Query 025330
Match_columns 254
No_of_seqs 137 out of 337
Neff 4.0
Searched_HMMs 29240
Date Mon Mar 25 08:10:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025330.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/025330hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1qf8_A Casein kinase II; casei 100.0 2.8E-75 9.6E-80 504.6 9.7 155 96-250 3-157 (182)
2 4dgl_A Casein kinase II subuni 100.0 6.5E-75 2.2E-79 513.1 10.7 156 95-250 2-157 (215)
3 2kxe_A DNA polymerase II small 66.1 3.9 0.00013 30.6 2.7 30 171-200 7-36 (75)
4 1vk6_A NADH pyrophosphatase; 1 50.5 14 0.00049 32.4 4.1 33 199-241 107-139 (269)
5 2con_A RUH-035 protein, NIN on 42.4 7.3 0.00025 29.4 0.8 13 223-235 26-38 (79)
6 2jmo_A Parkin; IBR, E3 ligase, 41.0 19 0.00067 26.1 2.9 36 201-239 27-70 (80)
7 3vk8_A Probable formamidopyrim 36.1 24 0.00082 31.8 3.3 16 223-238 275-290 (295)
8 4esj_A Type-2 restriction enzy 33.1 8.8 0.0003 34.7 -0.1 37 200-243 35-72 (257)
9 1f62_A Transcription factor WS 30.9 15 0.00052 24.1 0.8 30 201-235 20-49 (51)
10 1ee8_A MUTM (FPG) protein; bet 27.4 35 0.0012 30.1 2.8 12 224-235 252-263 (266)
11 2i9n_A MHB4A peptide; beta-hai 27.4 19 0.00066 22.8 0.8 21 5-30 12-32 (33)
12 3u5n_A E3 ubiquitin-protein li 27.1 44 0.0015 28.0 3.3 35 201-240 24-58 (207)
13 3j20_Y 30S ribosomal protein S 26.6 39 0.0013 23.0 2.3 31 198-238 18-48 (50)
14 3r8s_1 50S ribosomal protein L 24.2 32 0.0011 23.6 1.5 17 219-235 26-42 (50)
15 3v2d_6 50S ribosomal protein L 24.1 32 0.0011 24.0 1.5 17 219-235 29-45 (54)
16 2i9o_A MHB8A peptide; beta-hai 23.6 31 0.001 22.3 1.2 20 6-30 17-36 (37)
17 3o36_A Transcription intermedi 23.3 59 0.002 26.6 3.3 35 201-240 21-55 (184)
18 2xzm_9 RPS31E; ribosome, trans 22.6 39 0.0013 28.9 2.1 29 200-238 114-142 (189)
19 3m7n_A Putative uncharacterize 21.9 46 0.0016 27.5 2.3 43 178-238 125-167 (179)
20 1mm2_A MI2-beta; PHD, zinc fin 21.2 63 0.0022 22.2 2.6 30 201-235 26-55 (61)
21 3flo_B DNA polymerase alpha ca 20.1 37 0.0013 29.4 1.4 35 201-238 24-60 (206)
22 3u5c_f 40S ribosomal protein S 20.1 55 0.0019 26.6 2.4 29 201-237 120-148 (152)
23 2k4x_A 30S ribosomal protein S 20.0 61 0.0021 22.4 2.3 11 227-237 36-46 (55)
No 1
>1qf8_A Casein kinase II; casein kinase beta subunit (1-182), Ser/Thr protein kinase, Zn finger, transferase; HET: MSE; 1.74A {Homo sapiens} SCOP: g.41.4.1 PDB: 3eed_A 1rqf_A
Probab=100.00 E-value=2.8e-75 Score=504.62 Aligned_cols=155 Identities=59% Similarity=1.093 Sum_probs=141.0
Q ss_pred CCCCCChHHHHhCCCCCeeEEecCcccccCCCccCCCCCCCCCHHHHHHHHcCCCCCCCCCCchHHHHHHHHHHHHHhhh
Q 025330 96 DGDDTSWISWFCNLRGNEFFCEVDDEYIQDDFNLCGLSSQVPYYDYALDLILDVESSHGDMFTEEQNELVESAAEMLYGL 175 (254)
Q Consensus 96 ~~ed~sWI~wFcsl~gneffceVDedYI~D~FNL~GL~~~Vp~Y~~ALd~ILd~e~~~~d~~~~~~~~~ie~~A~~LYGL 175 (254)
++++.+||+|||+++||+||||||+|||+|+|||+||+.+||+|++||+||||.++..+..++.++.+.++++|++||||
T Consensus 3 ~~~~~sWI~wF~~~~gneffceVd~dyI~D~FNL~GL~~~vp~y~~aLd~Ild~~~~~~~~~~~~~~~~ie~~a~~LYGL 82 (182)
T 1qf8_A 3 SSEEVSWISWFCGLRGNEFFCEVDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPDEELEDNPNQSDLIEQAAEMLYGL 82 (182)
T ss_dssp ----CCHHHHHHHSTTCTTCCCCCHHHHHSGGGGTTGGGTSTTHHHHHHHHTTCCCC------CHHHHHHHHHHHHHHHH
T ss_pred CCccCcHHHHHhCCCCCeEEEEeCHHHhcCcchhhCccccccCHHHHHHHHhCCCCccccccchhhhHHHHHHHHHHhch
Confidence 44677899999999999999999999999999999999999999999999999987655444455678899999999999
Q ss_pred ccccceeChHHHHHHHHhhhcCCCCCCCcccCCCCCccccccCCCCCCccceeeCCCCCccccCCCCCCcCCccc
Q 025330 176 IHVRYILTSKGMAAMLEKYKNYDFGRCPRVYCCGQPCLPVGQSDIPRSSTVKIYCPKCEDIYYPRSKYQGSILKI 250 (254)
Q Consensus 176 IHARYIlT~~GL~~M~eKY~~g~FG~CPRv~C~gq~lLPiGlSD~pg~stVKlYCP~C~DVY~P~s~~~~~IDG~ 250 (254)
||||||+|++||++|++||++|+||+||||+|++|+|||||+||+||+++||||||+|+|||+|++.++++|||+
T Consensus 83 IHaRyIlT~~Gl~~M~eKy~~g~FG~CPRv~C~~q~~LPvGlSd~pg~~~VKlyCP~C~DvY~p~s~~~~~iDGA 157 (182)
T 1qf8_A 83 IHARYILTNRGIAQMLEKYQQGDFGYCPRVYCENQPMLPIGLSDIPGEAMVKLYCPKCMDVYTPKSSRHHHTDGA 157 (182)
T ss_dssp HHHHHTTSHHHHHHHHHHHHTTTTCBCCBGGGTTCBCEEECSCSSTTSCBCEEECTTTCCEECCSSGGGTTSBGG
T ss_pred hhhhhcccHHHHHHHHHhhhcCcCCCCCccccCCCcccCCccCCCCCCCceEEECCCccceeCCCcccccccccc
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999997
No 2
>4dgl_A Casein kinase II subunit beta; protein kinase, transferase; 3.00A {Homo sapiens} PDB: 2r6m_A 1jwh_C 1ds5_E*
Probab=100.00 E-value=6.5e-75 Score=513.10 Aligned_cols=156 Identities=60% Similarity=1.091 Sum_probs=138.4
Q ss_pred CCCCCCChHHHHhCCCCCeeEEecCcccccCCCccCCCCCCCCCHHHHHHHHcCCCCCCCCCCchHHHHHHHHHHHHHhh
Q 025330 95 SDGDDTSWISWFCNLRGNEFFCEVDDEYIQDDFNLCGLSSQVPYYDYALDLILDVESSHGDMFTEEQNELVESAAEMLYG 174 (254)
Q Consensus 95 s~~ed~sWI~wFcsl~gneffceVDedYI~D~FNL~GL~~~Vp~Y~~ALd~ILd~e~~~~d~~~~~~~~~ie~~A~~LYG 174 (254)
|++++.+||+|||+++||+||||||+|||+|+|||+||+.+||+|++||+||||.+++++.+.+..+.+.++++|++|||
T Consensus 2 s~s~~~sWI~wFc~~~gneffceVd~dyI~D~FNL~GL~~~Vp~y~~aLd~Ild~~~~~~~~~~~~~~~~ie~~A~~LYG 81 (215)
T 4dgl_A 2 SSSEEVSWISWFCGLRGNEFFCEVDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPDEELEDNPNQSDLIEQAAEMLYG 81 (215)
T ss_dssp ------CHHHHHHTSTTCTTCCCCCHHHHHSTTTTTTGGGTSSSHHHHHHHHTTC--------CTTHHHHHHHHHHHHHH
T ss_pred CCcccCcHHHHHhCCCCCeEEEEeCHHHhcCcccccCchhccccHHHHHHHHcCCCCcchhcccchhHHHHHHHHHHHhh
Confidence 45567899999999999999999999999999999999999999999999999998765444445567789999999999
Q ss_pred hccccceeChHHHHHHHHhhhcCCCCCCCcccCCCCCccccccCCCCCCccceeeCCCCCccccCCCCCCcCCccc
Q 025330 175 LIHVRYILTSKGMAAMLEKYKNYDFGRCPRVYCCGQPCLPVGQSDIPRSSTVKIYCPKCEDIYYPRSKYQGSILKI 250 (254)
Q Consensus 175 LIHARYIlT~~GL~~M~eKY~~g~FG~CPRv~C~gq~lLPiGlSD~pg~stVKlYCP~C~DVY~P~s~~~~~IDG~ 250 (254)
|||||||+|++||++|++||++|+||+||||+|++|+|||||+||+||+++||||||+|+|||+|++.++++|||+
T Consensus 82 LIHARYIlT~~Gl~~M~eKY~~g~FG~CPRv~C~~q~~LPvGlSD~pg~~~VKlyCP~C~DvY~P~s~r~~~iDGA 157 (215)
T 4dgl_A 82 LIHARYILTNRGIAQMLEKYQQGDFGYCPRVYCENQPMLPIGLSDIPGEAMVKLYCPKCMDVYTPKSSRHHHTDGA 157 (215)
T ss_dssp HHHHHHTTSHHHHHHHHHHHHTTTTCBCCBGGGTSCBCEEEESCSSTTSCBEEEECTTTCCEECCSSTTSTTSBGG
T ss_pred hhhHhheecHHHHHHHHHHHhcCCCCcCCccccCCCceeccccCCCCCccceeEeCCCcccccCCCcccccccccc
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999997
No 3
>2kxe_A DNA polymerase II small subunit; D-family, archara, helical BU transferase; HET: DNA; NMR {Pyrococcus horikoshii}
Probab=66.10 E-value=3.9 Score=30.56 Aligned_cols=30 Identities=17% Similarity=0.448 Sum_probs=26.9
Q ss_pred HHhhhccccceeChHHHHHHHHhhhcCCCC
Q 025330 171 MLYGLIHVRYILTSKGMAAMLEKYKNYDFG 200 (254)
Q Consensus 171 ~LYGLIHARYIlT~~GL~~M~eKY~~g~FG 200 (254)
..=+|+-++|++||..--.+.+-|++|+|-
T Consensus 7 lVk~L~~n~YLiTPsAYyLL~~~ykkg~Fs 36 (75)
T 2kxe_A 7 FVKGLMKNGYLITPSAYYLLVGHFNEGKFS 36 (75)
T ss_dssp HHHHHHTTTCEECHHHHHHHHHHHHTTSSC
T ss_pred HHHHHHHCCceeCchHHHHHHHHhhccccc
Confidence 345799999999999999999999999984
No 4
>1vk6_A NADH pyrophosphatase; 1790429, structural genomics, JCSG, PS protein structure initiative, joint center for structural G hydrolase; HET: MSE; 2.20A {Escherichia coli} SCOP: d.113.1.4 d.113.1.4 g.41.14.1 PDB: 2gb5_A
Probab=50.45 E-value=14 Score=32.44 Aligned_cols=33 Identities=27% Similarity=0.798 Sum_probs=25.1
Q ss_pred CCCCCcccCCCCCccccccCCCCCCccceeeCCCCCccccCCC
Q 025330 199 FGRCPRVYCCGQPCLPVGQSDIPRSSTVKIYCPKCEDIYYPRS 241 (254)
Q Consensus 199 FG~CPRv~C~gq~lLPiGlSD~pg~stVKlYCP~C~DVY~P~s 241 (254)
+-.||+ | |.++.+ .....+.+||.|..++.|+.
T Consensus 107 ~~fC~~--C-G~~~~~-------~~~~~~~~C~~C~~~~yp~~ 139 (269)
T 1vk6_A 107 HKYCGY--C-GHEMYP-------SKTEWAMLCSHCRERYYPQI 139 (269)
T ss_dssp TSBCTT--T-CCBEEE-------CSSSSCEEESSSSCEECCCC
T ss_pred CCcccc--C-CCcCcc-------CCCceeeeCCCCCCEecCCC
Confidence 668887 5 555554 35678899999999999864
No 5
>2con_A RUH-035 protein, NIN one binding protein; ribosome, RNA binding protein, unknown function, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.41.15.1
Probab=42.44 E-value=7.3 Score=29.36 Aligned_cols=13 Identities=23% Similarity=0.876 Sum_probs=10.8
Q ss_pred CccceeeCCCCCc
Q 025330 223 SSTVKIYCPKCED 235 (254)
Q Consensus 223 ~stVKlYCP~C~D 235 (254)
..+-|.|||+|.-
T Consensus 26 ~~~~k~FCp~CGn 38 (79)
T 2con_A 26 SDMNRVFCGHCGN 38 (79)
T ss_dssp SCSSCCSCSSSCC
T ss_pred CCcccccccccCc
Confidence 4577999999985
No 6
>2jmo_A Parkin; IBR, E3 ligase, zinc binding domain, RBR; NMR {Homo sapiens}
Probab=40.95 E-value=19 Score=26.14 Aligned_cols=36 Identities=28% Similarity=0.594 Sum_probs=21.3
Q ss_pred CCCcccCCCCCccccccCCCCCC--------ccceeeCCCCCccccC
Q 025330 201 RCPRVYCCGQPCLPVGQSDIPRS--------STVKIYCPKCEDIYYP 239 (254)
Q Consensus 201 ~CPRv~C~gq~lLPiGlSD~pg~--------stVKlYCP~C~DVY~P 239 (254)
-||+..|... ++.-+ +.... .-=..||.+|..-||.
T Consensus 27 ~CP~p~C~~~-v~~~~--~~~~v~C~~~~~~~C~~~FC~~C~~~wH~ 70 (80)
T 2jmo_A 27 LCPRPGCGAG-LLPEP--DQRKVTCEGGNGLGCGFAFCRECKEAYHE 70 (80)
T ss_dssp CCCSSSCCCC-CCCCS--CTTSBCTTSSSTTCCSCCEETTTTEECCS
T ss_pred ECCCCCCCcc-cEECC--CCCcCCCCCCCCCCCCCeeccccCccccC
Confidence 5999999654 43322 11111 1124588888888887
No 7
>3vk8_A Probable formamidopyrimidine-DNA glycosylase; DNA glycosylase, hneil1 ortholog, DNA lesion, thymine glycol zincless finger; HET: DNA CTG; 2.00A {Acanthamoeba polyphaga mimivirus} PDB: 3vk7_A* 3a42_A 3a46_A* 3a45_A*
Probab=36.08 E-value=24 Score=31.76 Aligned_cols=16 Identities=6% Similarity=0.231 Sum_probs=11.8
Q ss_pred CccceeeCCCCCcccc
Q 025330 223 SSTVKIYCPKCEDIYY 238 (254)
Q Consensus 223 ~stVKlYCP~C~DVY~ 238 (254)
..+.--|||.|+..-+
T Consensus 275 ~~R~t~~CP~CQ~~~~ 290 (295)
T 3vk8_A 275 NKRTTYWAPAIQKLEH 290 (295)
T ss_dssp CCCEEEECTTTCBCC-
T ss_pred CCCccEECCCCCCCcc
Confidence 5667789999997543
No 8
>4esj_A Type-2 restriction enzyme DPNI; restriction endonuclease-DNA complex, type IIM, type IIE, RE enzyme, DPNI; HET: DNA 6MA; 2.05A {Streptococcus pneumoniae}
Probab=33.08 E-value=8.8 Score=34.75 Aligned_cols=37 Identities=27% Similarity=0.706 Sum_probs=22.6
Q ss_pred CCCCcccCCCCCccccccCCCCCCccce-eeCCCCCccccCCCCC
Q 025330 200 GRCPRVYCCGQPCLPVGQSDIPRSSTVK-IYCPKCEDIYYPRSKY 243 (254)
Q Consensus 200 G~CPRv~C~gq~lLPiGlSD~pg~stVK-lYCP~C~DVY~P~s~~ 243 (254)
+.||+ |..-++ +.-+...+|. .|||.|.+-|.-+|+.
T Consensus 35 ~yCPn--CG~~~l-----~~f~nN~PVaDF~C~~C~EeyELKSk~ 72 (257)
T 4esj_A 35 SYCPN--CGNNPL-----NHFENNRPVADFYCNHCSEEFELKSKK 72 (257)
T ss_dssp CCCTT--TCCSSC-----EEC----CCCEEECTTTCCEEEEEEEE
T ss_pred CcCCC--CCChhh-----hhccCCCcccccccCCcchhheecccc
Confidence 56775 433333 2334566676 8999999999988754
No 9
>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2
Probab=30.88 E-value=15 Score=24.12 Aligned_cols=30 Identities=23% Similarity=0.716 Sum_probs=17.0
Q ss_pred CCCcccCCCCCccccccCCCCCCccceeeCCCCCc
Q 025330 201 RCPRVYCCGQPCLPVGQSDIPRSSTVKIYCPKCED 235 (254)
Q Consensus 201 ~CPRv~C~gq~lLPiGlSD~pg~stVKlYCP~C~D 235 (254)
.|++.+- +.+|--++..+|.. ..|||.|..
T Consensus 20 ~C~~~~H--~~Cl~p~l~~~P~g---~W~C~~C~~ 49 (51)
T 1f62_A 20 ECNKAFH--LFCLRPALYEVPDG---EWQCPACQP 49 (51)
T ss_dssp TTCCEEC--HHHHCTTCCSCCSS---CCSCTTTSC
T ss_pred CCChhhC--cccCCCCcCCCCCC---cEECcCccc
Confidence 3555442 23454456666642 688888864
No 10
>1ee8_A MUTM (FPG) protein; beta sandwich, zinc finger, helix two-turns helix, riken STR genomics/proteomics initiative, RSGI, structural genomics; 1.90A {Thermus thermophilus} SCOP: a.156.1.2 b.113.1.1 g.39.1.8
Probab=27.41 E-value=35 Score=30.14 Aligned_cols=12 Identities=25% Similarity=0.900 Sum_probs=9.0
Q ss_pred ccceeeCCCCCc
Q 025330 224 STVKIYCPKCED 235 (254)
Q Consensus 224 stVKlYCP~C~D 235 (254)
++.--|||.|+.
T Consensus 252 gR~t~~CP~CQ~ 263 (266)
T 1ee8_A 252 GRGTHFCPTCQG 263 (266)
T ss_dssp SCEEEECTTTTT
T ss_pred CCceEECCCCCC
Confidence 455669999984
No 11
>2i9n_A MHB4A peptide; beta-hairpin, alpha-helix, de novo protein; NMR {Synthetic}
Probab=27.35 E-value=19 Score=22.79 Aligned_cols=21 Identities=48% Similarity=0.748 Sum_probs=15.8
Q ss_pred CCCCCCccccccCccchhhhhHHHHh
Q 025330 5 RGGGASKSEIVAGPLDRKRINDALDK 30 (254)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 30 (254)
.|++|+.+|.+ -|||.+++.|
T Consensus 12 eggggsaaeay-----akriaeamak 32 (33)
T 2i9n_A 12 EGGGGSAAEAY-----AKRIAEAMAK 32 (33)
T ss_dssp CSSCCCSTHHH-----HHHHHHHHCC
T ss_pred ecCCchHHHHH-----HHHHHHHHhC
Confidence 47778877754 7999998764
No 12
>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain, TGF-beta, epigenetics, methylation, K9ME3, K14AC, transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB: 3u5m_A* 3u5o_A* 3u5p_A*
Probab=27.10 E-value=44 Score=27.95 Aligned_cols=35 Identities=29% Similarity=0.663 Sum_probs=23.5
Q ss_pred CCCcccCCCCCccccccCCCCCCccceeeCCCCCccccCC
Q 025330 201 RCPRVYCCGQPCLPVGQSDIPRSSTVKIYCPKCEDIYYPR 240 (254)
Q Consensus 201 ~CPRv~C~gq~lLPiGlSD~pg~stVKlYCP~C~DVY~P~ 240 (254)
.|||.+.- .||.-++..+|.. ..|||.|...-.+.
T Consensus 24 ~C~~~~H~--~Cl~p~l~~~p~~---~W~C~~C~~~~~~~ 58 (207)
T 3u5n_A 24 KCPKVFHL--TCHVPTLLSFPSG---DWICTFCRDIGKPE 58 (207)
T ss_dssp SSSCEECT--TTSSSCCSSCCSS---CCCCTTTSCSSSCS
T ss_pred CCCCccCC--ccCCCCCCCCCCC---CEEeCceeCccccc
Confidence 58888765 3454455666643 59999999876543
No 13
>3j20_Y 30S ribosomal protein S27AE; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=26.62 E-value=39 Score=22.98 Aligned_cols=31 Identities=26% Similarity=0.535 Sum_probs=18.8
Q ss_pred CCCCCCcccCCCCCccccccCCCCCCccceeeCCCCCcccc
Q 025330 198 DFGRCPRVYCCGQPCLPVGQSDIPRSSTVKIYCPKCEDIYY 238 (254)
Q Consensus 198 ~FG~CPRv~C~gq~lLPiGlSD~pg~stVKlYCP~C~DVY~ 238 (254)
.|-.||+ | |..++-. .+.-+++||+|.-+|.
T Consensus 18 ~~k~CP~--C-G~~~fm~-------~~~~R~~C~kCG~t~~ 48 (50)
T 3j20_Y 18 KNKFCPR--C-GPGVFMA-------DHGDRWACGKCGYTEW 48 (50)
T ss_dssp SSEECSS--S-CSSCEEE-------ECSSEEECSSSCCEEE
T ss_pred ecccCCC--C-CCceEEe-------cCCCeEECCCCCCEEE
Confidence 4567886 6 4433321 1235789999987764
No 14
>3r8s_1 50S ribosomal protein L33; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 3fik_1 3j19_1 2wwq_4 3oat_1* 3oas_1* 3ofd_1 3ofc_1 3ofr_1* 3ofz_1* 3og0_1 3ofq_1 3r8t_1 3i1n_1 1vs8_1 1vs6_1 1vt2_1 3i1p_1 3i1r_1 3i1t_1 3i20_1 ...
Probab=24.19 E-value=32 Score=23.60 Aligned_cols=17 Identities=18% Similarity=0.311 Sum_probs=13.6
Q ss_pred CCCCCccceeeCCCCCc
Q 025330 219 DIPRSSTVKIYCPKCED 235 (254)
Q Consensus 219 D~pg~stVKlYCP~C~D 235 (254)
..|..-.+|-|||.|+.
T Consensus 26 ~~~~rLelkKycp~~~k 42 (50)
T 3r8s_1 26 TKPEKLELKKFDPVVRQ 42 (50)
T ss_dssp GCCSCCCEEEEETTTTE
T ss_pred CCCccceEeeeCcCCCC
Confidence 35667788999999975
No 15
>3v2d_6 50S ribosomal protein L33; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2hgq_5 2hgj_5 2hgu_5 2j03_6 2jl6_6 2jl8_6 2v47_6 2v49_6 2wdi_6 2wdj_6 2wdl_6 2wdn_6 2wh2_6 2wh4_6 2wrj_6 2wrl_6 2wro_6 2wrr_6 2x9s_6 2x9u_6 ...
Probab=24.10 E-value=32 Score=24.02 Aligned_cols=17 Identities=29% Similarity=0.894 Sum_probs=13.8
Q ss_pred CCCCCccceeeCCCCCc
Q 025330 219 DIPRSSTVKIYCPKCED 235 (254)
Q Consensus 219 D~pg~stVKlYCP~C~D 235 (254)
..|..-.+|-|||.|+.
T Consensus 29 n~p~rLelkKycp~c~k 45 (54)
T 3v2d_6 29 NTPNKLELRKYCPWCRK 45 (54)
T ss_dssp TSCSCCEEEEEETTTTE
T ss_pred CCCcccEEeeeCCCCCC
Confidence 45677788999999975
No 16
>2i9o_A MHB8A peptide; beta-hairpin, alpha-helix, de novo protein; NMR {Synthetic}
Probab=23.62 E-value=31 Score=22.35 Aligned_cols=20 Identities=50% Similarity=0.750 Sum_probs=12.8
Q ss_pred CCCCCccccccCccchhhhhHHHHh
Q 025330 6 GGGASKSEIVAGPLDRKRINDALDK 30 (254)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~ 30 (254)
|++|+.+|. --|||.+++.|
T Consensus 17 ggggsaaea-----yakriaeamak 36 (37)
T 2i9o_A 17 GGGGSAAEA-----YAKRIAEAMAK 36 (37)
T ss_dssp CCSCSSHHH-----HHHHHHHHHTT
T ss_pred CCcchHHHH-----HHHHHHHHHhc
Confidence 344455553 37999998864
No 17
>3o36_A Transcription intermediary factor 1-alpha; TRIM24, PHD finger, bromodomain, H4K16 acetylation, breast C transcription-protein binding complex; HET: ALY; 1.70A {Homo sapiens} PDB: 3o33_A* 3o34_A* 3o35_A* 3o37_A
Probab=23.32 E-value=59 Score=26.55 Aligned_cols=35 Identities=23% Similarity=0.599 Sum_probs=23.1
Q ss_pred CCCcccCCCCCccccccCCCCCCccceeeCCCCCccccCC
Q 025330 201 RCPRVYCCGQPCLPVGQSDIPRSSTVKIYCPKCEDIYYPR 240 (254)
Q Consensus 201 ~CPRv~C~gq~lLPiGlSD~pg~stVKlYCP~C~DVY~P~ 240 (254)
.|||.+.-.+ |.-++...|.. ..|||.|...=.|.
T Consensus 21 ~C~~~~H~~C--~~p~l~~~p~~---~W~C~~C~~~~~~~ 55 (184)
T 3o36_A 21 KCPKVFHLSC--HVPTLTNFPSG---EWICTFCRDLSKPE 55 (184)
T ss_dssp SSSCEECTTT--SSSCCSSCCSS---CCCCTTTSCSSSCS
T ss_pred CCCcccCccc--cCCCCCCCCCC---CEECccccCccccc
Confidence 5888887544 43345556632 59999999875543
No 18
>2xzm_9 RPS31E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_9
Probab=22.61 E-value=39 Score=28.90 Aligned_cols=29 Identities=31% Similarity=0.737 Sum_probs=19.5
Q ss_pred CCCCcccCCCCCccccccCCCCCCccceeeCCCCCcccc
Q 025330 200 GRCPRVYCCGQPCLPVGQSDIPRSSTVKIYCPKCEDIYY 238 (254)
Q Consensus 200 G~CPRv~C~gq~lLPiGlSD~pg~stVKlYCP~C~DVY~ 238 (254)
-.||| | +..+++--..| +.||-+|+..|.
T Consensus 114 ~~Cp~--C-g~g~fma~h~d-------R~~CGkC~~t~~ 142 (189)
T 2xzm_9 114 KGCPK--C-GPGIFMAKHYD-------RHYCGKCHLTLK 142 (189)
T ss_dssp EECST--T-CSSCEEEECSS-------CEEETTTCCCBC
T ss_pred ccCCc--c-CCCccccCccC-------CCccCCceeEEE
Confidence 47888 5 44555543333 679999998884
No 19
>3m7n_A Putative uncharacterized protein AF_0206; exosome, RNA, exonuclease, hydrolase, nuclease, hydrolase-RN; 2.40A {Archaeoglobus fulgidus} PDB: 2ba1_A 3m85_A
Probab=21.95 E-value=46 Score=27.51 Aligned_cols=43 Identities=21% Similarity=0.396 Sum_probs=28.3
Q ss_pred ccceeChHHHHHHHHhhhcCCCCCCCcccCCCCCccccccCCCCCCccceeeCCCCCcccc
Q 025330 178 VRYILTSKGMAAMLEKYKNYDFGRCPRVYCCGQPCLPVGQSDIPRSSTVKIYCPKCEDIYY 238 (254)
Q Consensus 178 ARYIlT~~GL~~M~eKY~~g~FG~CPRv~C~gq~lLPiGlSD~pg~stVKlYCP~C~DVY~ 238 (254)
.+|.||-++ .-.-..+..||+ | |.++.|++ + .++||.|.-+-.
T Consensus 125 ~~i~LS~k~------~~lGvv~a~~~~--~-g~~m~~~~--~-------~~~cp~~g~~e~ 167 (179)
T 3m7n_A 125 DNLRLSTKE------EEMGVLRALCSN--C-KTEMVREG--D-------ILKCPECGRVEK 167 (179)
T ss_dssp TTTEEECCS------TTCEEEECBCTT--T-CCBCEECS--S-------SEECSSSCCEEC
T ss_pred CeEEEEEec------CCCCEEEecccc--c-CCceEECC--C-------EEECCCCCCEEE
Confidence 356665433 234455668884 5 77899976 2 589999987763
No 20
>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A
Probab=21.16 E-value=63 Score=22.19 Aligned_cols=30 Identities=30% Similarity=0.650 Sum_probs=18.0
Q ss_pred CCCcccCCCCCccccccCCCCCCccceeeCCCCCc
Q 025330 201 RCPRVYCCGQPCLPVGQSDIPRSSTVKIYCPKCED 235 (254)
Q Consensus 201 ~CPRv~C~gq~lLPiGlSD~pg~stVKlYCP~C~D 235 (254)
.|||.|--.. |-..++.+|. -+.|||.|..
T Consensus 26 ~C~~~fH~~C--l~ppl~~~p~---g~W~C~~C~~ 55 (61)
T 1mm2_A 26 TCPSSYHIHC--LNPPLPEIPN---GEWLCPRCTC 55 (61)
T ss_dssp SSCCCBCSSS--SSSCCSSCCS---SCCCCTTTTT
T ss_pred CCCHHHcccc--cCCCcCcCCC---CccCChhhcC
Confidence 4888765433 3223455553 3789999953
No 21
>3flo_B DNA polymerase alpha catalytic subunit A; protein-protein complex, phosphoesterase fold, OB fold, zinc motif, DNA replication, nucleus; HET: DNA; 2.50A {Saccharomyces cerevisiae}
Probab=20.14 E-value=37 Score=29.37 Aligned_cols=35 Identities=23% Similarity=0.472 Sum_probs=24.0
Q ss_pred CCCcccCCCCCccccccCCCCC--CccceeeCCCCCcccc
Q 025330 201 RCPRVYCCGQPCLPVGQSDIPR--SSTVKIYCPKCEDIYY 238 (254)
Q Consensus 201 ~CPRv~C~gq~lLPiGlSD~pg--~stVKlYCP~C~DVY~ 238 (254)
+|| .|.....+| |+....+ ....-+-||+|+..+.
T Consensus 24 ~Cp--~C~~~~~F~-gv~~~~~~~~~~sg~~C~~C~~~~~ 60 (206)
T 3flo_B 24 SCP--SCDKRFPFG-GIVSSNYYRVSYNGLQCKHCEQLFT 60 (206)
T ss_dssp ECT--TTCCEEEEC-SSSCCSSEEEETTEEEETTTCCBCC
T ss_pred ECC--CCCCccCCC-CcccCCCcccccccccCCCCCCcCC
Confidence 577 687777777 6654433 3556788999998664
No 22
>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=20.11 E-value=55 Score=26.59 Aligned_cols=29 Identities=28% Similarity=0.833 Sum_probs=16.3
Q ss_pred CCCcccCCCCCccccccCCCCCCccceeeCCCCCccc
Q 025330 201 RCPRVYCCGQPCLPVGQSDIPRSSTVKIYCPKCEDIY 237 (254)
Q Consensus 201 ~CPRv~C~gq~lLPiGlSD~pg~stVKlYCP~C~DVY 237 (254)
.||+..|. .-++=--..| +.||-+|+-.|
T Consensus 120 ~c~~~~cg-~g~fma~h~~-------r~~cgkc~~t~ 148 (152)
T 3u5c_f 120 ECSNPTCG-AGVFLANHKD-------RLYCGKCHSVY 148 (152)
T ss_dssp BCCSTTSC-SSSBEEECSS-------CEEESSSSSCC
T ss_pred cCCCccCC-CceEecccCC-------CcccCCCceEE
Confidence 57887773 2222111222 67888887766
No 23
>2k4x_A 30S ribosomal protein S27AE; metal-binding, ribonucleoprotein, zinc, zinc-finger, structural genomics, PSI-2; NMR {Thermoplasma acidophilum} SCOP: g.41.8.8
Probab=20.01 E-value=61 Score=22.39 Aligned_cols=11 Identities=18% Similarity=0.525 Sum_probs=9.1
Q ss_pred eeeCCCCCccc
Q 025330 227 KIYCPKCEDIY 237 (254)
Q Consensus 227 KlYCP~C~DVY 237 (254)
.++|++|.=.+
T Consensus 36 r~~C~kCgyt~ 46 (55)
T 2k4x_A 36 RYSCGRCGYTE 46 (55)
T ss_dssp EEECTTTCCCE
T ss_pred EEECCCCCCEE
Confidence 88999997665
Done!