Query 042287
Match_columns 97
No_of_seqs 126 out of 161
Neff 2.8
Searched_HMMs 29240
Date Mon Mar 25 07:48:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042287.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/042287hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3iz6_Z 40S ribosomal protein S 100.0 4.2E-38 1.4E-42 205.1 -1.7 62 36-97 1-62 (62)
2 3u5c_e 40S ribosomal protein S 100.0 3.5E-36 1.2E-40 196.5 0.6 61 36-96 1-62 (63)
3 2xzm_X RPS30E; ribosome, trans 100.0 4.9E-33 1.7E-37 188.4 0.7 61 36-96 1-64 (80)
4 2xzm_9 RPS31E; ribosome, trans 98.3 1.8E-07 6E-12 69.8 1.5 58 3-70 42-99 (189)
5 3u5e_m 60S ribosomal protein L 94.1 0.0094 3.2E-07 39.9 0.1 43 3-45 42-84 (128)
6 1wh3_A 59 kDa 2'-5'-oligoadeny 93.8 0.0051 1.8E-07 37.5 -1.5 39 3-41 49-87 (87)
7 1we6_A Splicing factor, putati 93.5 0.0099 3.4E-07 38.7 -0.7 39 3-41 73-111 (111)
8 2kdi_A Ubiquitin, vacuolar pro 91.2 0.0044 1.5E-07 41.1 -4.6 57 3-60 51-107 (114)
9 3n3k_B Ubiquitin; hydrolase, p 90.2 0.021 7.3E-07 34.2 -1.8 40 3-42 45-84 (85)
10 3mtn_B UBA80, ubcep1, ubiquiti 89.9 0.033 1.1E-06 33.2 -1.2 40 3-42 45-84 (85)
11 4fbj_B NEDD8; effector-HOST ta 89.5 0.03 1E-06 34.9 -1.6 42 3-44 42-83 (88)
12 1we7_A SF3A1 protein; structur 88.9 0.028 9.6E-07 36.8 -2.2 39 3-41 77-115 (115)
13 3u5c_f 40S ribosomal protein S 86.7 0.25 8.6E-06 34.7 1.5 59 3-66 42-100 (152)
14 1sif_A Ubiquitin; hydrophobic 73.3 0.39 1.3E-05 29.7 -1.2 38 3-40 51-88 (88)
15 2hj8_A Interferon-induced 17 k 68.8 0.82 2.8E-05 28.1 -0.4 38 3-40 46-83 (88)
16 2uyz_B Small ubiquitin-related 45.7 1.8 6E-05 25.5 -1.8 35 3-37 45-79 (79)
17 3dbh_I NEDD8; cell cycle, acti 41.6 3.3 0.00011 24.6 -1.0 35 3-37 54-88 (88)
18 1wyw_B Ubiquitin-like protein 38.9 3 0.0001 26.2 -1.6 35 3-37 63-97 (97)
19 1ndd_A NEDD8, protein (ubiquit 38.3 3.3 0.00011 23.6 -1.4 16 7-22 46-61 (76)
20 1wy8_A NP95-like ring finger p 36.9 3.2 0.00011 24.9 -1.6 37 3-39 51-87 (89)
21 3a9j_A Ubiquitin; protein comp 36.3 3.8 0.00013 23.3 -1.3 16 7-22 46-61 (76)
22 4hcn_B Polyubiquitin, ubiquiti 34.0 4.7 0.00016 25.2 -1.2 35 3-37 64-98 (98)
23 2l7r_A Ubiquitin-like protein 31.0 4.7 0.00016 25.1 -1.6 34 4-37 60-93 (93)
24 3k9o_B Ubiquitin, UBB+1; E2-25 30.5 5.4 0.00018 24.2 -1.4 35 3-37 43-77 (96)
25 1wgd_A Homocysteine-responsive 24.2 6.3 0.00022 24.2 -1.9 36 3-38 53-90 (93)
26 3q3f_A Ribonuclease/ubiquitin 23.9 11 0.00037 27.4 -1.0 36 3-38 147-182 (189)
27 1yx5_B Ubiquitin; proteasome, 21.8 10 0.00035 23.3 -1.3 35 3-37 42-76 (98)
28 2ojr_A Ubiquitin; lanthide-bin 21.4 9.2 0.00032 24.4 -1.6 33 4-36 78-110 (111)
29 3l0w_B Monoubiquitinated proli 21.1 11 0.00038 26.2 -1.4 39 3-41 42-80 (169)
30 3b1l_X E3 ubiquitin-protein li 26.2 21 0.00071 20.4 0.0 28 4-31 43-70 (76)
31 3vdz_A Ubiquitin-40S ribosomal 20.4 9.8 0.00033 24.5 -1.7 34 4-37 78-111 (111)
No 1
>3iz6_Z 40S ribosomal protein S30 (S30E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
Probab=100.00 E-value=4.2e-38 Score=205.14 Aligned_cols=62 Identities=100% Similarity=1.428 Sum_probs=60.4
Q ss_pred ccchhhhhhccCcccCCCccccccccccCCChhhhhhhhcccceeeceecCCccCCCCCCCC
Q 042287 36 MGKVHGSLARAGKVRGQTPKVAKQDKKKKPRGRAHKRMQYNRRFVTAVVGFGKKRGPNSSEK 97 (97)
Q Consensus 36 ~GKvHGSLarAGKVR~QTPKV~kqeKkK~~~gRak~R~qYnrRfvnv~~~~g~krgpN~~~~ 97 (97)
|||||||||+|||||+||||||+|||+|+++|||++|++|||||+||+++||+|++||+|++
T Consensus 1 mGKvHGSLarAGKVR~QTPKV~kqeKkk~~~gRak~R~~YnrRfvnv~~~~g~kr~~n~n~~ 62 (62)
T 3iz6_Z 1 MGKVHGSLARAGKVRGQTPKVAKQDKKKKPRGRAHKRMQYNRRFVTAVVGFGKKRGPNSSEK 62 (62)
T ss_dssp CHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHCCCCCCSCHHHHHHTTTCCCCCCC
T ss_pred CCcccchhhccccccCCCCCcchhhhccCCchHHHHHHHhhhhhhhcccccCCccCCCCCCC
Confidence 89999999999999999999999999999999999999999999999999999999999974
No 2
>3u5c_e 40S ribosomal protein S30-A, 40S ribosomal protein S29-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_Z* 3j16_E 3u5g_e
Probab=100.00 E-value=3.5e-36 Score=196.53 Aligned_cols=61 Identities=61% Similarity=0.902 Sum_probs=56.4
Q ss_pred ccchhhhhhccCcccCCCccccccccccCCChhhhhhhhcccceeeceecCCc-cCCCCCCC
Q 042287 36 MGKVHGSLARAGKVRGQTPKVAKQDKKKKPRGRAHKRMQYNRRFVTAVVGFGK-KRGPNSSE 96 (97)
Q Consensus 36 ~GKvHGSLarAGKVR~QTPKV~kqeKkK~~~gRak~R~qYnrRfvnv~~~~g~-krgpN~~~ 96 (97)
|||||||||+|||||+||||||+|||+|+++|||++|++|||||+|++++||+ +++||++.
T Consensus 1 mgKvHGSLarAGKVR~QTPKV~k~eKkk~~~gRak~R~~YnrRfvnv~~~~gkrk~~pn~~~ 62 (63)
T 3u5c_e 1 MAKVHGSLARAGKVKSQTPKVEKTEKPKKPKGRAYKRLLYTRRFVNVTLVNGKRRMNPGPSV 62 (63)
T ss_dssp -CCCBCCCTTTTHHHHHSCCCCCCCCCCCCCTHHHHHHHHHHHHTSCCCCSSSCCSSCCCC-
T ss_pred CCcccchhhhcccccCCCCCCcccccccCCchhHHHHHHhhhhheeecccCCcccCCCCCCC
Confidence 89999999999999999999999999999999999999999999999999995 67888864
No 3
>2xzm_X RPS30E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_X 3j0o_X 3j0l_X 3j0p_X 3j0q_X
Probab=99.97 E-value=4.9e-33 Score=188.36 Aligned_cols=61 Identities=56% Similarity=0.889 Sum_probs=52.1
Q ss_pred ccchhhhhhccCcccCCCccccccccc-cCCChhhhhhhhcccceeecee-cCCccCC-CCCCC
Q 042287 36 MGKVHGSLARAGKVRGQTPKVAKQDKK-KKPRGRAHKRMQYNRRFVTAVV-GFGKKRG-PNSSE 96 (97)
Q Consensus 36 ~GKvHGSLarAGKVR~QTPKV~kqeKk-K~~~gRak~R~qYnrRfvnv~~-~~g~krg-pN~~~ 96 (97)
|||||||||+|||||+|||||++|||+ |.++|||++|++|||||+|+++ +||++++ ||+++
T Consensus 1 mGkvHGSLarAGKVR~QTPKV~kqeKk~K~~~GRak~R~~YnrRfv~~~~~~~gkrk~npn~~~ 64 (80)
T 2xzm_X 1 MGRMHGTLAKAGKVRKQTPKVEKKDKPRKTPKGRSYKRILYNRRYAPHILATDPKKRKSPNWHA 64 (80)
T ss_dssp ------CCTTTTHHHHHSCCCCCCCCSSCCCCSHHHHHHHHHHHSSTTTTTSCSSSCCCTTTCS
T ss_pred CccchhhhhccccccccCCCcchhhhcccCCchhHHHHHHHHHhhhhhcccccccccCCCCcch
Confidence 899999999999999999999999998 8999999999999999999999 8998886 88876
No 4
>2xzm_9 RPS31E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_9
Probab=98.28 E-value=1.8e-07 Score=69.83 Aligned_cols=58 Identities=21% Similarity=0.070 Sum_probs=24.1
Q ss_pred ccccCCCCCCCcccchhhhhhhhhhhhHhhhhcccchhhhhhccCcccCCCccccccccccCCChhhh
Q 042287 3 TLDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAMGKVHGSLARAGKVRGQTPKVAKQDKKKKPRGRAH 70 (97)
Q Consensus 3 ~l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~GKvHGSLarAGKVR~QTPKV~kqeKkK~~~gRak 70 (97)
+|...|-++.|+..++ ....++|+.++++|++| |+ ||..||||+++++++|.+.+..+
T Consensus 42 RLIf~GK~LeD~~TLs-----~~STLhLvlRLrGG~~k----rk-K~~~~tPK~~k~~kKkvkl~~Lk 99 (189)
T 2xzm_9 42 TLVNNGFIAPNTELVT-----DDVTYYLSLKLLGGKKK----KK-KKSYTTKKKTKHRHVHTKLGALA 99 (189)
T ss_dssp -----------------------------------CCC----CC-CCCCCSSSCCCCCCCCCCCSCCC
T ss_pred EEEecCeECCCCCccc-----CCCEEEEEEecCCCccc----cc-ccccCCCccccccccccCCceee
Confidence 5667788888888888 44556788899999999 88 99999999999998877775544
No 5
>3u5e_m 60S ribosomal protein L40; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3u5i_m 4b6a_m 4a18_K 4a19_K 4a1b_K 4a1d_K 4adx_5 3izc_p 3izs_p 3iz5_p 3izr_p
Probab=94.08 E-value=0.0094 Score=39.91 Aligned_cols=43 Identities=19% Similarity=0.065 Sum_probs=7.2
Q ss_pred ccccCCCCCCCcccchhhhhhhhhhhhHhhhhcccchhhhhhc
Q 042287 3 TLDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAMGKVHGSLAR 45 (97)
Q Consensus 3 ~l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~GKvHGSLar 45 (97)
.|...|-.+.|+..++++.-..-....|..++.+|++|+||+.
T Consensus 42 rLi~~Gk~L~D~~tL~~~~I~~gsti~l~~rl~GG~~~~sl~~ 84 (128)
T 3u5e_m 42 RLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGIIEPSLKA 84 (128)
T ss_dssp -----------------------------------CCCHHHHH
T ss_pred EEEECCEECCCCCchhhhccCCCCEEEEEEEcCCCCCChhHHH
Confidence 4566778888888999998888888899999999999999984
No 6
>1wh3_A 59 kDa 2'-5'-oligoadenylate synthetase like protein; P59 OASL, ubiquitin family, structural genomics; NMR {Homo sapiens} SCOP: d.15.1.1
Probab=93.78 E-value=0.0051 Score=37.46 Aligned_cols=39 Identities=15% Similarity=0.008 Sum_probs=32.1
Q ss_pred ccccCCCCCCCcccchhhhhhhhhhhhHhhhhcccchhh
Q 042287 3 TLDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAMGKVHG 41 (97)
Q Consensus 3 ~l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~GKvHG 41 (97)
.|...|-++.|+..++++.-..-...+|..++++|++||
T Consensus 49 rL~~~Gk~L~d~~tL~~~~i~~g~~i~l~~~~~GG~~~g 87 (87)
T 1wh3_A 49 QLEFQGQVLQDWLGLGIYGIQDSDTLILSKKKGSGPSSG 87 (87)
T ss_dssp EEEETTEECCSSSBHHHHTCCTTEEEEEEECSCCCSCCC
T ss_pred EEEECCEEccCCCCHHHCCCCCCCEEEEEEeccCCCCCC
Confidence 455667778888889998877777788888999999998
No 7
>1we6_A Splicing factor, putative; structural genomics, ubiquitin-like domain, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: d.15.1.1
Probab=93.47 E-value=0.0099 Score=38.69 Aligned_cols=39 Identities=13% Similarity=-0.018 Sum_probs=32.5
Q ss_pred ccccCCCCCCCcccchhhhhhhhhhhhHhhhhcccchhh
Q 042287 3 TLDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAMGKVHG 41 (97)
Q Consensus 3 ~l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~GKvHG 41 (97)
.|...|-.+.|+..++++.-..-....|..++.+||+||
T Consensus 73 rL~~~Gk~L~D~~tL~~y~I~~g~~l~l~~r~~GGk~h~ 111 (111)
T 1we6_A 73 KLSGKAGFLKDNMSLAHYNVGAGEILTLSLRERSGPSSG 111 (111)
T ss_dssp EEECSSSBCCTTSBTTTTTCSSSCEEEEECSSCCSSCCC
T ss_pred EEEECCEECCCCCcHHHCCCCCCCEEEEEEEcCCCCCCC
Confidence 455677788888889988877777788888999999998
No 8
>2kdi_A Ubiquitin, vacuolar protein sorting-associated protein 27 fusion protein; ubiquitin interacting motif, UIM, protein domain interface; NMR {Saccharomyces cerevisiae}
Probab=91.24 E-value=0.0044 Score=41.11 Aligned_cols=57 Identities=14% Similarity=0.083 Sum_probs=45.8
Q ss_pred ccccCCCCCCCcccchhhhhhhhhhhhHhhhhcccchhhhhhccCcccCCCccccccc
Q 042287 3 TLDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAMGKVHGSLARAGKVRGQTPKVAKQD 60 (97)
Q Consensus 3 ~l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~GKvHGSLarAGKVR~QTPKV~kqe 60 (97)
.|...|-++.|+..++++.-.......|..++.+|+ ++++..++.+.+||++++-++
T Consensus 51 rLi~~Gk~L~D~~tL~~ygI~~gstI~l~~~~~GG~-~~~~~~~~~~~g~~~~~~v~~ 107 (114)
T 2kdi_A 51 RLIWAGKQLEDGRTLSDYNIQRESTLHLVLRLRGGS-MGGAADEEELIRKAIELSLKE 107 (114)
T ss_dssp EEEETTEECCTTCBTTTTTCCSSCEEEEEECCCSSC-CCSSCSSSHHHHHHHHSSSHH
T ss_pred EEEECCEECCCCCcHHHCCCCCCCEEEEEEEcCCCc-eeeccccccccCceEEEEecc
Confidence 455567788888889988877777777778888885 789999999999999988653
No 9
>3n3k_B Ubiquitin; hydrolase, protease, thiol protease, DUB, zinc ribbon, inhibitor, ubiqu acetylation, cytoplasm, isopeptide bond, nucleus; 2.60A {Homo sapiens} SCOP: d.15.1.1
Probab=90.19 E-value=0.021 Score=34.15 Aligned_cols=40 Identities=18% Similarity=0.013 Sum_probs=27.2
Q ss_pred ccccCCCCCCCcccchhhhhhhhhhhhHhhhhcccchhhh
Q 042287 3 TLDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAMGKVHGS 42 (97)
Q Consensus 3 ~l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~GKvHGS 42 (97)
.|...|-++.|+..++++.-..-...+|..++.+|+.|||
T Consensus 45 rL~~~g~~L~d~~tL~~~~i~~~~~i~l~~rl~GG~g~~~ 84 (85)
T 3n3k_B 45 RLIFAGKQLEDGRTLSDYNIHNHSALYLLLKLRGGGGGGS 84 (85)
T ss_dssp EEEETBEECCTTCBTTTTTCCTTCEEEEEECCC-------
T ss_pred EEEECCeECCCCCCHHHCCCCCCCEEEEEEeccCCCCCCC
Confidence 4566777888888999988777788888889999999986
No 10
>3mtn_B UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquitin-specific protease activity, hydrolase, ubiquitin B structural genomics consortium, SGC; 2.70A {Homo sapiens} SCOP: d.15.1.1
Probab=89.86 E-value=0.033 Score=33.22 Aligned_cols=40 Identities=23% Similarity=0.003 Sum_probs=28.8
Q ss_pred ccccCCCCCCCcccchhhhhhhhhhhhHhhhhcccchhhh
Q 042287 3 TLDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAMGKVHGS 42 (97)
Q Consensus 3 ~l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~GKvHGS 42 (97)
.|...|-.+.|+..++++.-..-...+|..++.+|+.+||
T Consensus 45 rL~~~g~~L~d~~tL~~~~i~~~~~l~l~~r~~GG~ggg~ 84 (85)
T 3mtn_B 45 RLIFAGKQLEDGRTLSDYNIQKWSTLFLLLRLRGGGGGGS 84 (85)
T ss_dssp EEEETTEECCTTSBTGGGTCCTTCEEEEECCCCCC-----
T ss_pred EEEECCEECCCCCCHHHcCCCCCCEEEEEEECcCCCCCCC
Confidence 4556777888888999988777778888889999999987
No 11
>4fbj_B NEDD8; effector-HOST target complex, glutamine deamidase, deamidati bacterial effector, cell cycle-protein binding complex; 1.60A {Homo sapiens} PDB: 4f8c_B
Probab=89.51 E-value=0.03 Score=34.87 Aligned_cols=42 Identities=7% Similarity=-0.167 Sum_probs=27.4
Q ss_pred ccccCCCCCCCcccchhhhhhhhhhhhHhhhhcccchhhhhh
Q 042287 3 TLDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAMGKVHGSLA 44 (97)
Q Consensus 3 ~l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~GKvHGSLa 44 (97)
+|...|-.+.|+..++++.-..-....|..++.+|+++||-+
T Consensus 42 rLi~~Gk~L~D~~tL~~~~i~~g~~l~l~~rl~Gg~~~~~~~ 83 (88)
T 4fbj_B 42 RLIYSGKQMNDEKTAADYKILGGSVLHLVLALRGGGGLRQKH 83 (88)
T ss_dssp EEEETTEECCTTSBTTTTTCCTTCEEEEECBCC---------
T ss_pred EEEECCeECCCCCcHHHcCCCCCCEEEEEEECCCCCCCCccc
Confidence 456678888898899999877777888888999999999865
No 12
>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
Probab=88.90 E-value=0.028 Score=36.82 Aligned_cols=39 Identities=10% Similarity=0.014 Sum_probs=31.3
Q ss_pred ccccCCCCCCCcccchhhhhhhhhhhhHhhhhcccchhh
Q 042287 3 TLDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAMGKVHG 41 (97)
Q Consensus 3 ~l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~GKvHG 41 (97)
.|...|-.+.|+..++++.-..-...+|..++.+||+||
T Consensus 77 rL~~~Gk~L~D~~tL~~y~i~~g~~i~lv~rl~GGk~~~ 115 (115)
T 1we7_A 77 KLQYEGIFIKDSNSLAYYNMASGAVIHLALKERSGPSSG 115 (115)
T ss_dssp EEEETTEEECTTSBHHHHTCCSSCEEEEEECCCSCCSCC
T ss_pred EEEECCEECCCCCCHHHCCCCCCCEEEEEEEcCCCCCCC
Confidence 355567777888889988877777788888999999997
No 13
>3u5c_f 40S ribosomal protein S31; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3u5g_f
Probab=86.70 E-value=0.25 Score=34.75 Aligned_cols=59 Identities=10% Similarity=-0.031 Sum_probs=13.7
Q ss_pred ccccCCCCCCCcccchhhhhhhhhhhhHhhhhcccchhhhhhccCcccCCCccccccccccCCC
Q 042287 3 TLDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAMGKVHGSLARAGKVRGQTPKVAKQDKKKKPR 66 (97)
Q Consensus 3 ~l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~GKvHGSLarAGKVR~QTPKV~kqeKkK~~~ 66 (97)
.|...|-.+.|+..++++.-..-...+|..++.+|.- +--|..-.|||..+..+||-+-
T Consensus 42 rLi~~Gk~L~D~~tL~dygI~~gstL~Lvlrl~GGgK-----krkKk~~t~Pkk~~~~~~~~~~ 100 (152)
T 3u5c_f 42 RLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGGK-----KRKXXXXXXXXXXXXXXXXXXX 100 (152)
T ss_dssp ---------------------------------------------CCCCCCCSCCCCCCCCCCC
T ss_pred EEEECCEEccccCcHHHcCCCCCCEEEEEeeccCCCc-----Cccccccccccccccccccccc
Confidence 4666788888988999998777778888888887731 2235667889998887655443
No 14
>1sif_A Ubiquitin; hydrophobic mutants, folding, stability, structural protein; 2.18A {Homo sapiens} SCOP: d.15.1.1
Probab=73.29 E-value=0.39 Score=29.69 Aligned_cols=38 Identities=16% Similarity=0.039 Sum_probs=21.6
Q ss_pred ccccCCCCCCCcccchhhhhhhhhhhhHhhhhcccchh
Q 042287 3 TLDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAMGKVH 40 (97)
Q Consensus 3 ~l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~GKvH 40 (97)
.|...|-++.|+..++++.-..-....|..++.+|+.|
T Consensus 51 rL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~r~~GG~~~ 88 (88)
T 1sif_A 51 RLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGGLD 88 (88)
T ss_dssp EEEETTEECCTTSBSGGGTCCTTCEEEEEC--------
T ss_pred EEEECCEECCCCCcHHHcCCCCCCEEEEEEeCCCCCCC
Confidence 45556777778878888877666667777788888765
No 15
>2hj8_A Interferon-induced 17 kDa protein; HR2873B, human ISG15, structure, northeast structural genomics consortium, protein structure initiative, NESG; NMR {Homo sapiens}
Probab=68.81 E-value=0.82 Score=28.13 Aligned_cols=38 Identities=13% Similarity=-0.073 Sum_probs=24.7
Q ss_pred ccccCCCCCCCcccchhhhhhhhhhhhHhhhhcccchh
Q 042287 3 TLDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAMGKVH 40 (97)
Q Consensus 3 ~l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~GKvH 40 (97)
+|...|-++.|+..++++.-..-....|..+..+||.|
T Consensus 46 rL~~~Gk~L~D~~tL~~~~I~~g~~i~l~~~~~gg~~~ 83 (88)
T 2hj8_A 46 WLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLRGGLEH 83 (88)
T ss_dssp EEESSSSCCCTTSBHHHHHCSTTCEEEEEEC-------
T ss_pred EEEECCEECCCCCcHHHcCCCCCCEEEEEEEcCCCccc
Confidence 45667888888889999887777777788888888877
No 16
>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
Probab=45.73 E-value=1.8 Score=25.54 Aligned_cols=35 Identities=3% Similarity=-0.086 Sum_probs=23.8
Q ss_pred ccccCCCCCCCcccchhhhhhhhhhhhHhhhhccc
Q 042287 3 TLDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAMG 37 (97)
Q Consensus 3 ~l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~G 37 (97)
+|...|-++.|+.+++++.-..-+..+|..++.+|
T Consensus 45 rL~~~G~~L~d~~tl~~~~i~~~~~i~l~~~~~GG 79 (79)
T 2uyz_B 45 RFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTGG 79 (79)
T ss_dssp EEEETTEECCTTCCHHHHTCCTTEEEEEEECCCC-
T ss_pred EEEECCEEeCCCCCHHHcCCCCCCEEEEEEeccCC
Confidence 45566777888888888777666666666666554
No 17
>3dbh_I NEDD8; cell cycle, activating enzyme, apoptosis, membrane, UBL conjugation pathway, ATP-binding, ligase, nucleotide- binding, polymorphism; 2.85A {Homo sapiens} SCOP: d.15.1.1 PDB: 3dbr_I 3dbl_I
Probab=41.59 E-value=3.3 Score=24.55 Aligned_cols=35 Identities=11% Similarity=-0.056 Sum_probs=20.7
Q ss_pred ccccCCCCCCCcccchhhhhhhhhhhhHhhhhccc
Q 042287 3 TLDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAMG 37 (97)
Q Consensus 3 ~l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~G 37 (97)
.|...|-.+.|+..++++.-..-...+|..++.+|
T Consensus 54 rL~~~G~~L~d~~tL~~~~i~~~~~i~l~~rl~GG 88 (88)
T 3dbh_I 54 RLIYSGKQMNDEKTAADYKILGGSVLHLVLRLRGG 88 (88)
T ss_dssp CEEETTEECCTTSBGGGGTCCTTCEEEECCCCCCC
T ss_pred EEEECCeECCCCCcHHHcCCCCCCEEEEEEeCCCC
Confidence 34456666777767777765555555555555544
No 18
>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
Probab=38.95 E-value=3 Score=26.18 Aligned_cols=35 Identities=3% Similarity=-0.086 Sum_probs=25.8
Q ss_pred ccccCCCCCCCcccchhhhhhhhhhhhHhhhhccc
Q 042287 3 TLDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAMG 37 (97)
Q Consensus 3 ~l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~G 37 (97)
+|...|-.+.|+.+++++.-..-+..+|..++.+|
T Consensus 63 rLif~Gk~L~d~~tl~dy~i~~g~~I~l~~~~~GG 97 (97)
T 1wyw_B 63 RFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTGG 97 (97)
T ss_dssp EEEETTEECCTTCCHHHHTCCTTCEEEEEESSSCC
T ss_pred EEEECCeEcCCCCCHHHCCCCCCCEEEEEEecCCC
Confidence 46667778888888888877777777776666665
No 19
>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
Probab=38.25 E-value=3.3 Score=23.56 Aligned_cols=16 Identities=0% Similarity=-0.139 Sum_probs=7.4
Q ss_pred CCCCCCCcccchhhhh
Q 042287 7 CCLPQFGRERVSQQQQ 22 (97)
Q Consensus 7 ~~~~~~~~~~~s~~~~ 22 (97)
.|-++.|+..++++.-
T Consensus 46 ~g~~L~d~~tL~~~~i 61 (76)
T 1ndd_A 46 SGKQMNDEKTAADYKI 61 (76)
T ss_dssp TTEECCTTSBGGGGTC
T ss_pred CCEECCCCCcHHHcCC
Confidence 3444444444554443
No 20
>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
Probab=36.90 E-value=3.2 Score=24.92 Aligned_cols=37 Identities=14% Similarity=-0.084 Sum_probs=23.1
Q ss_pred ccccCCCCCCCcccchhhhhhhhhhhhHhhhhcccch
Q 042287 3 TLDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAMGKV 39 (97)
Q Consensus 3 ~l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~GKv 39 (97)
+|...|-++.|+..++++.-..-...+|..++.+|+.
T Consensus 51 rL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~~~gG~~ 87 (89)
T 1wy8_A 51 RLFYRGKQLENGYTLFDYDVGLNDIIQLLVRPDSGPS 87 (89)
T ss_dssp EEEETTEECCSSSBHHHHTCCTTCEEEEEECCCCSSC
T ss_pred EEEECCeECCCCCCHHHCCCCCCCEEEEEEeCCCCCC
Confidence 3445566677777777776655555566666666653
No 21
>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 ...
Probab=36.34 E-value=3.8 Score=23.28 Aligned_cols=16 Identities=6% Similarity=-0.163 Sum_probs=6.9
Q ss_pred CCCCCCCcccchhhhh
Q 042287 7 CCLPQFGRERVSQQQQ 22 (97)
Q Consensus 7 ~~~~~~~~~~~s~~~~ 22 (97)
.|-.+.|+..++++.-
T Consensus 46 ~g~~L~d~~tL~~~~i 61 (76)
T 3a9j_A 46 AGKQLEDGRTLSDYNI 61 (76)
T ss_dssp TTEECCTTCBTGGGTC
T ss_pred CCeECCCCCcHHHcCC
Confidence 3444444444444433
No 22
>4hcn_B Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidase, NEDD8, protein binding; 2.60A {Saccharomyces cerevisiae}
Probab=33.95 E-value=4.7 Score=25.15 Aligned_cols=35 Identities=17% Similarity=0.032 Sum_probs=20.4
Q ss_pred ccccCCCCCCCcccchhhhhhhhhhhhHhhhhccc
Q 042287 3 TLDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAMG 37 (97)
Q Consensus 3 ~l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~G 37 (97)
+|...|-.+.|+..++++.-..-...+|..++.+|
T Consensus 64 rLi~~Gk~L~D~~tL~~~~i~~g~~i~l~~rl~GG 98 (98)
T 4hcn_B 64 RLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 98 (98)
T ss_dssp EEEETTEECCTTCBSGGGTCCTTEEEEEECBCSCC
T ss_pred EEEECCEECCCCCcHHHCCCCCCCEEEEEEecCCC
Confidence 34455666666667777665555555555555544
No 23
>2l7r_A Ubiquitin-like protein FUBI; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; NMR {Homo sapiens}
Probab=31.04 E-value=4.7 Score=25.08 Aligned_cols=34 Identities=12% Similarity=-0.007 Sum_probs=18.3
Q ss_pred cccCCCCCCCcccchhhhhhhhhhhhHhhhhccc
Q 042287 4 LDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAMG 37 (97)
Q Consensus 4 l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~G 37 (97)
|...|-++.|+..++++.-..-....|..++.+|
T Consensus 60 Li~~Gk~L~D~~tL~~y~I~~gstI~lv~rl~GG 93 (93)
T 2l7r_A 60 VLLAGAPLEDEATLGQCGVEALTTLEVAGRMLGG 93 (93)
T ss_dssp EEETTEECCTTSBHHHHTCCSSCEEEEECCCCCC
T ss_pred EEECCEECCCCCcHHHCCCCCCCEEEEEEecCCC
Confidence 4444555666666666655444444544455444
No 24
>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
Probab=30.48 E-value=5.4 Score=24.20 Aligned_cols=35 Identities=14% Similarity=-0.069 Sum_probs=23.6
Q ss_pred ccccCCCCCCCcccchhhhhhhhhhhhHhhhhccc
Q 042287 3 TLDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAMG 37 (97)
Q Consensus 3 ~l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~G 37 (97)
.|...|-.+.|+..++++.-..-...+|..++.+|
T Consensus 43 rL~~~G~~L~d~~tL~~~~i~~~~~i~l~~r~~gG 77 (96)
T 3k9o_B 43 RLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGY 77 (96)
T ss_dssp EEEETTEECCTTSBTGGGTCCTTCEEEEEECCCC-
T ss_pred EEEECCEECCCCCcHHHcCCCCCCEEEEEEEcCCC
Confidence 45566777888888888876666666666666655
No 25
>1wgd_A Homocysteine-responsive endoplasmic reticulum- resident ubiquitin-like domain member...; ENDPLASMIC reticulum stress, UBL domain; NMR {Homo sapiens} SCOP: d.15.1.1
Probab=24.21 E-value=6.3 Score=24.15 Aligned_cols=36 Identities=11% Similarity=0.065 Sum_probs=20.8
Q ss_pred ccccCCCCCCCcccchhh--hhhhhhhhhHhhhhcccc
Q 042287 3 TLDSCCLPQFGRERVSQQ--QQQQQRPTRLLKRSAMGK 38 (97)
Q Consensus 3 ~l~s~~~~~~~~~~~s~~--~~~~~~~~~~~~~~~~GK 38 (97)
+|...|-.+.|+..++++ .-..-...+|+.++.+|+
T Consensus 53 rLi~~Gk~L~D~~tL~~~~~~i~~~~~i~lv~~~~gg~ 90 (93)
T 1wgd_A 53 RLIYSGKLLLDHQCLRDLLPKQEKRHVLHLVCNVKSGP 90 (93)
T ss_dssp EEEETTEECCSSSCHHHHSCSSSCSEEEEEECCCCCCC
T ss_pred EEEECCEECcCcCCHHHHhcCCCCCCEEEEEeCCCCCC
Confidence 344556677777777776 444444455555555554
No 26
>3q3f_A Ribonuclease/ubiquitin chimeric protein; domain SWAP, oligomerization, ubiquitin insertion, hydrolase binding; 2.17A {Bacillus amyloliquefaciens}
Probab=23.94 E-value=11 Score=27.38 Aligned_cols=36 Identities=17% Similarity=0.021 Sum_probs=27.3
Q ss_pred ccccCCCCCCCcccchhhhhhhhhhhhHhhhhcccc
Q 042287 3 TLDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAMGK 38 (97)
Q Consensus 3 ~l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~GK 38 (97)
+|...|-.+.|+..++++.-..-...+|..++.+|+
T Consensus 147 rLi~~Gk~L~D~~tL~dygI~~gstI~LvlrlrGG~ 182 (189)
T 3q3f_A 147 RLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGG 182 (189)
T ss_dssp CEEETTEECCTTCBGGGGTCCTTCEEEECCCCCCCC
T ss_pred EEEECCEECCCCCCHHHCCCCCCCEEEEEEEcCCCC
Confidence 456677788888888888877777777777777764
No 27
>1yx5_B Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo sapiens} SCOP: d.15.1.1 PDB: 1yx6_B
Probab=21.77 E-value=10 Score=23.34 Aligned_cols=35 Identities=17% Similarity=0.032 Sum_probs=20.0
Q ss_pred ccccCCCCCCCcccchhhhhhhhhhhhHhhhhccc
Q 042287 3 TLDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAMG 37 (97)
Q Consensus 3 ~l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~G 37 (97)
.|...|-++.|+..++++.-..-....|..+..+|
T Consensus 42 rL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~~~~gG 76 (98)
T 1yx5_B 42 RLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 76 (98)
T ss_dssp EEEETTEECCTTSBTGGGTCCTTCEEEEEECCCCC
T ss_pred EEEECCEECCCCCCHHHcCCCCCCEEEEEEeCCCC
Confidence 34445666667767777665554444444455544
No 28
>2ojr_A Ubiquitin; lanthide-binding TAG, terbium, TB, SAD phasing, protein binding; 2.60A {Homo sapiens}
Probab=21.39 E-value=9.2 Score=24.43 Aligned_cols=33 Identities=15% Similarity=-0.031 Sum_probs=15.1
Q ss_pred cccCCCCCCCcccchhhhhhhhhhhhHhhhhcc
Q 042287 4 LDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAM 36 (97)
Q Consensus 4 l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~ 36 (97)
|...|-.+.|+..++++.-..-...+|..++.+
T Consensus 78 Li~~Gk~L~D~~tL~~~gI~~gs~I~l~~rl~G 110 (111)
T 2ojr_A 78 LIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 110 (111)
T ss_dssp EEETTEECCSSCBTTTTTCCTTCEEEEEECCCC
T ss_pred EEECCEECCCCCcHHHcCCCCCCEEEEEEeCCC
Confidence 333444555555555554444333343334333
No 29
>3l0w_B Monoubiquitinated proliferating cell nuclear antigen, proliferating cell nuclear antigen; replication, DNA damage, DNA repair; 2.80A {Saccharomyces cerevisiae} PDB: 3l10_B
Probab=21.06 E-value=11 Score=26.18 Aligned_cols=39 Identities=15% Similarity=-0.014 Sum_probs=29.2
Q ss_pred ccccCCCCCCCcccchhhhhhhhhhhhHhhhhcccchhh
Q 042287 3 TLDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAMGKVHG 41 (97)
Q Consensus 3 ~l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~GKvHG 41 (97)
+|...|-.+.|+..++++.-..-...+|..++.+|+--|
T Consensus 42 rLi~~Gk~L~D~~tL~~y~I~~gstI~Lvlrl~GG~k~~ 80 (169)
T 3l0w_B 42 RLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGGGET 80 (169)
T ss_dssp EEEETTEECCTTSBGGGGTCCTTCEEEEEECCCC---CC
T ss_pred EEEECCccccCcCcHHHcCCCCCCEEEEEEEeccccccc
Confidence 466678888898899999877777888888888887554
No 30
>3b1l_X E3 ubiquitin-protein ligase parkin; proteasome, ALFA-beta-protein; 1.85A {Mus musculus} PDB: 1mg8_A 2zeq_A 2knb_A 1iyf_A
Probab=26.18 E-value=21 Score=20.41 Aligned_cols=28 Identities=11% Similarity=-0.064 Sum_probs=13.8
Q ss_pred cccCCCCCCCcccchhhhhhhhhhhhHh
Q 042287 4 LDSCCLPQFGRERVSQQQQQQQRPTRLL 31 (97)
Q Consensus 4 l~s~~~~~~~~~~~s~~~~~~~~~~~~~ 31 (97)
|...|-++.|+..++++.-..-...+|.
T Consensus 43 L~~~gk~L~d~~tL~~~~i~~g~~i~l~ 70 (76)
T 3b1l_X 43 VIFAGKELPNHLTVQNCDLEQQSIVHIV 70 (76)
Confidence 3444555555555665544443333333
No 31
>3vdz_A Ubiquitin-40S ribosomal protein S27A; gadolinium, MRI contrast agent, peptide-based contrast agent lanthanide binding TAG; 2.40A {Synthetic construct} PDB: 2ojr_A
Probab=20.41 E-value=9.8 Score=24.45 Aligned_cols=34 Identities=18% Similarity=0.035 Sum_probs=17.6
Q ss_pred cccCCCCCCCcccchhhhhhhhhhhhHhhhhccc
Q 042287 4 LDSCCLPQFGRERVSQQQQQQQRPTRLLKRSAMG 37 (97)
Q Consensus 4 l~s~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~G 37 (97)
|...|-.+.|+..++++.-..-...+|..++.+|
T Consensus 78 Li~~Gk~L~D~~tL~~~gI~~gs~I~l~~rl~GG 111 (111)
T 3vdz_A 78 LIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 111 (111)
T ss_dssp EEETTEECCTTSBTTTTTCCTTCEEEEEECCCC-
T ss_pred EEECCEECCCCCcHHHCCCCCCCEEEEEEecCCC
Confidence 4445556666666666654444444444444443
Done!