RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16998
(98 letters)
>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 = 55.1 bits (133), Expect = 6e-12
Identities = 24/36 (66%), Positives = 31/36 (86%)
Query: 27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
+EYIKLKV+ DS+EIHF+VKMTT + KLK+SY +R
Sbjct: 1 MEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR 36
>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 = 53.3 bits (128), Expect = 4e-11
Identities = 16/40 (40%), Positives = 24/40 (60%)
Query: 23 GGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
G ++I LKV D + + F++K TP+ KL K+Y ER
Sbjct: 1 GSHMNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCER 40
>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 = 52.5 bits (126), Expect = 6e-11
Identities = 15/34 (44%), Positives = 22/34 (64%)
Query: 29 YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
+I LKV D + + F++K TP+ KL K+Y ER
Sbjct: 1 HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCER 34
>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 = 52.1 bits (125), Expect = 2e-10
Identities = 15/35 (42%), Positives = 23/35 (65%)
Query: 28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
++I LKV D + + F++K TP+ KL K+Y ER
Sbjct: 4 DHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCER 38
>2k8h_A Small ubiquitin protein; SUMO, post-translational modifier,
signaling protein; NMR {Trypanosoma brucei}
Length = 110
Score = 51.9 bits (124), Expect = 2e-10
Identities = 14/62 (22%), Positives = 31/62 (50%), Gaps = 3/62 (4%)
Query: 1 MADNSSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYS 60
M++N + S + + + + +KV+++D E+ FR+K T + KL +Y
Sbjct: 1 MSNNGG---EPSNNGGEGAEGTCKEETALVAVKVVNADGAEMFFRIKSRTALKKLIDTYC 57
Query: 61 ER 62
++
Sbjct: 58 KK 59
>3v7o_A Minor nucleoprotein VP30; ssgcid, seattle structural genomics
center for infectious disease, SMT, transcription;
2.25A {Reston ebolavirus}
Length = 227
Score = 53.6 bits (128), Expect = 3e-10
Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 9/62 (14%)
Query: 1 MADNSSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYS 60
M + KP +K +I LKV S S+EI F++K TTP+ +L ++++
Sbjct: 1 MGHHHHHHSGEVKPEVKPE--------THINLKV-SDGSSEIFFKIKKTTPLRRLMEAFA 51
Query: 61 ER 62
+R
Sbjct: 52 KR 53
>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 = 51.1 bits (122), Expect = 4e-10
Identities = 18/60 (30%), Positives = 30/60 (50%), Gaps = 1/60 (1%)
Query: 3 DNSSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
+ Q P S +I LKV S S+EI F++K TTP+ +L +++++R
Sbjct: 5 HHHHHHSQDPLVPRGSEVKPEVKPETHINLKV-SDGSSEIFFKIKKTTPLRRLMEAFAKR 63
>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 = 50.6 bits (121), Expect = 6e-10
Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 6/62 (9%)
Query: 1 MADNSSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYS 60
+ +S ++ + K +K+ +N ++I LKV D + + F++K TP+ KL K+Y
Sbjct: 2 SSGSSGMADEKPKEGVKT------ENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYC 55
Query: 61 ER 62
ER
Sbjct: 56 ER 57
>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 = 50.2 bits (120), Expect = 8e-10
Identities = 17/46 (36%), Positives = 26/46 (56%)
Query: 17 KSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
K +N ++I LKV D + + F++K TP+ KL K+Y ER
Sbjct: 5 KPKEGVKTENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCER 50
>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 = 51.7 bits (123), Expect = 1e-09
Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 3 DNSSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
S+ K +I LKV S S+EI F++K TTP+ +L +++++R
Sbjct: 31 KTGSLQDSEVNQEAKPEVKPEVKPETHINLKV-SDGSSEIFFKIKKTTPLRRLMEAFAKR 89
>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 = 49.0 bits (117), Expect = 2e-09
Identities = 7/46 (15%), Positives = 19/46 (41%), Gaps = 1/46 (2%)
Query: 23 GGDNVEYIKLKVLSSDSNE-IHFRVKMTTPMGKLKKSYSERVENKP 67
G + ++L+V + ++ + + +P+ L Y E +
Sbjct: 1 GPLGSQELRLRVQGKEKHQMLEISLSPDSPLKVLMSHYEEAMGLSG 46
>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 = 49.1 bits (117), Expect = 2e-09
Identities = 26/62 (41%), Positives = 35/62 (56%), Gaps = 8/62 (12%)
Query: 1 MADNSSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYS 60
M+D + + EYIKLKV+ DS+EIHF+VKMTT + KLK+SY
Sbjct: 1 MSDQ--------EAKPSTEDLGDKKEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYC 52
Query: 61 ER 62
+R
Sbjct: 53 QR 54
>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 = 48.1 bits (114), Expect = 7e-09
Identities = 29/59 (49%), Positives = 38/59 (64%), Gaps = 2/59 (3%)
Query: 4 NSSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
S +S Q +KP + EYIKLKV+ DS+EIHF+VKMTT + KLK+SY +R
Sbjct: 17 RSHMSDQEAKPSTEDLGDK--KEGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQR 73
>2jxx_A Nfatc2-interacting protein; nuclear factor of activated T-cells,
cytoplasmic 2- interacting protein, ubiquitin like
homologue; NMR {Homo sapiens}
Length = 97
Score = 46.1 bits (109), Expect = 3e-08
Identities = 9/60 (15%), Positives = 24/60 (40%), Gaps = 4/60 (6%)
Query: 5 SSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNE-IHFRVKMTTPMGKLKKSYSERV 63
S + S + S + + ++L+V + ++ + + +P+ L Y E +
Sbjct: 4 SHHHHHHSSGLVPRGSTETS---QQLQLRVQGKEKHQTLEVSLSRDSPLKTLMSHYEEAM 60
>3pge_A SUMO-modified proliferating cell nuclear antigen; DNA
replication, DNA binding protein; 2.80A {Saccharomyces
cerevisiae}
Length = 200
Score = 47.2 bits (111), Expect = 6e-08
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 4 NSSVSYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
+ +S K +I LKV S S+EI F++K TTP+ +L +++++R
Sbjct: 4 HHHMSDSEVNQEAKPEVKPEVKPETHINLKV-SDGSSEIFFKIKKTTPLRRLMEAFAKR 61
>2l76_A Nfatc2-interacting protein; ubiquitin-like domain, structural
genomics, PSI-biology, Pro structure initiative; NMR
{Homo sapiens}
Length = 95
Score = 33.5 bits (76), Expect = 0.002
Identities = 4/38 (10%), Positives = 15/38 (39%), Gaps = 1/38 (2%)
Query: 25 DNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSER 62
+ LK+ ++ + ++M+ P+ + +
Sbjct: 17 ETPRLFPLKI-RCRADLVRLPLRMSEPLQSVVDHMATH 53
>3goe_A DNA repair protein RAD60; SUMO-like domain, sumoylation, SUMO,
genome stability, DNA damage, DNA recombination,
nucleus; HET: DNA; 0.97A {Schizosaccharomyces pombe}
PDB: 3rcz_A*
Length = 82
Score = 27.6 bits (61), Expect = 0.34
Identities = 8/32 (25%), Positives = 15/32 (46%)
Query: 28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSY 59
+ I L + SS S ++ + + + L K Y
Sbjct: 8 KLITLLLRSSKSEDLRLSIPVDFTVKDLIKRY 39
>2x8g_A Thioredoxin glutathione reductase; redox-active center,
detoxification pathway, oxidoreductase, flavoprotein;
HET: FAD PG4; 1.90A {Schistosoma mansoni} PDB: 2x8c_A*
2x8h_A* 2x99_A* 3h4k_A* 2v6o_A*
Length = 598
Score = 25.8 bits (57), Expect = 2.5
Identities = 11/34 (32%), Positives = 19/34 (55%)
Query: 9 YQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEI 42
Y ++ P++ + A DNV Y+KL SD+ +
Sbjct: 501 YHSNFKPLEWTVAHREDNVCYMKLVCRKSDNMRV 534
>1vqq_A Saupbp2A, penicillin-binding protein MECA, low-affinity;
beta-lactam, D- transpeptidase, D-carboxypeptidase,
biosynthetic protein; 1.80A {Staphylococcus aureus}
SCOP: d.17.4.5 d.175.1.1 e.3.1.1 PDB: 1mwu_A* 1mwr_A
1mws_A* 1mwt_A*
Length = 646
Score = 25.7 bits (57), Expect = 3.3
Identities = 7/35 (20%), Positives = 18/35 (51%)
Query: 26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYS 60
N++ K+K +S + + + K+ T G + ++
Sbjct: 57 NIQDRKIKKVSKNKKRVDAQYKIKTNYGNIDRNVQ 91
>3qfa_A Thioredoxin reductase 1, cytoplasmic; protein-protein complex,
rossmann fold, HO pyridine nucleotide disulfide
oxidoreductase, electron TRAN oxidoreductase; HET: FAD;
2.20A {Homo sapiens} PDB: 3qfb_A* 2j3n_A* 2zzc_A*
2zzb_A* 2zz0_A* 2cfy_A* 1h6v_A* 3ean_A* 3eao_A*
Length = 519
Score = 25.3 bits (56), Expect = 4.4
Identities = 6/34 (17%), Positives = 15/34 (44%)
Query: 9 YQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEI 42
Y + P++ + +N Y K+ + D+ +
Sbjct: 422 YHSYFWPLEWTIPSRDNNKCYAKIICNTKDNERV 455
>3pmg_A Alpha-D-glucose-1,6-bisphosphate; phosphoglucomutase,
phosphotransferase; HET: SEP; 2.40A {Oryctolagus
cuniculus} SCOP: c.84.1.1 c.84.1.1 c.84.1.1 d.129.2.1
PDB: 1c4g_A* 1jdy_A* 1lxt_A 1vkl_A* 1c47_A*
Length = 561
Score = 24.7 bits (54), Expect = 6.0
Identities = 13/59 (22%), Positives = 24/59 (40%), Gaps = 7/59 (11%)
Query: 9 YQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKP 67
++ P S S + G L+++ +D + I FR+ T G + Y + E
Sbjct: 473 FEYHDPVDGSVSKNQG-------LRLIFADGSRIIFRLSGTGSAGATIRLYIDSYEKDN 524
>2g3m_A Maltase, alpha-glucosidase; hydrolase, glycoside hydrolase family
31, multidomain protein, (beta/alpha)8 barrel, retaining
mechanism; 2.55A {Sulfolobus solfataricus} PDB: 2g3n_A*
Length = 693
Score = 24.3 bits (53), Expect = 8.0
Identities = 5/22 (22%), Positives = 10/22 (45%)
Query: 64 ENKPMYKAMPMGTGLPFGQTHG 85
P+Y ++P+ + G G
Sbjct: 94 YQDPLYVSIPLFISVKDGVATG 115
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
0.308 0.125 0.353
Gapped
Lambda K H
0.267 0.0499 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,325,176
Number of extensions: 63158
Number of successful extensions: 81
Number of sequences better than 10.0: 1
Number of HSP's gapped: 76
Number of HSP's successfully gapped: 23
Length of query: 98
Length of database: 6,701,793
Length adjustment: 64
Effective length of query: 34
Effective length of database: 4,914,849
Effective search space: 167104866
Effective search space used: 167104866
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 51 (24.0 bits)