS 110
++S LK +A + ++ E LI G+ L DD ++ ++ GS
Sbjct: 44 GYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFYGIQPGS 92
>2gow_A HCG-1 protein, ubiquitin-like protein 3; BC059385, structural
genomics, protein structure initiative, PSI; NMR {Homo
sapiens}
Length = 125
Score = 28.8 bits (64), Expect = 0.47
Identities = 15/103 (14%), Positives = 36/103 (34%), Gaps = 11/103 (10%)
Query: 48 NMKRIIVRGQSNYVLECQQNETVSHLKNKV--------ASLEKVALEDFSLICSGKTLTD 99
N++ I+V G+ N++ S + V + + LI G+ L
Sbjct: 19 NLRLILVSGK-TKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHG 77
Query: 100 DLSISD--LESGSIEIFVPLLGGKLLKTEMVEKQEKKKKKTGR 140
++++ L G + + L + ++ ++K
Sbjct: 78 NVTLGALKLPFGKTTVMHLVARETLPEPNSQGQRNREKTGESN 120
>2pjh_A Protein NPL4, nuclear protein localization protein 4 homolog;
UFD1, NPL4, AAA, protein binding, transport protein;
NMR {Mus musculus}
Length = 80
Score = 27.5 bits (61), Expect = 0.64
Identities = 12/47 (25%), Positives = 19/47 (40%), Gaps = 3/47 (6%)
Query: 50 KRIIVRGQS---NYVLECQQNETVSHLKNKVASLEKVALEDFSLICS 93
+ II+R QS + + ET + KVA FS+ +
Sbjct: 3 ESIIIRVQSPDGVKRITATKRETAATFLKKVAKEFGFQNNGFSVYIN 49
>2dzj_A Synaptic glycoprotein SC2; ubiquitin-like fold, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 88
Score = 28.0 bits (62), Expect = 0.66
Identities = 11/54 (20%), Positives = 24/54 (44%), Gaps = 3/54 (5%)
Query: 60 YVLECQQNETVSHLKNKVASLEK---VALEDFSLICSGKTLTDDLSISDLESGS 110
++ + + + T++ +KN A + L GK+L D+ + L G+
Sbjct: 26 FLDKVEPHATIAEIKNLFTKTHPQWYPARQSLRLDPKGKSLKDEDVLQKLPVGT 79
>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 = 28.1 bits (62), Expect = 0.71
Identities = 7/51 (13%), Positives = 17/51 (33%), Gaps = 1/51 (1%)
Query: 57 QSNYVLECQQNETVSHLKNKVASLEKVALEDFSLIC-SGKTLTDDLSISDL 106
N + + TV +K + + ++ + L + D + L
Sbjct: 18 DRNVDVVLEDTCTVGEIKQILENELQIPVSKMLLKGWKTGDVEDSTVLKSL 68
>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 = 28.2 bits (62), Expect = 1.3
Identities = 14/46 (30%), Positives = 26/46 (56%)
Query: 60 YVLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD 105
LE + ++T+ ++K K+ E + + LI +GK L D ++SD
Sbjct: 246 ITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 291
>3shq_A UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila melanogaster}
Length = 320
Score = 28.3 bits (62), Expect = 1.4
Identities = 15/64 (23%), Positives = 30/64 (46%), Gaps = 3/64 (4%)
Query: 46 IENMKRIIVRGQSNYVLECQQNETVSHLKNKVASLEKVALED---FSLICSGKTLTDDLS 102
++ + I+ Y ++ +TV L++++ +V E +L GKT D++
Sbjct: 3 VKEVVVIVKWSGKEYPVDLTDQDTVEVLRHEIFRKTQVRPERQKLLNLKYKGKTAADNVK 62
Query: 103 ISDL 106
IS L
Sbjct: 63 ISAL 66
>1wju_A NEDD8 ultimate buster-1; ubiquitin-like domain, structural
genomics, riken structural genomics/proteomics
initiative, RSGI, protein binding; NMR {Homo sapiens}
SCOP: d.15.1.1
Length = 100
Score = 26.9 bits (59), Expect = 1.7
Identities = 8/44 (18%), Positives = 20/44 (45%)
Query: 62 LECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISD 105
LE + + T L++K+A + ++ + K L ++ +
Sbjct: 34 LETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEE 77
>3n5b_B ASR0485 protein; PII, PIPX, transcription regulator, signal
transducer; HET: ADP; 1.90A {Nostoc}
Length = 112
Score = 26.5 bits (58), Expect = 2.6
Identities = 6/25 (24%), Positives = 15/25 (60%)
Query: 19 HLNPVTSTYYLSKASFGTKFDVAVI 43
H+NP S Y++ ++G + + ++
Sbjct: 20 HMNPENSETYINHPTWGLLYRICMV 44
>2daf_A FLJ35834 protein; hypothetical protein FLJ35834, ubiquitin-like
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 118
Score = 25.0 bits (54), Expect = 7.5
Identities = 10/53 (18%), Positives = 23/53 (43%)
Query: 61 VLECQQNETVSHLKNKVASLEKVALEDFSLICSGKTLTDDLSISDLESGSIEI 113
V+ + + + +LK+ + L + + SGK L ++ ++ EI
Sbjct: 30 VIPFKVDTILKYLKDHFSHLLGIPHSVLQIRYSGKILKNNETLVQHGVKPQEI 82
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.317 0.131 0.364
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: 2,418,653
Number of extensions: 131519
Number of successful extensions: 366
Number of sequences better than 10.0: 1
Number of HSP's gapped: 352
Number of HSP's successfully gapped: 79
Length of query: 168
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 81
Effective length of database: 4,272,666
Effective search space: 346085946
Effective search space used: 346085946
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (24.6 bits)