RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9586
(233 letters)
>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 = 80.0 bits (197), Expect = 7e-20
Identities = 22/59 (37%), Positives = 33/59 (55%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMVFIKDL 59
V T+ +IK K Q YP RQ++RL+ KGK LKD D ++ L + ++ +DL
Sbjct: 30 VEPHATIAEIKNLFTKTHPQWYPARQSLRLDPKGKSLKDEDVLQKLPVGTTATLYFRDL 88
>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 = 48.1 bits (115), Expect = 5e-08
Identities = 16/54 (29%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMV 54
VS TVKD+K ++ + + P Q +L KGK+L ++ +K + +G +
Sbjct: 28 VSPDCTVKDLKSQLQP-ITNVLPRGQ--KLIFKGKVLVETSTLKQSDVGSGAKL 78
>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 = 44.4 bits (104), Expect = 2e-06
Identities = 12/52 (23%), Positives = 25/52 (48%)
Query: 3 GSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMV 54
G +++ +K+ + + PD + + L G+ LKD + G++ G V
Sbjct: 43 GGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFYGIQPGSTV 94
>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 = 5e-06
Identities = 34/226 (15%), Positives = 67/226 (29%), Gaps = 53/226 (23%)
Query: 12 KEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMVFIKDLGPQIGWSTVFMA 71
++H ++L + ++ K +++K+ + + + + S +F A
Sbjct: 99 NDIHALAAKLLQENDTTLVKTK-ELIKNYITARIMAKRPF---------DKKSNSALFRA 148
Query: 72 EYAGPLFVYLIFYYRPWIFYGSEAASKPY---------SYVAHLAALCYIVHYTKRVLET 122
G + IF G + + Y +Y + L + ++ L
Sbjct: 149 VGEGNAQLVAIF--------GGQGNTDDYFEELRDLYQTYHVLVGDL---IKFSAETLSE 197
Query: 123 LTPSV-----FCQLGNLSIHLALR--DLRPPGTNVRRIPVATSNPF---TSLFDY-VSCP 171
L + G L+I L P + IP+ S P L Y V+
Sbjct: 198 LIRTTLDAEKVFTQG-LNILEWLENPSNTPDKDYLLSIPI--SCPLIGVIQLAHYVVTAK 254
Query: 172 NYTYEFGSWLS-FSLLTSC----FPALLFASAG----MYQMTVWAL 208
+ G S T A+ A + A+
Sbjct: 255 LLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAI 300
Score = 35.4 bits (81), Expect = 0.013
Identities = 16/62 (25%), Positives = 25/62 (40%), Gaps = 11/62 (17%)
Query: 135 SIHLALRDLR-PPGTNVRRIPVATSNP-FTSLFDYVSCPNYTYEFGSWLSFSLLTSCFPA 192
++L LR + P G + RIP + F++ F V+ P F S LL
Sbjct: 388 GLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASP-----FHS----HLLVPASDL 438
Query: 193 LL 194
+
Sbjct: 439 IN 440
Score = 27.3 bits (60), Expect = 6.2
Identities = 27/142 (19%), Positives = 43/142 (30%), Gaps = 50/142 (35%)
Query: 35 KILKDSDDIKSLGLKNGDMVF-IKDLGPQIGWSTVF-------MAEYAGPLFVYLIFYYR 86
+L + D+ + L ++ F KD+ QI V+ + +G + ++
Sbjct: 430 HLLVPASDLINKDLVKNNVSFNAKDI--QI---PVYDTFDGSDLRVLSGSISERIV---- 480
Query: 87 PWIFYGSEAASKPYSYVAHLAALCYIVHYTKRVLETLT------PSVFCQLGNLSIHLAL 140
I P V + T P LG L+
Sbjct: 481 DCII------RLP-------------VKWETTTQFKATHILDFGPGGASGLGVLTHRN-- 519
Query: 141 RDLRPPGTNVRRIPVAT--SNP 160
+D GT VR I T NP
Sbjct: 520 KD----GTGVRVIVAGTLDINP 537
>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 = 41.9 bits (99), Expect = 1e-05
Identities = 17/54 (31%), Positives = 33/54 (61%), Gaps = 3/54 (5%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMV 54
V+ + T++ +K+E+ + + + +PD+ L GKILKD D + G+++G V
Sbjct: 38 VTDTCTIQQLKEEISQ-RFKAHPDQL--VLIFAGKILKDPDSLAQCGVRDGLTV 88
>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 = 41.7 bits (98), Expect = 1e-05
Identities = 14/67 (20%), Positives = 30/67 (44%), Gaps = 7/67 (10%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGD---MVFIK 57
V T ++K+++H + L P Q ++ KG + + ++ + + +G +V
Sbjct: 33 VPLDSTGSELKQKIHS-ITGLPPAMQ--KVMYKGL-VPEDKTLREIKVTSGAKIMVVGST 88
Query: 58 DLGPQIG 64
GP G
Sbjct: 89 ISGPSSG 95
>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 = 44.2 bits (103), Expect = 2e-05
Identities = 16/76 (21%), Positives = 29/76 (38%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMVFIKDLG 60
+ TVK +K+++ K + +L GKIL D I+ + + V +
Sbjct: 24 MEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVTK 83
Query: 61 PQIGWSTVFMAEYAGP 76
+ G T E +
Sbjct: 84 TKAGQGTSAPPEASPT 99
>2klc_A Ubiquilin-1; ubiquitin-like, structural genomics, PSI-2, protein
structur initiative, northeast structural genomics
consortium, NESG; NMR {Homo sapiens}
Length = 101
Score = 40.8 bits (96), Expect = 3e-05
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMV 54
V + +V+ K+E+ K + + + D+ L GKILKD D + G+ +G V
Sbjct: 41 VPENSSVQQFKEEISK-RFKSHTDQL--VLIFAGKILKDQDTLSQHGIHDGLTV 91
>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 = 40.8 bits (96), Expect = 3e-05
Identities = 19/67 (28%), Positives = 30/67 (44%), Gaps = 6/67 (8%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGD---MVFIK 57
++ + V+ KK++ K DR L GKIL+D D + G+ +G +V
Sbjct: 33 LAENSNVRRFKKQISK-YLHCNADRL--VLIFTGKILRDQDILSQRGILDGSTVHVVVRS 89
Query: 58 DLGPQIG 64
GP G
Sbjct: 90 HSGPSSG 96
>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 = 40.8 bits (96), Expect = 3e-05
Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMV 54
+ S T+ + K ++ + + +L GK+L+DS + GLK+GD V
Sbjct: 18 LEPSNTILETKTKLAQ-SISCEESQI--KLIYSGKVLQDSKTVSECGLKDGDQV 68
>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 = 40.8 bits (96), Expect = 3e-05
Identities = 17/54 (31%), Positives = 33/54 (61%), Gaps = 3/54 (5%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMV 54
V+ + T++ +K+E+ + + + +PD+ L GKILKD D + G+++G V
Sbjct: 33 VTDTCTIQQLKEEISQ-RFKAHPDQL--VLIFAGKILKDPDSLAQCGVRDGLTV 83
>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 = 40.3 bits (94), Expect = 4e-05
Identities = 15/55 (27%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAV-RLEIKGKILKDSDDIKSLGLKNGDMV 54
+S TV D+K+ + + + P+RQ + L++KGK ++ + +L LK +
Sbjct: 24 LSEDDTVLDLKQFLKT-LTGVLPERQKLLGLKVKGKPAENDVKLGALKLKPNTKI 77
>1j8c_A Ubiquitin-like protein hplic-2; ubiquitin-like domain, structural
genomics; NMR {Homo sapiens} SCOP: d.15.1.1
Length = 125
Score = 40.2 bits (94), Expect = 9e-05
Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMV 54
V + +V+ K+ + K + + D+ L GKILKD D + G+ +G V
Sbjct: 48 VPENSSVQQFKEAISK-RFKSQTDQL--VLIFAGKILKDQDTLIQHGIHDGLTV 98
>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 = 41.4 bits (96), Expect = 2e-04
Identities = 39/241 (16%), Positives = 73/241 (30%), Gaps = 59/241 (24%)
Query: 19 SQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMVFIK-DLGPQIGWSTVFMAEYA--- 74
+Q++ RL+ K+ + L L+ V I LG G T +
Sbjct: 123 NQVFAKYNVSRLQPYLKLRQ-----ALLELRPAKNVLIDGVLG--SG-KTWVALDVCLSY 174
Query: 75 --GPLFVYLIFYYRPWIFYGSEAASKPYSYVAHLAALCYIV--HYTKRVLETLTP----- 125
+ IF W+ + + P + + L L Y + ++T R +
Sbjct: 175 KVQCKMDFKIF----WLNLKNC--NSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIH 228
Query: 126 SVFCQLGNLSIH-------LALRDLRPPGT----NVR-RIPVATSNPFTSLFDYVSCPNY 173
S+ +L L L L +++ N+ +I + T + D++S
Sbjct: 229 SIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRF--KQVTDFLSAATT 286
Query: 174 TYEFGSWLSFSLLTSCFPAL-LFASAGMYQMTVWALGKHKNYKKEFPDYPKQRKAIVPFV 232
T+ S +L L K D P++ P
Sbjct: 287 THISLDHHSMTLTPD--EVKSLLL---------------KYLDCRPQDLPREVLTTNPRR 329
Query: 233 I 233
+
Sbjct: 330 L 330
>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 = 38.0 bits (89), Expect = 2e-04
Identities = 17/54 (31%), Positives = 28/54 (51%), Gaps = 3/54 (5%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMV 54
V+ TV K+ ++K + + Q RL GKILKD ++S +++G V
Sbjct: 20 VAPESTVLQFKEAINK-ANGIPVANQ--RLIYSGKILKDDQTVESYHIQDGHSV 70
>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 = 2e-04
Identities = 17/54 (31%), Positives = 28/54 (51%), Gaps = 3/54 (5%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMV 54
V+ TV K+ ++K + + Q RL GKILKD ++S +++G V
Sbjct: 44 VAPESTVLQFKEAINK-ANGIPVANQ--RLIYSGKILKDDQTVESYHIQDGHSV 94
>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 = 36.8 bits (86), Expect = 5e-04
Identities = 14/56 (25%), Positives = 24/56 (42%), Gaps = 4/56 (7%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLY--PDRQAVRLEIKGKILKDSDDIKSLGLKNGDMV 54
+ TVK +K+++ K + Q +L GKIL D I+ + + V
Sbjct: 22 MEPDETVKVLKEKIEAEKGRDAFPVAGQ--KLIYAGKILSDDVPIRDYRIDEKNFV 75
>3shq_A UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila melanogaster}
Length = 320
Score = 38.7 bits (89), Expect = 0.001
Identities = 20/124 (16%), Positives = 42/124 (33%), Gaps = 2/124 (1%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAV-RLEIKGKILKDSDDIKSLGLKNGDMVFIKDL 59
++ TV+ ++ E+ + K+Q+ P+RQ + L+ KGK D+ I +L LK + +
Sbjct: 21 LTDQDTVEVLRHEIFR-KTQVRPERQKLLNLKYKGKTAADNVKISALELKPNFKLMMVGS 79
Query: 60 GPQIGWSTVFMAEYAGPLFVYLIFYYRPWIFYGSEAASKPYSYVAHLAALCYIVHYTKRV 119
+ + G + A + +
Sbjct: 80 TEADIEDACSLPDNIGEVVDDFDDADEREESVAHSAVYLAKVQRRVRDYKIKELAPPREG 139
Query: 120 LETL 123
+ L
Sbjct: 140 KKLL 143
>1uel_A HHR23B, UV excision repair protein RAD23 homolog B; UBL, UIM,
riken structural genomics/proteomics initiative, RSGI,
structural genomics; NMR {Homo sapiens} SCOP: d.15.1.1
Length = 95
Score = 36.1 bits (84), Expect = 0.001
Identities = 14/56 (25%), Positives = 24/56 (42%), Gaps = 4/56 (7%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLY--PDRQAVRLEIKGKILKDSDDIKSLGLKNGDMV 54
+ TVK +K+++ K + Q +L GKIL D +K + + V
Sbjct: 17 IDPEETVKALKEKIESEKGKDAFPVAGQ--KLIYAGKILNDDTALKEYKIDEKNFV 70
>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 = 35.6 bits (82), Expect = 0.003
Identities = 12/53 (22%), Positives = 27/53 (50%), Gaps = 3/53 (5%)
Query: 2 SGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMV 54
S S V +K+++ + Q+ ++Q +L K LKD+ + + G+++
Sbjct: 49 SLSENVGSLKEKIA-GEIQIPANKQ--KLSGKAGFLKDNMSLAHYNVGAGEIL 98
>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 = 35.0 bits (80), Expect = 0.003
Identities = 13/57 (22%), Positives = 28/57 (49%), Gaps = 4/57 (7%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDD-IKSLGLKNGDMVFI 56
V+ F + + + + +S + + ++ ++L D + S GLK+GDMV +
Sbjct: 28 VNPDFELSNFRVLC-ELESGVPAEEA--QIVYMEQLLTDDHCSLGSYGLKDGDMVVL 81
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 35.3 bits (80), Expect = 0.005
Identities = 9/29 (31%), Positives = 15/29 (51%), Gaps = 4/29 (13%)
Query: 11 KKEVHKAKS--QLY-PDRQAVRLEIKGKI 36
K+ + K ++ +LY D A L IK +
Sbjct: 19 KQALKKLQASLKLYADD-SAPALAIKATM 46
>2kan_A Uncharacterized protein AR3433A; ubiquitin fold, alpha+beta,
structural genomics, protein structure initiative; NMR
{Arabidopsis thaliana}
Length = 94
Score = 33.9 bits (78), Expect = 0.007
Identities = 11/55 (20%), Positives = 19/55 (34%), Gaps = 4/55 (7%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDD-IKSLGLKNGDMV 54
V + TV +K ++H R +L G L D + G+ +
Sbjct: 31 VDRTETVSSLKDKIHI-VENTPIKRM--QLYYSGIELADDYRNLNEYGITEFSEI 82
>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 = 33.5 bits (77), Expect = 0.009
Identities = 10/52 (19%), Positives = 29/52 (55%), Gaps = 3/52 (5%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGD 52
++ + + +K+++ + L +Q +LE +G++L+D + G+++ D
Sbjct: 24 INPNSFILGLKQQIE-DQQGLPKKQQ--QLEFQGQVLQDWLGLGIYGIQDSD 72
>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 = 33.4 bits (77), Expect = 0.009
Identities = 11/50 (22%), Positives = 24/50 (48%), Gaps = 3/50 (6%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKN 50
V VK+ K+ + A + ++Q RL +G++L+D ++ +
Sbjct: 22 VGAQMNVKEFKEHIA-ASVSIPSEKQ--RLIYQGRVLQDDKKLQEYNVGG 68
>2kzr_A Ubiquitin thioesterase OTU1; structural genomics, northeast
structural genomics consortiu PSI-2, protein structure
initiative, hydrolase; NMR {Mus musculus}
Length = 86
Score = 31.7 bits (72), Expect = 0.039
Identities = 10/59 (16%), Positives = 29/59 (49%), Gaps = 4/59 (6%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDD---IKSLGLKNGDMVFI 56
+S +++++ ++ + + P Q + + + L SD + L +++GDM+ +
Sbjct: 17 LSSRTRLRELQGQIAA-ITGIAPGSQRILVGYPPECLDLSDRDITLGDLPIQSGDMLIV 74
>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 = 32.1 bits (73), Expect = 0.043
Identities = 11/54 (20%), Positives = 28/54 (51%), Gaps = 3/54 (5%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMV 54
+ + V IK ++H + + +Q +L+ +G +KDS+ + + +G ++
Sbjct: 52 LPLTDQVSVIKVKIH-EATGMPAGKQ--KLQYEGIFIKDSNSLAYYNMASGAVI 102
>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 = 31.1 bits (70), Expect = 0.069
Identities = 12/50 (24%), Positives = 21/50 (42%), Gaps = 3/50 (6%)
Query: 4 SFTVKDIKKEV-HKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGD 52
++V +K + + P+ Q RL GK+L D ++ L K
Sbjct: 29 GWSVGHLKAHLSRVYPERPRPEDQ--RLIYSGKLLLDHQCLRDLLPKQEK 76
>2pjh_A Protein NPL4, nuclear protein localization protein 4 homolog;
UFD1, NPL4, AAA, protein binding, transport protein;
NMR {Mus musculus}
Length = 80
Score = 31.0 bits (70), Expect = 0.071
Identities = 14/63 (22%), Positives = 25/63 (39%), Gaps = 12/63 (19%)
Query: 1 VSGSFTVKDIKKEVHKAKS------QLYPDRQAVRLEIKGKILK-DSDDIKSLGLKNGDM 53
+ T K+V K +Y +R G+I S + L +K+GD+
Sbjct: 20 ATKRETAATFLKKVAKEFGFQNNGFSVYINRNK-----TGEITASSSKSLHLLKIKHGDL 74
Query: 54 VFI 56
+F+
Sbjct: 75 LFL 77
>3phx_B Ubiquitin-like protein ISG15; OTU domain, DE-ubiquitinase,
DE-isgylase, hydrolase-protein complex; 1.60A {Homo
sapiens}
Length = 79
Score = 30.8 bits (70), Expect = 0.076
Identities = 15/54 (27%), Positives = 23/54 (42%), Gaps = 3/54 (5%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMV 54
V + TV +K++V + D L +GK L+D + GLK V
Sbjct: 21 VRLTQTVAHLKQQVS-GLEGVQDDLF--WLTFEGKPLEDQLPLGEYGLKPLSTV 71
>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 = 30.8 bits (69), Expect = 0.12
Identities = 10/55 (18%), Positives = 22/55 (40%), Gaps = 7/55 (12%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDD-IKSLGLKNGDMV 54
TV +K + ++L +G++L+D + SL + N ++
Sbjct: 24 ARPEDTVGTLKSKYFPG------QESQMKLIYQGRLLQDPARTLSSLNITNNCVI 72
>2kdb_A Homocysteine-responsive endoplasmic reticulum- resident
ubiquitin-like domain member...; UBL domain, membrane,
polymorphism, transmembrane; NMR {Homo sapiens}
Length = 99
Score = 30.3 bits (68), Expect = 0.16
Identities = 12/50 (24%), Positives = 22/50 (44%), Gaps = 3/50 (6%)
Query: 4 SFTVKDIKKEVHKAK-SQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGD 52
++TV +K + S+ Q RL G++L D +K + K +
Sbjct: 45 NWTVGKLKTHLSNVYPSKPLTKDQ--RLVYSGRLLPDHLQLKDILRKQDE 92
>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 = 30.3 bits (68), Expect = 0.18
Identities = 20/74 (27%), Positives = 32/74 (43%), Gaps = 16/74 (21%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEI--------------KGKILKDSDDIKSL 46
V + TV D+KK + + QL +R+ I K+ +D ++
Sbjct: 24 VVQNATVLDLKKAI-QRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLRDY 82
Query: 47 GLKNGDMV-FIKDL 59
G++N D V FIK L
Sbjct: 83 GIRNRDEVSFIKKL 96
>2gow_A HCG-1 protein, ubiquitin-like protein 3; BC059385, structural
genomics, protein structure initiative, PSI; NMR {Homo
sapiens}
Length = 125
Score = 30.4 bits (68), Expect = 0.20
Identities = 12/57 (21%), Positives = 23/57 (40%), Gaps = 5/57 (8%)
Query: 1 VSGSFTVKDIKKEVHKA-----KSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGD 52
S + + DI K V+ + + +RL +G+ L + + +L L G
Sbjct: 34 FSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGK 90
>2k8h_A Small ubiquitin protein; SUMO, post-translational modifier,
signaling protein; NMR {Trypanosoma brucei}
Length = 110
Score = 29.9 bits (67), Expect = 0.24
Identities = 9/43 (20%), Positives = 20/43 (46%), Gaps = 6/43 (13%)
Query: 24 DRQAVRLEIKGKILKDSDDIKSLGLKNGDM--VFIKDLGPQIG 64
R +VR G + ++ + LG+++ D+ ++ Q G
Sbjct: 63 SRNSVRFLFDGTPIDETKTPEELGMEDDDVIDAMVE----QTG 101
>2xgu_A Relik capsid N-terminal domain; viral protein, retroviral capsid;
1.50A {Oryctolagus cuniculus} PDB: 2xgy_A
Length = 149
Score = 29.9 bits (67), Expect = 0.36
Identities = 12/44 (27%), Positives = 17/44 (38%)
Query: 62 QIGWSTVFMAEYAGPLFVYLIFYYRPWIFYGSEAASKPYSYVAH 105
QI + E AGP F YR W+ + + S + H
Sbjct: 101 QIRGIGLSPEEAAGPRFADARTLYRTWVLEALQECQRTISPLEH 144
>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 = 29.1 bits (65), Expect = 0.50
Identities = 8/43 (18%), Positives = 18/43 (41%), Gaps = 6/43 (13%)
Query: 24 DRQAVRLEIKGKILKDSDDIKSLGLKNGDM--VFIKDLGPQIG 64
+ +R G+ + ++D L +++ D VF + Q
Sbjct: 61 SMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQ----QTS 99
>2xzm_9 RPS31E; ribosome, translation; 3.93A {Tetrahymena thermophila}
PDB: 2xzn_9
Length = 189
Score = 29.7 bits (66), Expect = 0.53
Identities = 7/40 (17%), Positives = 14/40 (35%), Gaps = 3/40 (7%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDS 40
+ +V D+K ++ D L G I ++
Sbjct: 17 LEQGTSVLDLKSQIS-QDMGFEIDMM--TLVNNGFIAPNT 53
>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 = 28.6 bits (64), Expect = 0.53
Identities = 12/65 (18%), Positives = 26/65 (40%), Gaps = 9/65 (13%)
Query: 5 FTVKD---IKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDM--VFIKDL 59
F +K + K + + + +R G+ + ++D L +++ D VF +
Sbjct: 22 FKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQ-- 79
Query: 60 GPQIG 64
Q G
Sbjct: 80 --QTG 82
>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 = 28.8 bits (64), Expect = 0.60
Identities = 10/43 (23%), Positives = 21/43 (48%), Gaps = 6/43 (13%)
Query: 24 DRQAVRLEIKGKILKDSDDIKSLGLKNGDM--VFIKDLGPQIG 64
++R +G+ + D+ K LG++ D+ V+ + Q G
Sbjct: 77 PMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE----QCG 115
>1wf9_A NPL4 family protein; beta-grAsp fold like domain, hypothetical
protein, structural genomics, NPPSFA; NMR {Arabidopsis
thaliana} SCOP: d.15.1.1
Length = 107
Score = 28.6 bits (63), Expect = 0.68
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 39 DSDDIKSLGLKNGDMVFIK 57
+ I SL L +G MV++
Sbjct: 74 PNLRISSLNLAHGSMVYLA 92
>2eke_C Ubiquitin-like protein SMT3; UBC9, SUMO binding motif, SBM,
ligase/protein binding complex; 1.90A {Saccharomyces
cerevisiae} SCOP: d.15.1.1
Length = 106
Score = 28.4 bits (63), Expect = 0.88
Identities = 12/77 (15%), Positives = 26/77 (33%), Gaps = 20/77 (25%)
Query: 4 SFTVKDIKKEVH---KAKSQL-----------YPDRQAVRLEIKGKILKDSDDIKSLGLK 49
+ V D E+ K + L + ++R G ++ + L ++
Sbjct: 33 NLKVSDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDME 92
Query: 50 NGDM--VFIKDLGPQIG 64
+ D+ + QIG
Sbjct: 93 DNDIIEAHRE----QIG 105
>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 = 27.9 bits (62), Expect = 0.89
Identities = 10/43 (23%), Positives = 21/43 (48%), Gaps = 6/43 (13%)
Query: 24 DRQAVRLEIKGKILKDSDDIKSLGLKNGDM--VFIKDLGPQIG 64
++R +G+ + D+ K LG++ D+ V+ + Q G
Sbjct: 58 PMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE----QTG 96
>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport
protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A*
3hu1_A* 1e32_A* 1s3s_A* 2pjh_B
Length = 489
Score = 29.4 bits (66), Expect = 1.1
Identities = 9/34 (26%), Positives = 11/34 (32%), Gaps = 8/34 (23%)
Query: 24 DRQAVRLEIKGKILKDSDDIKSLGLKNGDMVFIK 57
D V L + L L GD V +K
Sbjct: 35 DNSVVSL--------SQPKMDELQLFRGDTVLLK 60
>1ypw_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD,
CDC48; HET: ADP ANP; 3.50A {Mus musculus} PDB: 1oz4_A*
1yq0_A* 1yqi_A* 1r7r_A* 3cf2_A* 3cf1_A* 3cf3_A*
Length = 806
Score = 29.4 bits (66), Expect = 1.2
Identities = 9/34 (26%), Positives = 11/34 (32%), Gaps = 8/34 (23%)
Query: 24 DRQAVRLEIKGKILKDSDDIKSLGLKNGDMVFIK 57
D V L + L L GD V +K
Sbjct: 35 DNSVVSL--------SQPKMDELQLFRGDTVLLK 60
>3tix_A Ubiquitin-like protein SMT3, RNA-induced transcri silencing complex
protein TAS3; PIN, rossmann fold, SPOC, alpha-helical
hairpin, heterochrom silencing, RITS, RNAI, argonaute;
2.90A {Saccharomyces cerevisiae}
Length = 207
Score = 28.6 bits (63), Expect = 1.3
Identities = 7/57 (12%), Positives = 18/57 (31%), Gaps = 6/57 (10%)
Query: 24 DRQAVRLEIKGKILKDSDDIKSLGLKNGDM--VFIKDLGPQIGWSTVFMAEYAGPLF 78
+ ++ G ++ + L +++ D+ + QIG F
Sbjct: 93 EMDSLTFLYDGIEIQADQTPEDLDMEDNDIIEAHRE----QIGGLPSLPFLACISDF 145
>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 = 27.4 bits (61), Expect = 1.4
Identities = 9/43 (20%), Positives = 19/43 (44%), Gaps = 6/43 (13%)
Query: 24 DRQAVRLEIKGKILKDSDDIKSLGLKNGDM--VFIKDLGPQIG 64
+ +R G+ + ++D L +++ D VF + Q G
Sbjct: 42 SMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQ----QTG 80
>2uyz_B Small ubiquitin-related modifier 1; sumoylation, cell division,
nuclear protein, ubiquitin-like modifier, UBL
conjugation pathway; 1.4A {Homo sapiens} SCOP: d.15.1.1
PDB: 2vrr_B 2iy0_B 2iy1_B 2g4d_B 2las_A 2io2_B 1z5s_B
3uip_B* 1tgz_B* 2bf8_B
Length = 79
Score = 27.0 bits (60), Expect = 1.4
Identities = 15/65 (23%), Positives = 28/65 (43%), Gaps = 9/65 (13%)
Query: 5 FTVK---DIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDM--VFIKDL 59
F VK +KK + ++R +G+ + D+ K LG++ D+ V+ +
Sbjct: 18 FKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE-- 75
Query: 60 GPQIG 64
Q G
Sbjct: 76 --QTG 78
>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 = 27.5 bits (61), Expect = 1.4
Identities = 12/65 (18%), Positives = 26/65 (40%), Gaps = 9/65 (13%)
Query: 5 FTVKD---IKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDM--VFIKDL 59
F +K + K + + + +R G+ + ++D L +++ D VF +
Sbjct: 32 FKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQ-- 89
Query: 60 GPQIG 64
Q G
Sbjct: 90 --QTG 92
>2jxx_A Nfatc2-interacting protein; nuclear factor of activated T-cells,
cytoplasmic 2- interacting protein, ubiquitin like
homologue; NMR {Homo sapiens}
Length = 97
Score = 26.8 bits (59), Expect = 2.5
Identities = 8/56 (14%), Positives = 22/56 (39%), Gaps = 5/56 (8%)
Query: 5 FTVK---DIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDM--VF 55
++ +K + + + + + G L + LG+++GD+ V+
Sbjct: 41 VSLSRDSPLKTLMSHYEEAMGLSGRKLSFFFDGTKLSGRELPADLGMESGDLIEVW 96
>1wm3_A Ubiquitin-like protein SMT3B; ubiquitin fold, half-open barrel,
two helices, protein transport; 1.20A {Homo sapiens}
SCOP: d.15.1.1 PDB: 1wm2_A 3uin_B 3uio_B 2ckh_B
Length = 72
Score = 25.9 bits (57), Expect = 3.7
Identities = 8/53 (15%), Positives = 22/53 (41%), Gaps = 3/53 (5%)
Query: 5 FTVKD---IKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDIKSLGLKNGDMV 54
F +K + K + + + +R G+ + ++D L +++ D +
Sbjct: 16 FKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTI 68
>2rfp_A Putative NTP pyrophosphohydrolase; structural genomics, joint
center for structural genomics, JCSG, protein structure
initiative; 1.74A {Exiguobacterium sibiricum} PDB:
3mqu_A 3nl9_A
Length = 171
Score = 27.0 bits (59), Expect = 4.0
Identities = 10/39 (25%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 1 VSGSFTVKDIKKEVHKAK-SQLYPDRQAVRLEIKGKILK 38
V + + V +A ++L PD Q + E K++K
Sbjct: 110 VEAGLEPGPLFEIVQQANMAKLGPDGQPIFRESDQKVMK 148
>3ma8_A Pyruvate kinase; parasitology, pyruvate kiase, glycol kinase,
magnesium, transferase, structural genomi structural
genomics consortium; HET: CIT; 2.64A {Cryptosporidium
parvum}
Length = 534
Score = 27.6 bits (62), Expect = 4.1
Identities = 7/19 (36%), Positives = 8/19 (42%), Gaps = 1/19 (5%)
Query: 38 KDSDDIKSLGLKNG-DMVF 55
KD DI LK D +
Sbjct: 224 KDRHDIVDFALKYNLDFIA 242
>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 = 26.6 bits (58), Expect = 4.2
Identities = 13/57 (22%), Positives = 24/57 (42%), Gaps = 5/57 (8%)
Query: 1 VSGSFTVKDIKKEVHKAKSQLYPDRQA-----VRLEIKGKILKDSDDIKSLGLKNGD 52
S + + DI K V+ + + Q +RL +G+ L + + +L L G
Sbjct: 33 FSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGK 89
>1yfs_A Alanyl-tRNA synthetase; alpha-beta fold, helix-loop-helix motif,
amino acid binding, ligase; 2.08A {Aquifex aeolicus}
SCOP: a.203.1.1 d.104.1.1 PDB: 1yfr_A* 1riq_A 1yft_A
1ygb_A 3htz_A
Length = 465
Score = 27.2 bits (61), Expect = 5.7
Identities = 13/44 (29%), Positives = 16/44 (36%), Gaps = 10/44 (22%)
Query: 182 SFSLLTSCFPALLFASAGMYQMTVWALGKHKNY--KKEFPDYPK 223
S L+ P LLF +AGM KN E Y +
Sbjct: 26 SAPLVPENDPTLLFVNAGMVPF--------KNVFLGLEKRPYKR 61
>3gg8_A Pyruvate kinase; malaria, genomics, proteomics, glycolysis,
magnesium, transferase, structural genomics, STRU
genomics consortium, SGC; 2.21A {Toxoplasma gondii} PDB:
3eoe_A
Length = 511
Score = 26.8 bits (60), Expect = 6.4
Identities = 6/19 (31%), Positives = 10/19 (52%), Gaps = 1/19 (5%)
Query: 38 KDSDDIKSLGLKNG-DMVF 55
KD DI + G+ G + +
Sbjct: 208 KDKHDILNFGIPMGCNFIA 226
>3khd_A Pyruvate kinase; malaria, structural genomics, structural GE
consortium, SGC, transferase; 2.70A {Plasmodium
falciparum 3D7}
Length = 520
Score = 26.8 bits (60), Expect = 6.6
Identities = 5/19 (26%), Positives = 10/19 (52%), Gaps = 1/19 (5%)
Query: 38 KDSDDIKSLGLKNG-DMVF 55
KD +DI + + G + +
Sbjct: 217 KDKNDILNFAIPMGCNFIA 235
>2ki8_A Tungsten formylmethanofuran dehydrogenase, subunit D (FWDD-2);
beta-barrel, structural genomics, PSI-2, protein
structure initiative; NMR {Archaeoglobus fulgidus}
Length = 146
Score = 26.1 bits (58), Expect = 7.7
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 41 DDIKSLGLKNGDMVFIK 57
+D +LGL+ GD V +K
Sbjct: 60 EDWNALGLQEGDRVKVK 76
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
0.324 0.139 0.436
Gapped
Lambda K H
0.267 0.0752 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,681,392
Number of extensions: 214887
Number of successful extensions: 551
Number of sequences better than 10.0: 1
Number of HSP's gapped: 549
Number of HSP's successfully gapped: 69
Length of query: 233
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 143
Effective length of database: 4,188,903
Effective search space: 599013129
Effective search space used: 599013129
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 56 (25.3 bits)