Query 043617
Match_columns 291
No_of_seqs 143 out of 202
Neff 2.5
Searched_HMMs 29240
Date Mon Mar 25 11:13:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043617.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/043617hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1qyp_A RNA polymerase II; tran 92.0 0.11 3.7E-06 36.4 2.9 49 1-51 4-55 (57)
2 3h0g_I DNA-directed RNA polyme 82.7 1.3 4.6E-05 34.9 4.2 41 11-51 69-112 (113)
3 1tfi_A Transcriptional elongat 81.4 1.4 4.8E-05 30.8 3.5 38 13-50 8-48 (50)
4 1twf_I B12.6, DNA-directed RNA 75.1 3.8 0.00013 32.7 4.7 41 13-53 71-114 (122)
5 2fiy_A Protein FDHE homolog; F 58.4 3.9 0.00013 37.6 1.8 35 14-49 222-263 (309)
6 3dfx_A Trans-acting T-cell-spe 48.9 13 0.00045 27.4 3.0 47 10-60 3-49 (63)
7 1gnf_A Transcription factor GA 46.8 13 0.00044 25.8 2.6 42 13-58 3-44 (46)
8 3qt1_I DNA-directed RNA polyme 44.4 4.7 0.00016 33.1 0.0 38 14-51 92-132 (133)
9 3cw1_L U1 small nuclear ribonu 38.8 9.1 0.00031 29.4 0.8 17 38-54 2-18 (77)
10 2kae_A GATA-type transcription 37.0 2.8 9.6E-05 31.6 -2.2 50 9-61 3-52 (71)
11 2k2d_A Ring finger and CHY zin 36.4 14 0.00049 27.9 1.6 13 14-26 55-67 (79)
12 1pft_A TFIIB, PFTFIIBN; N-term 34.5 24 0.00083 23.5 2.3 34 12-51 3-36 (50)
13 1xre_A SODA-2, superoxide dism 33.9 17 0.00056 32.1 1.8 34 206-244 2-39 (217)
14 4ffk_A Superoxide dismutase; o 32.7 21 0.00073 31.6 2.3 37 207-243 4-44 (223)
15 4eba_G RNA15, KLLA0F09383P; HA 32.3 12 0.00041 32.4 0.6 25 206-230 3-33 (174)
16 2gmg_A Hypothetical protein PF 31.8 29 0.00099 28.0 2.7 15 12-26 82-96 (105)
17 4gat_A Nitrogen regulatory pro 31.1 30 0.001 25.6 2.5 46 11-60 6-51 (66)
18 2zjr_Z 50S ribosomal protein L 29.5 26 0.00088 25.4 1.9 29 8-48 24-52 (60)
19 1wd2_A Ariadne-1 protein homol 24.9 67 0.0023 22.7 3.4 42 13-54 5-49 (60)
20 3njr_A Precorrin-6Y methylase; 23.8 21 0.00073 28.7 0.7 25 206-230 3-27 (204)
21 2pk7_A Uncharacterized protein 23.8 34 0.0011 25.3 1.7 30 13-49 7-36 (69)
22 2akl_A PHNA-like protein PA012 23.7 50 0.0017 28.0 2.9 34 13-54 26-59 (138)
23 3k7a_M Transcription initiatio 22.8 55 0.0019 29.5 3.2 39 8-50 15-53 (345)
24 2kdx_A HYPA, hydrogenase/ureas 22.0 51 0.0017 25.5 2.5 12 16-27 92-103 (119)
25 1x4u_A Zinc finger, FYVE domai 21.8 83 0.0028 23.1 3.5 46 3-60 6-51 (84)
26 4hc9_A Trans-acting T-cell-spe 21.7 44 0.0015 26.6 2.1 45 12-60 57-101 (115)
27 2jny_A Uncharacterized BCR; st 21.6 31 0.0011 25.5 1.1 31 12-49 8-38 (67)
28 1p91_A Ribosomal RNA large sub 20.2 57 0.002 26.5 2.5 39 15-62 3-42 (269)
No 1
>1qyp_A RNA polymerase II; transcription, RPB9, Zn ribbon, hyperthermophilic, extremophIle; NMR {Thermococcus celer} SCOP: g.41.3.1
Probab=91.95 E-value=0.11 Score=36.42 Aligned_cols=49 Identities=24% Similarity=0.614 Sum_probs=31.4
Q ss_pred CCcccCCCCCCCCCCCCCCCCCCCceeeeecCCCCCCC---ccccccccccccc
Q 043617 1 MERVWNHKPNVEISPNCPRCGSSNTKFCYYNNYSLTQP---RYFCKGCRRYWTK 51 (291)
Q Consensus 1 ~~~~w~~k~~~e~~~~CPRC~S~nTKFcYyNNy~~~QP---R~fCk~CrRYWT~ 51 (291)
+|..|+.-+. ...+||+|...+..|--.+-.+...| .|.|..|.--|+.
T Consensus 4 Ie~~~~~~~~--~~~~Cp~Cg~~~~~~~q~Q~rsadep~T~fy~C~~Cg~~w~~ 55 (57)
T 1qyp_A 4 MEQDLKTLPT--TKITCPKCGNDTAYWWEMQTRAGDEPSTIFYKCTKCGHTWRS 55 (57)
T ss_dssp CCCCCSSSCE--EECCCTTTCCSEEEEEEECCSSSSCSSEEEEEESSSCCEEEC
T ss_pred hhhhhhcCCc--eEeECCCCCCCEEEEEEeecccCCCCCcEEEEcCCCCCEecc
Confidence 3566744333 35789999984444433333344444 3999999999976
No 2
>3h0g_I DNA-directed RNA polymerases I, II, and III subunit rpabc5; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=82.73 E-value=1.3 Score=34.87 Aligned_cols=41 Identities=20% Similarity=0.423 Sum_probs=26.0
Q ss_pred CCCCCCCCCCCCCCceeeeecCCCCCCCc---cccccccccccc
Q 043617 11 VEISPNCPRCGSSNTKFCYYNNYSLTQPR---YFCKGCRRYWTK 51 (291)
Q Consensus 11 ~e~~~~CPRC~S~nTKFcYyNNy~~~QPR---~fCk~CrRYWT~ 51 (291)
+-...+||+|...+..|-..+-.+...|- |.|..|.--|+.
T Consensus 69 p~~~~~Cp~C~~~~a~~~q~q~rsade~mt~fy~C~~C~~~w~~ 112 (113)
T 3h0g_I 69 PRSDKECPRCHQHEAVFYQTHSRRGDTMMTLIYVCVHCGFAFEE 112 (113)
T ss_dssp CBCCSCCSSSCCSCEEEECCCCSSCCCCCCCEEEESSSCCCCCC
T ss_pred CCcccCCCCCCCceEEEEEEecccCCCCCeeEEEcCCCCCEEec
Confidence 33347999999876544333333332222 889999999974
No 3
>1tfi_A Transcriptional elongation factor SII; transcription regulation; NMR {Homo sapiens} SCOP: g.41.3.1
Probab=81.36 E-value=1.4 Score=30.83 Aligned_cols=38 Identities=21% Similarity=0.536 Sum_probs=28.1
Q ss_pred CCCCCCCCCCCCceeeeecCCCCCCCc---ccccccccccc
Q 043617 13 ISPNCPRCGSSNTKFCYYNNYSLTQPR---YFCKGCRRYWT 50 (291)
Q Consensus 13 ~~~~CPRC~S~nTKFcYyNNy~~~QPR---~fCk~CrRYWT 50 (291)
....||+|...+..|=-.+..+...|- |.|..|..-|.
T Consensus 8 ~~~~Cp~Cg~~~a~f~q~Q~RsaDE~mT~Fy~C~~Cg~~w~ 48 (50)
T 1tfi_A 8 DLFTCGKCKKKNCTYTQVQTRSADEPMTTFVVCNECGNRWK 48 (50)
T ss_dssp CCSCCSSSCSSCEEEEEECSSSSSSCCEEEEEESSSCCEEE
T ss_pred CccCCCCCCCCEEEEEEecCcCCCCCceEEEEcCCCCCeEE
Confidence 346899999877776655555555553 89999998885
No 4
>1twf_I B12.6, DNA-directed RNA polymerase II 14.2 kDa polypepti; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: g.41.3.1 g.41.3.1 PDB: 1i3q_I 1i6h_I 1k83_I* 1nik_I 1nt9_I 1pqv_I 1r5u_I 1r9s_I* 1r9t_I* 1sfo_I* 1twa_I* 1twc_I* 1i50_I* 1twg_I* 1twh_I* 1wcm_I 1y1v_I 1y1w_I 1y1y_I 1y77_I* ...
Probab=75.09 E-value=3.8 Score=32.66 Aligned_cols=41 Identities=20% Similarity=0.508 Sum_probs=28.9
Q ss_pred CCCCCCCCCCCCceeeeecCCCCCCCc---ccccccccccccCC
Q 043617 13 ISPNCPRCGSSNTKFCYYNNYSLTQPR---YFCKGCRRYWTKGG 53 (291)
Q Consensus 13 ~~~~CPRC~S~nTKFcYyNNy~~~QPR---~fCk~CrRYWT~GG 53 (291)
....||+|...+.-|--.+-.+...|- |.|..|.--|+...
T Consensus 71 t~~~Cp~C~~~~a~~~q~q~rsade~~t~fy~C~~C~~~w~~nn 114 (122)
T 1twf_I 71 SDRECPKCHSRENVFFQSQQRRKDTSMVLFFVCLSCSHIFTSDQ 114 (122)
T ss_dssp CCCCCTTTCCCCEEEEECSSCCTTCCCCEEEEETTTCCEEECCT
T ss_pred cCCCCCCCCCCEEEEEEecCccCCCCceEEEEeCCCCCEeccCC
Confidence 357899999876555444444444443 89999999998764
No 5
>2fiy_A Protein FDHE homolog; FDHE protein, structural genomics, P protein structure initiative, midwest center for structural genomics, MCSG; 2.10A {Pseudomonas aeruginosa} SCOP: e.59.1.1
Probab=58.43 E-value=3.9 Score=37.56 Aligned_cols=35 Identities=20% Similarity=0.485 Sum_probs=24.9
Q ss_pred CCCCCCCCCCCceeeeecCCC-------CCCCccccccccccc
Q 043617 14 SPNCPRCGSSNTKFCYYNNYS-------LTQPRYFCKGCRRYW 49 (291)
Q Consensus 14 ~~~CPRC~S~nTKFcYyNNy~-------~~QPR~fCk~CrRYW 49 (291)
-.+||.|.+. .+.-|+.--. ...--+.|..|+.|+
T Consensus 222 R~~C~~Cg~~-~~l~y~~~e~~~~~~~~~~~r~e~C~~C~~Yl 263 (309)
T 2fiy_A 222 RIKCSHCEES-KHLAYLSLEHDGQPAEKAVLRAETCPSCQGYL 263 (309)
T ss_dssp TTSCSSSCCC-SCCEEECCCC-CCCSTTCSEEEEEETTTTEEE
T ss_pred CcCCcCCCCC-CCeeEEEecCccccCCCcceEEEEcccccchH
Confidence 4589999998 4677775443 112238899999998
No 6
>3dfx_A Trans-acting T-cell-specific transcription factor GATA-3; activator, DNA-binding, metal-binding, nucleus; HET: DNA; 2.70A {Mus musculus} PDB: 3dfv_D* 2gat_A* 3gat_A* 1gat_A* 1gau_A*
Probab=48.88 E-value=13 Score=27.38 Aligned_cols=47 Identities=15% Similarity=0.438 Sum_probs=33.8
Q ss_pred CCCCCCCCCCCCCCCceeeeecCCCCCCCcccccccccccccCCccccccC
Q 043617 10 NVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPV 60 (291)
Q Consensus 10 ~~e~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT~GGtLRnVPV 60 (291)
.......|-.|....|-. +-.- .....+|-+|.=||-+.|..|-+.+
T Consensus 3 ~~~~~~~C~~C~tt~Tp~--WR~g--p~G~~LCNACGl~~~~~~~~RP~~~ 49 (63)
T 3dfx_A 3 ARRAGTSCANCQTTTTTL--WRRN--ANGDPVCNACGLYYKLHNINRPLTM 49 (63)
T ss_dssp CCCTTCCCTTTCCSCCSS--CCCC--TTSCCCCHHHHHHHHHHSSCCCGGG
T ss_pred CCCCCCcCCCcCCCCCCc--cCCC--CCCCchhhHHHHHHHHcCCCCCcCc
Confidence 345667899999987742 1111 1223899999999999999887765
No 7
>1gnf_A Transcription factor GATA-1; zinc finger, transcription regulation; NMR {Mus musculus} SCOP: g.39.1.1 PDB: 1y0j_A 2l6y_A 2l6z_A
Probab=46.83 E-value=13 Score=25.84 Aligned_cols=42 Identities=24% Similarity=0.634 Sum_probs=30.0
Q ss_pred CCCCCCCCCCCCceeeeecCCCCCCCcccccccccccccCCccccc
Q 043617 13 ISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNV 58 (291)
Q Consensus 13 ~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT~GGtLRnV 58 (291)
+...|..|....|-. +..- .....+|-+|.-||-+.|..|-+
T Consensus 3 ~~~~C~~C~tt~Tp~--WR~g--p~G~~LCNaCGl~~k~~~~~RP~ 44 (46)
T 1gnf_A 3 EARECVNCGATATPL--WRRD--RTGHYLCNACGLYHKMNGQNRPL 44 (46)
T ss_dssp CSCCCTTTCCCCCSS--CBCC--TTCCCBCSHHHHHHHHTCSCCCC
T ss_pred CCCCCCCcCCCCCCc--CccC--CCCCccchHHHHHHHHcCCCCCC
Confidence 456899999887752 1111 12238999999999999998743
No 8
>3qt1_I DNA-directed RNA polymerases I, II, and III subun; transferase-transcription complex, RNA polymerase II, transc elongation; 4.30A {Saccharomyces cerevisiae}
Probab=44.37 E-value=4.7 Score=33.09 Aligned_cols=38 Identities=29% Similarity=0.713 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCceeeeecCCCCCCC---ccccccccccccc
Q 043617 14 SPNCPRCGSSNTKFCYYNNYSLTQP---RYFCKGCRRYWTK 51 (291)
Q Consensus 14 ~~~CPRC~S~nTKFcYyNNy~~~QP---R~fCk~CrRYWT~ 51 (291)
..+||+|...+..|=..+-.+...| -|.|..|.--|+.
T Consensus 92 ~~~CpkCg~~~a~f~q~Q~RsaDE~mT~fy~C~~C~~~w~e 132 (133)
T 3qt1_I 92 DRECPKCHSRENVFFQLQIRSADEPMTTFYKCVNCGHRWKE 132 (133)
T ss_dssp -----------------------------------------
T ss_pred cCCCCCCCCceEEEEEEeeecCCCCCcEEEEcCCCCCEeCc
Confidence 4689999977654333333322222 2889999999975
No 9
>3cw1_L U1 small nuclear ribonucleoprotein C; PRE-mRNA splicing, spliceosome, RNA-binding domain, SM fold, finger, RNA recognition motif, 5' splice site; 5.49A {Homo sapiens} PDB: 1uw2_A 2vrd_A
Probab=38.77 E-value=9.1 Score=29.37 Aligned_cols=17 Identities=29% Similarity=0.991 Sum_probs=15.2
Q ss_pred CcccccccccccccCCc
Q 043617 38 PRYFCKGCRRYWTKGGS 54 (291)
Q Consensus 38 PR~fCk~CrRYWT~GGt 54 (291)
|||||.-|..|.|+.-.
T Consensus 2 PkYyCdYCd~~lt~Ds~ 18 (77)
T 3cw1_L 2 PKFYCDYCDTYLTHDSP 18 (77)
T ss_pred CCcccccCCceecCCCH
Confidence 89999999999988754
No 10
>2kae_A GATA-type transcription factor; zinc finger, GATA-type, DNA; NMR {Caenorhabditis elegans}
Probab=37.03 E-value=2.8 Score=31.64 Aligned_cols=50 Identities=22% Similarity=0.301 Sum_probs=32.9
Q ss_pred CCCCCCCCCCCCCCCCceeeeecCCCCCCCcccccccccccccCCccccccCC
Q 043617 9 PNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVG 61 (291)
Q Consensus 9 ~~~e~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT~GGtLRnVPVG 61 (291)
+..+....|-.|.+.+|- .+-.-..... .+|-+|.=||.+.|+.|-+..-
T Consensus 3 ~~~~~~~~C~nC~tt~Tp--~WRrg~~~~g-~LCNACGl~~~~~~~~RP~~~~ 52 (71)
T 2kae_A 3 HMNKKSFQCSNCSVTETI--RWRNIRSKEG-IQCNACFIYQRKYNKTRPVTAV 52 (71)
T ss_dssp -----CCCCSSSCCSCCS--SCCCCSSSSC-CCSSHHHHHHHHHHSCCCTHHH
T ss_pred CCCCCCCcCCccCCCCCC--ccccCCCCCC-ccchHHHHHHHHhCCCCCcccc
Confidence 345677899999999875 2222111222 8999999999999998876543
No 11
>2k2d_A Ring finger and CHY zinc finger domain- containing protein 1; zinc-binding protein, cytoplasm, metal-binding, nucleus, metal binding protein; NMR {Homo sapiens}
Probab=36.44 E-value=14 Score=27.87 Aligned_cols=13 Identities=38% Similarity=0.621 Sum_probs=11.4
Q ss_pred CCCCCCCCCCCce
Q 043617 14 SPNCPRCGSSNTK 26 (291)
Q Consensus 14 ~~~CPRC~S~nTK 26 (291)
+.+||.|.|.||+
T Consensus 55 g~kC~~C~SyNTr 67 (79)
T 2k2d_A 55 GMKCKICESYNTA 67 (79)
T ss_dssp CCCCTTTSCCCEE
T ss_pred cccCcCCCCcCeE
Confidence 4589999999998
No 12
>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1
Probab=34.46 E-value=24 Score=23.51 Aligned_cols=34 Identities=18% Similarity=0.452 Sum_probs=22.4
Q ss_pred CCCCCCCCCCCCCceeeeecCCCCCCCccccccccccccc
Q 043617 12 EISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTK 51 (291)
Q Consensus 12 e~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT~ 51 (291)
+..+.||.|.+.+-.| ...+-...|+.|+.-+..
T Consensus 3 ~~~~~CP~C~~~~l~~------d~~~gelvC~~CG~v~~e 36 (50)
T 1pft_A 3 NKQKVCPACESAELIY------DPERGEIVCAKCGYVIEE 36 (50)
T ss_dssp SSCCSCTTTSCCCEEE------ETTTTEEEESSSCCBCCC
T ss_pred CccEeCcCCCCcceEE------cCCCCeEECcccCCcccc
Confidence 3457899998854333 223456899999776543
No 13
>1xre_A SODA-2, superoxide dismutase; spine, oxidoreductase; 1.80A {Bacillus anthracis}
Probab=33.89 E-value=17 Score=32.12 Aligned_cols=34 Identities=24% Similarity=0.371 Sum_probs=14.7
Q ss_pred cccccCCccccCcccccCCCCCCcc----cccccchhhhhhhh
Q 043617 206 SVQKHGHHVQDGIQSNQVLPPLPSE----EILWLNSQMMMNQS 244 (291)
Q Consensus 206 ~~~~h~~h~~~~~~~~~~Lpplpge----e~lW~~s~mm~nh~ 244 (291)
+.|.||+|.+. |.|||||=. |-.=|.-.|-.||+
T Consensus 2 ~~~~~~~~~~~-----~~Lp~LpY~~~aLeP~iS~~tm~~Hh~ 39 (217)
T 1xre_A 2 SSHHHHHHMSS-----FQLPKLSYDYDELEPYIDSNTLSIHHG 39 (217)
T ss_dssp ----------C-----CCCCCCSSCTTTTTTTSCHHHHHHHHH
T ss_pred CCccccccCCC-----CcCCCCCCCcccCcccCCHHHHHHHHH
Confidence 34566666554 779999976 43444444555554
No 14
>4ffk_A Superoxide dismutase; oxidoreductase, superoxide acceptor; 1.76A {Acidilobus saccharovorans}
Probab=32.75 E-value=21 Score=31.64 Aligned_cols=37 Identities=24% Similarity=0.311 Sum_probs=18.2
Q ss_pred ccccCCccccCcccccCCCCCCcc----cccccchhhhhhh
Q 043617 207 VQKHGHHVQDGIQSNQVLPPLPSE----EILWLNSQMMMNQ 243 (291)
Q Consensus 207 ~~~h~~h~~~~~~~~~~Lpplpge----e~lW~~s~mm~nh 243 (291)
.|.||+|.+--....|.|||||=. |-.=|.-.|-.||
T Consensus 4 ~~~~~~~~~~~~~~~~~Lp~LpY~y~aLeP~Is~~tm~~Hh 44 (223)
T 4ffk_A 4 SHHHHHHGSVVSLKRYELPPLPYNYDALEPIISAETLRYHH 44 (223)
T ss_dssp --------CCCCCCCCCCCCCSSCTTTTTTTSCHHHHHHHH
T ss_pred ccccccccceeeccceecCCCCCCcccccCcCCHHHHHHHH
Confidence 455666666555677999999976 4333333354554
No 15
>4eba_G RNA15, KLLA0F09383P; HAT domain, heat repeat, monkeytail, CLP1, PCF11, structural RNA binding protein complex; 3.30A {Kluyveromyces lactis}
Probab=32.28 E-value=12 Score=32.35 Aligned_cols=25 Identities=28% Similarity=0.429 Sum_probs=5.1
Q ss_pred cccccCCcccc------CcccccCCCCCCcc
Q 043617 206 SVQKHGHHVQD------GIQSNQVLPPLPSE 230 (291)
Q Consensus 206 ~~~~h~~h~~~------~~~~~~~Lpplpge 230 (291)
+.|.||+|.+. |.+....|||||-.
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~lp~LP~G 33 (174)
T 4eba_G 3 SSHHHHHHSSGLVPRGSHMVEDVKFPWLPVG 33 (174)
T ss_dssp -------------------------CCCCCC
T ss_pred ccccccccccCcCcCcchhhhcccCCCCCCC
Confidence 45666666544 45567779999976
No 16
>2gmg_A Hypothetical protein PF0610; winged-helix like protein with metal binding site, structura genomics, PSI, protein structure initiative; NMR {Pyrococcus furiosus} SCOP: a.4.5.82
Probab=31.77 E-value=29 Score=28.05 Aligned_cols=15 Identities=33% Similarity=0.835 Sum_probs=10.0
Q ss_pred CCCCCCCCCCCCCce
Q 043617 12 EISPNCPRCGSSNTK 26 (291)
Q Consensus 12 e~~~~CPRC~S~nTK 26 (291)
.....||+|.|.+..
T Consensus 82 ~kPsrCP~CkSe~Ie 96 (105)
T 2gmg_A 82 NIPSRCPKCKSEWIE 96 (105)
T ss_dssp SCCSSCSSSCCCCBC
T ss_pred CCCCCCcCCCCCccC
Confidence 344578888877655
No 17
>4gat_A Nitrogen regulatory protein AREA; DNA binding protein, transcription factor, zinc binding domain, complex (transcription regulation/DNA); HET: DNA; NMR {Emericella nidulans} SCOP: g.39.1.1 PDB: 5gat_A* 6gat_A* 7gat_A*
Probab=31.09 E-value=30 Score=25.57 Aligned_cols=46 Identities=15% Similarity=0.445 Sum_probs=32.5
Q ss_pred CCCCCCCCCCCCCCceeeeecCCCCCCCcccccccccccccCCccccccC
Q 043617 11 VEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPV 60 (291)
Q Consensus 11 ~e~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT~GGtLRnVPV 60 (291)
......|-.|.+.+|-- .-. .. .-..+|-+|.-||-..|.+|-+..
T Consensus 6 ~~~~~~C~~C~t~~Tp~--WR~-gp-~G~~LCNaCGl~~~~~~~~RP~~~ 51 (66)
T 4gat_A 6 QNGPTTCTNCFTQTTPL--WRR-NP-EGQPLCNACGLFLKLHGVVRPLSL 51 (66)
T ss_dssp SSSSCCCTTTCCCCCSS--CEE-ET-TTEEECHHHHHHHHHHCSCCCGGG
T ss_pred CCCCCCCCCCCCCCCCc--CCc-CC-CCCCccHHHHHHHHHcCCCCchhh
Confidence 45567999999987751 111 11 222899999999999999876644
No 18
>2zjr_Z 50S ribosomal protein L32; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: g.41.8.5 PDB: 1j5a_M* 1jzy_M* 1jzz_M* 1k01_M* 1nkw_Z 1ond_Z* 1sm1_Z* 1yl3_5 2b66_5 2b9n_5 2b9p_5 2zjp_Y* 2zjq_Z 1jzx_M 3cf5_Y* 3dll_Y* 3pio_Z* 3pip_Z* 1nwy_Z* 1nwx_Z* ...
Probab=29.48 E-value=26 Score=25.39 Aligned_cols=29 Identities=24% Similarity=0.620 Sum_probs=22.0
Q ss_pred CCCCCCCCCCCCCCCCCceeeeecCCCCCCCcccccccccc
Q 043617 8 KPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRY 48 (291)
Q Consensus 8 k~~~e~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRY 48 (291)
+...-....||.|... + .|.+.|..|.-|
T Consensus 24 kl~~p~l~~c~~cG~~--~----------~pH~vc~~CG~Y 52 (60)
T 2zjr_Z 24 ALTAPNLTECPQCHGK--K----------LSHHICPNCGYY 52 (60)
T ss_dssp CCCCCCCEECTTTCCE--E----------CTTBCCTTTCBS
T ss_pred cccCCCceECCCCCCE--e----------CCceEcCCCCcC
Confidence 4444455689999875 4 899999999966
No 19
>1wd2_A Ariadne-1 protein homolog; ring, IBR, triad, zinc finger, ligase; NMR {Homo sapiens} SCOP: g.44.1.1
Probab=24.93 E-value=67 Score=22.74 Aligned_cols=42 Identities=26% Similarity=0.457 Sum_probs=29.8
Q ss_pred CCCCCCCCCCCCceeeeecCCCCCC---CcccccccccccccCCc
Q 043617 13 ISPNCPRCGSSNTKFCYYNNYSLTQ---PRYFCKGCRRYWTKGGS 54 (291)
Q Consensus 13 ~~~~CPRC~S~nTKFcYyNNy~~~Q---PR~fCk~CrRYWT~GGt 54 (291)
...+||.|...-.|----|.-.-.. --+||-.|.+-|...|.
T Consensus 5 ~~k~CP~C~~~Iek~~GCnhmtC~~~~C~~~FCw~C~~~~~~~~~ 49 (60)
T 1wd2_A 5 NTKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPHGS 49 (60)
T ss_dssp CCCCCTTTCCCCSSCCSCCSSSCCSSGGGSCCSSSSCSCSGGGGT
T ss_pred cceECcCCCCeeEeCCCCCcEEECCCCcCCEEeeCcCCCcccCCC
Confidence 4579999999988865544333333 35899999999987664
No 20
>3njr_A Precorrin-6Y methylase; methyltransferase, decarboxylase, transferase; HET: SAH PG4; 2.70A {Rhodobacter capsulatus}
Probab=23.84 E-value=21 Score=28.72 Aligned_cols=25 Identities=20% Similarity=0.388 Sum_probs=5.0
Q ss_pred cccccCCccccCcccccCCCCCCcc
Q 043617 206 SVQKHGHHVQDGIQSNQVLPPLPSE 230 (291)
Q Consensus 206 ~~~~h~~h~~~~~~~~~~Lpplpge 230 (291)
+.|.||+|..+-..+-..||..||-
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~g~ 27 (204)
T 3njr_A 3 SSHHHHHHSSGLVPRGSHMSQVPGR 27 (204)
T ss_dssp ------------------CCSSSCC
T ss_pred ccccccccccCcccCCCCCCCCCCC
Confidence 5566777766655566667777764
No 21
>2pk7_A Uncharacterized protein; NESG, PLR1, putative tetraacyldisaccharide-1-P 4-kinase, Q4K structural genomics, PSI-2; 2.20A {Pseudomonas fluorescens} SCOP: b.171.1.1
Probab=23.79 E-value=34 Score=25.30 Aligned_cols=30 Identities=20% Similarity=0.334 Sum_probs=20.2
Q ss_pred CCCCCCCCCCCCceeeeecCCCCCCCccccccccccc
Q 043617 13 ISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYW 49 (291)
Q Consensus 13 ~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYW 49 (291)
+-+.||.|...-+ | ........|++|++-+
T Consensus 7 eiL~CP~ck~~L~---~----~~~~~~LiC~~cg~~Y 36 (69)
T 2pk7_A 7 DILACPICKGPLK---L----SADKTELISKGAGLAY 36 (69)
T ss_dssp GTCCCTTTCCCCE---E----CTTSSEEEETTTTEEE
T ss_pred hheeCCCCCCcCe---E----eCCCCEEEcCCCCcEe
Confidence 4579999997532 2 2335668899997654
No 22
>2akl_A PHNA-like protein PA0128; two domains, Zn binding protein, beta-strand protein, structural genomics, PSI; NMR {Pseudomonas aeruginosa PAO1} SCOP: b.34.11.2 g.41.3.5
Probab=23.67 E-value=50 Score=28.03 Aligned_cols=34 Identities=26% Similarity=0.646 Sum_probs=26.2
Q ss_pred CCCCCCCCCCCCceeeeecCCCCCCCcccccccccccccCCc
Q 043617 13 ISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGS 54 (291)
Q Consensus 13 ~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT~GGt 54 (291)
...+||.|.|..|-. .+.-+.|..|.-=|+....
T Consensus 26 ~lP~CP~C~seytYe--------Dg~l~vCPeC~hEW~~~~~ 59 (138)
T 2akl_A 26 TLPPCPQCNSEYTYE--------DGALLVCPECAHEWSPNEA 59 (138)
T ss_dssp CSCCCTTTCCCCCEE--------CSSSEEETTTTEEECTTTT
T ss_pred cCCCCCCCCCcceEe--------cCCeEECCccccccCCccc
Confidence 457999999987732 2556999999999985553
No 23
>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, DNA-binding, DNA- directed RNA polymerase, isopeptide bond, magnesium; 3.80A {Saccharomyces cerevisiae}
Probab=22.77 E-value=55 Score=29.55 Aligned_cols=39 Identities=23% Similarity=0.502 Sum_probs=25.2
Q ss_pred CCCCCCCCCCCCCCCCCceeeeecCCCCCCCcccccccccccc
Q 043617 8 KPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWT 50 (291)
Q Consensus 8 k~~~e~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT 50 (291)
++.-.....||.|.+.++.+-+ ...+--..|.+|..-..
T Consensus 15 ~~~~~~~~~Cp~Cg~~~~~iv~----D~~~G~~vC~~CG~Vl~ 53 (345)
T 3k7a_M 15 GPNLNIVLTCPECKVYPPKIVE----RFSEGDVVCALCGLVLS 53 (345)
T ss_dssp --CCCCCCCCSTTCCSCCCCCC----CSSSCSCCCSSSCCCCC
T ss_pred CccccCCCcCcCCCCCCCceEE----ECCCCCEecCCCCeEcc
Confidence 5666667799999997543322 22466789999976553
No 24
>2kdx_A HYPA, hydrogenase/urease nickel incorporation protein HYPA; metallochaperone, metal-binding, metal- binding protein; NMR {Helicobacter pylori}
Probab=22.05 E-value=51 Score=25.51 Aligned_cols=12 Identities=33% Similarity=0.739 Sum_probs=7.6
Q ss_pred CCCCCCCCCcee
Q 043617 16 NCPRCGSSNTKF 27 (291)
Q Consensus 16 ~CPRC~S~nTKF 27 (291)
.||.|.+.+.+|
T Consensus 92 ~CP~Cgs~~~~i 103 (119)
T 2kdx_A 92 VCEKCHSKNVII 103 (119)
T ss_dssp CCSSSSSCCCEE
T ss_pred cCccccCCCcEE
Confidence 566666666554
No 25
>1x4u_A Zinc finger, FYVE domain containing 27 isoform B; phosphoinositide binding, zinc binding, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=21.76 E-value=83 Score=23.06 Aligned_cols=46 Identities=22% Similarity=0.365 Sum_probs=29.2
Q ss_pred cccCCCCCCCCCCCCCCCCCCCceeeeecCCCCCCCcccccccccccccCCccccccC
Q 043617 3 RVWNHKPNVEISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPV 60 (291)
Q Consensus 3 ~~w~~k~~~e~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT~GGtLRnVPV 60 (291)
..| -+.++...|..|... | ++..-||-|+.|.+-.=..=+-..+|+
T Consensus 6 ~~W---~pd~~~~~C~~C~~~---F------~~~~RrHHCR~CG~vfC~~Cs~~~~~l 51 (84)
T 1x4u_A 6 SGR---YPTNNFGNCTGCSAT---F------SVLKKRRSCSNCGNSFCSRCCSFKVPK 51 (84)
T ss_dssp CCS---CSCCCCSSCSSSCCC---C------CSSSCCEECSSSCCEECTTTSCEEECS
T ss_pred Ccc---ccCCCCCcCcCcCCc---c------ccchhhhhhcCCCcEEChhhcCCceec
Confidence 457 234455689988875 3 334788999999887655444333443
No 26
>4hc9_A Trans-acting T-cell-specific transcription factor; zinc finger, GATA transcription factor, DNA bridging, transc DNA complex; HET: DNA; 1.60A {Homo sapiens} PDB: 4hc7_A* 4hca_A* 3dfx_A* 3dfv_D* 2gat_A* 3gat_A* 1gat_A* 1gau_A* 1gnf_A 1y0j_A 2l6y_A 2l6z_A
Probab=21.69 E-value=44 Score=26.64 Aligned_cols=45 Identities=16% Similarity=0.459 Sum_probs=33.0
Q ss_pred CCCCCCCCCCCCCceeeeecCCCCCCCcccccccccccccCCccccccC
Q 043617 12 EISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPV 60 (291)
Q Consensus 12 e~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT~GGtLRnVPV 60 (291)
.....|-.|....|-- .- .-...+.+|-+|.-||...|..|-+-+
T Consensus 57 ~~~~~C~~C~t~~tp~--WR--r~~~g~~lCNaCgl~~~~~~~~rp~~~ 101 (115)
T 4hc9_A 57 RAGTSCANCQTTTTTL--WR--RNANGDPVCNACGLYYKLHNINRPLTM 101 (115)
T ss_dssp CTTCCCTTTCCSCCSS--CE--ECTTSCEECHHHHHHHHHHSSCCCGGG
T ss_pred cccccCCCcCCCCcce--eE--ECCCCCCcchHHHHHHHHhCCCCCccc
Confidence 4567999999887641 11 112336899999999999999887765
No 27
>2jny_A Uncharacterized BCR; structure, CGR1, NESG, structural genomics, PSI-2, protein structure initiative; NMR {Corynebacterium glutamicum} SCOP: b.171.1.1
Probab=21.61 E-value=31 Score=25.48 Aligned_cols=31 Identities=10% Similarity=0.106 Sum_probs=20.6
Q ss_pred CCCCCCCCCCCCCceeeeecCCCCCCCccccccccccc
Q 043617 12 EISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYW 49 (291)
Q Consensus 12 e~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYW 49 (291)
-+-+.||.|... .-| ........|+.|++-+
T Consensus 8 LeiL~CP~ck~~---L~~----~~~~g~LvC~~c~~~Y 38 (67)
T 2jny_A 8 LEVLACPKDKGP---LRY----LESEQLLVNERLNLAY 38 (67)
T ss_dssp TCCCBCTTTCCB---CEE----ETTTTEEEETTTTEEE
T ss_pred HHHhCCCCCCCc---CeE----eCCCCEEEcCCCCccc
Confidence 345799999984 222 2235568899998655
No 28
>1p91_A Ribosomal RNA large subunit methyltransferase A; RLMA, RRMA, 23S rRNA, NESG, structural genomics, PSI, protein structure initiative; HET: SAM; 2.80A {Escherichia coli} SCOP: c.66.1.33
Probab=20.20 E-value=57 Score=26.48 Aligned_cols=39 Identities=23% Similarity=0.530 Sum_probs=25.3
Q ss_pred CCCCCCCCCCceeeeecCCCCCCCccccccccccc-ccCCccccccCCC
Q 043617 15 PNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYW-TKGGSLRNVPVGG 62 (291)
Q Consensus 15 ~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYW-T~GGtLRnVPVGG 62 (291)
+.||.|.+..+. ...-+.|..|..|- +++|-+.-+++..
T Consensus 3 ~~Cp~C~~~~~~---------~~~~~~C~~~~~~~~~~~Gy~~~~~~~~ 42 (269)
T 1p91_A 3 FSCPLCHQPLSR---------EKNSYICPQRHQFDMAKEGYVNLLPVQH 42 (269)
T ss_dssp BBCTTTCCBCEE---------ETTEEECTTCCEEEBCTTSCEECSCSSS
T ss_pred ccCCCCCcccee---------CCCEEECCCCCcCCcCCCEEEEeecccc
Confidence 579999886544 12346898888774 4677665555543
Done!