Query 020987
Match_columns 319
No_of_seqs 184 out of 750
Neff 3.4
Searched_HMMs 29240
Date Mon Mar 25 11:05:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020987.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/020987hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3dfx_A Trans-acting T-cell-spe 99.7 1.3E-17 4.6E-22 126.3 5.7 59 175-240 3-61 (63)
2 4gat_A Nitrogen regulatory pro 99.6 1.8E-16 6.2E-21 120.9 4.4 56 176-238 6-61 (66)
3 2kae_A GATA-type transcription 99.5 2.2E-15 7.4E-20 116.6 1.7 41 176-216 5-45 (71)
4 2vut_I AREA, nitrogen regulato 99.5 7.2E-15 2.5E-19 103.8 2.7 36 180-216 2-37 (43)
5 1gnf_A Transcription factor GA 99.5 1.3E-14 4.3E-19 104.0 3.6 38 178-216 3-40 (46)
6 4hc9_A Trans-acting T-cell-spe 99.5 3.1E-14 1.1E-18 118.0 5.1 57 176-239 56-112 (115)
7 4hc9_A Trans-acting T-cell-spe 99.1 2.1E-11 7.1E-16 101.1 4.0 37 178-215 4-40 (115)
8 1dl6_A Transcription factor II 66.6 2.6 8.9E-05 30.6 1.8 32 177-211 9-40 (58)
9 3cw2_K Translation initiation 63.5 2.9 9.8E-05 35.6 1.8 30 180-210 104-133 (139)
10 2d74_B Translation initiation 60.7 2.9 0.0001 35.9 1.3 29 180-209 105-133 (148)
11 1nee_A EIF-2-beta, probable tr 55.6 3 0.0001 35.4 0.6 29 180-209 103-131 (138)
12 3k7a_M Transcription initiatio 55.6 4.1 0.00014 38.1 1.5 31 178-209 20-50 (345)
13 1k81_A EIF-2-beta, probable tr 54.8 1.5 5E-05 29.4 -1.2 28 181-209 2-29 (36)
14 2g2k_A EIF-5, eukaryotic trans 50.4 2.8 9.7E-05 36.9 -0.4 31 180-210 97-128 (170)
15 2e9h_A EIF-5, eukaryotic trans 45.4 3.8 0.00013 35.6 -0.4 30 180-209 104-134 (157)
16 1pft_A TFIIB, PFTFIIBN; N-term 41.8 5.7 0.0002 27.3 0.1 30 179-211 5-34 (50)
17 2b0o_E UPLC1; arfgap, structur 41.7 8.8 0.0003 34.1 1.3 29 179-209 42-70 (301)
18 2owa_A Arfgap-like finger doma 41.6 9.1 0.00031 32.4 1.3 32 179-212 36-67 (138)
19 3cng_A Nudix hydrolase; struct 37.5 9.8 0.00034 31.4 0.9 32 178-209 2-33 (189)
20 2qiy_C Ubiquitin carboxyl-term 36.4 11 0.00036 27.4 0.8 13 41-53 15-28 (48)
21 2iqj_A Stromal membrane-associ 35.3 19 0.00064 30.2 2.3 33 179-213 27-59 (134)
22 4bbr_M Transcription initiatio 35.1 7.1 0.00024 36.8 -0.4 30 179-209 21-50 (345)
23 2crr_A Stromal membrane-associ 33.7 23 0.00079 29.9 2.6 32 180-213 30-61 (141)
24 2olm_A Nucleoporin-like protei 33.7 15 0.00052 30.9 1.5 31 179-211 25-55 (140)
25 2crw_A ARF GAP 3, ADP-ribosyla 33.3 16 0.00054 31.4 1.6 33 179-213 29-61 (149)
26 3k1f_M Transcription initiatio 30.8 11 0.00037 34.1 0.1 33 177-210 19-51 (197)
27 1pqv_S STP-alpha, transcriptio 27.5 12 0.0004 35.0 -0.3 35 178-212 267-307 (309)
28 2p57_A GTPase-activating prote 27.1 24 0.00083 30.2 1.6 33 179-213 37-69 (144)
29 3dwd_A ADP-ribosylation factor 26.9 31 0.0011 29.7 2.3 33 179-213 38-70 (147)
30 3lju_X ARF-GAP with dual PH do 21.6 31 0.0011 32.7 1.4 28 180-209 35-62 (386)
31 1qyp_A RNA polymerase II; tran 21.4 19 0.00065 25.4 -0.1 33 179-211 15-53 (57)
32 3po3_S Transcription elongatio 21.3 16 0.00055 31.7 -0.6 35 178-212 136-176 (178)
No 1
>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=99.70 E-value=1.3e-17 Score=126.31 Aligned_cols=59 Identities=31% Similarity=0.594 Sum_probs=48.1
Q ss_pred CCCCCcccccCCCCCCCccccCCCCCcccchHHHHHHHHhhhhhHHHhhcCcccccCCCccccccc
Q 020987 175 SNNTVRICSDCNTTTTPLWRSGPRGPKSLCNACGIRQRKARKAMQAAAESGTTTAKDNSSFSKIKL 240 (319)
Q Consensus 175 ~~g~~~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL~~kk~~k~~~aa~~ng~~~kke~~qstKrK~ 240 (319)
+......|++|++++||+||+||+|+ +|||||||||++.+. .++..+.+++++++++|+
T Consensus 3 ~~~~~~~C~~C~tt~Tp~WR~gp~G~-~LCNACGl~~~~~~~------~RP~~~~~~~i~~R~Rk~ 61 (63)
T 3dfx_A 3 ARRAGTSCANCQTTTTTLWRRNANGD-PVCNACGLYYKLHNI------NRPLTMKKEGIQTRNRKM 61 (63)
T ss_dssp CCCTTCCCTTTCCSCCSSCCCCTTSC-CCCHHHHHHHHHHSS------CCCGGGCCSSCCCCC---
T ss_pred CCCCCCcCCCcCCCCCCccCCCCCCC-chhhHHHHHHHHcCC------CCCcCcCCCccccccCCC
Confidence 45678899999999999999999996 999999999988654 366778888888776665
No 2
>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=99.62 E-value=1.8e-16 Score=120.92 Aligned_cols=56 Identities=34% Similarity=0.625 Sum_probs=45.3
Q ss_pred CCCCcccccCCCCCCCccccCCCCCcccchHHHHHHHHhhhhhHHHhhcCcccccCCCccccc
Q 020987 176 NNTVRICSDCNTTTTPLWRSGPRGPKSLCNACGIRQRKARKAMQAAAESGTTTAKDNSSFSKI 238 (319)
Q Consensus 176 ~g~~~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL~~kk~~k~~~aa~~ng~~~kke~~qstKr 238 (319)
.+..+.|++|++++||+||+||+|. +|||||||||++.... ++..++++.|+.+++
T Consensus 6 ~~~~~~C~~C~t~~Tp~WR~gp~G~-~LCNaCGl~~~~~~~~------RP~~~k~~~ik~R~R 61 (66)
T 4gat_A 6 QNGPTTCTNCFTQTTPLWRRNPEGQ-PLCNACGLFLKLHGVV------RPLSLKTDVIKKRNR 61 (66)
T ss_dssp SSSSCCCTTTCCCCCSSCEEETTTE-EECHHHHHHHHHHCSC------CCGGGCCSCCCCCCC
T ss_pred CCCCCCCCCCCCCCCCcCCcCCCCC-CccHHHHHHHHHcCCC------Cchhhcccccccccc
Confidence 4678999999999999999999995 9999999999876543 566776666654443
No 3
>2kae_A GATA-type transcription factor; zinc finger, GATA-type, DNA; NMR {Caenorhabditis elegans}
Probab=99.51 E-value=2.2e-15 Score=116.56 Aligned_cols=41 Identities=41% Similarity=0.596 Sum_probs=32.1
Q ss_pred CCCCcccccCCCCCCCccccCCCCCcccchHHHHHHHHhhh
Q 020987 176 NNTVRICSDCNTTTTPLWRSGPRGPKSLCNACGIRQRKARK 216 (319)
Q Consensus 176 ~g~~~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL~~kk~~k 216 (319)
......|+||+|++||+||+|+.+..+|||||||||++...
T Consensus 5 ~~~~~~C~nC~tt~Tp~WRrg~~~~g~LCNACGl~~~~~~~ 45 (71)
T 2kae_A 5 NKKSFQCSNCSVTETIRWRNIRSKEGIQCNACFIYQRKYNK 45 (71)
T ss_dssp ---CCCCSSSCCSCCSSCCCCSSSSCCCSSHHHHHHHHHHS
T ss_pred CCCCCcCCccCCCCCCccccCCCCCCccchHHHHHHHHhCC
Confidence 45678999999999999999543333899999999987654
No 4
>2vut_I AREA, nitrogen regulatory protein AREA; transcription regulation, protein-protein interactions, metal-binding, nitrate assimilation; HET: NAD; 2.3A {Emericella nidulans} SCOP: g.39.1.1 PDB: 2vus_I* 2vuu_I*
Probab=99.49 E-value=7.2e-15 Score=103.83 Aligned_cols=36 Identities=47% Similarity=1.024 Sum_probs=32.8
Q ss_pred cccccCCCCCCCccccCCCCCcccchHHHHHHHHhhh
Q 020987 180 RICSDCNTTTTPLWRSGPRGPKSLCNACGIRQRKARK 216 (319)
Q Consensus 180 ~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL~~kk~~k 216 (319)
+.|++|++++||+||+||+|. +|||||||||++.+.
T Consensus 2 ~~C~~C~tt~Tp~WR~gp~G~-~LCNaCGl~~k~~~~ 37 (43)
T 2vut_I 2 TTCTNCFTQTTPLWRRNPEGQ-PLCNACGLFLKLHGV 37 (43)
T ss_dssp CCCSSSCCCCCSCCEECTTSC-EECHHHHHHHHHHSS
T ss_pred CcCCccCCCCCCccccCCCCC-cccHHHHHHHHHhCC
Confidence 579999999999999999996 999999999987654
No 5
>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=99.48 E-value=1.3e-14 Score=103.98 Aligned_cols=38 Identities=42% Similarity=0.957 Sum_probs=34.0
Q ss_pred CCcccccCCCCCCCccccCCCCCcccchHHHHHHHHhhh
Q 020987 178 TVRICSDCNTTTTPLWRSGPRGPKSLCNACGIRQRKARK 216 (319)
Q Consensus 178 ~~~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL~~kk~~k 216 (319)
..+.|++|++++||+||+||+|. +|||||||||++...
T Consensus 3 ~~~~C~~C~tt~Tp~WR~gp~G~-~LCNaCGl~~k~~~~ 40 (46)
T 1gnf_A 3 EARECVNCGATATPLWRRDRTGH-YLCNACGLYHKMNGQ 40 (46)
T ss_dssp CSCCCTTTCCCCCSSCBCCTTCC-CBCSHHHHHHHHTCS
T ss_pred CCCCCCCcCCCCCCcCccCCCCC-ccchHHHHHHHHcCC
Confidence 46789999999999999999995 999999999987543
No 6
>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=99.46 E-value=3.1e-14 Score=118.03 Aligned_cols=57 Identities=32% Similarity=0.592 Sum_probs=47.1
Q ss_pred CCCCcccccCCCCCCCccccCCCCCcccchHHHHHHHHhhhhhHHHhhcCcccccCCCcccccc
Q 020987 176 NNTVRICSDCNTTTTPLWRSGPRGPKSLCNACGIRQRKARKAMQAAAESGTTTAKDNSSFSKIK 239 (319)
Q Consensus 176 ~g~~~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL~~kk~~k~~~aa~~ng~~~kke~~qstKrK 239 (319)
......|++|+|+.||+||+||+| ++|||||||||++.... ++..++++.|+++++|
T Consensus 56 ~~~~~~C~~C~t~~tp~WRr~~~g-~~lCNaCgl~~~~~~~~------rp~~~~~~~i~~r~r~ 112 (115)
T 4hc9_A 56 RRAGTSCANCQTTTTTLWRRNANG-DPVCNACGLYYKLHNIN------RPLTMKKEGIQTRNRK 112 (115)
T ss_dssp CCTTCCCTTTCCSCCSSCEECTTS-CEECHHHHHHHHHHSSC------CCGGGCCSSCCCCC--
T ss_pred ccccccCCCcCCCCcceeEECCCC-CCcchHHHHHHHHhCCC------CCccccccchhhcccc
Confidence 456789999999999999999999 89999999999876544 6688888888766554
No 7
>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=99.14 E-value=2.1e-11 Score=101.13 Aligned_cols=37 Identities=43% Similarity=0.952 Sum_probs=32.3
Q ss_pred CCcccccCCCCCCCccccCCCCCcccchHHHHHHHHhh
Q 020987 178 TVRICSDCNTTTTPLWRSGPRGPKSLCNACGIRQRKAR 215 (319)
Q Consensus 178 ~~~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL~~kk~~ 215 (319)
..+.|+||++++||+||+|++| .+|||||||||+...
T Consensus 4 ~~~~C~~Cg~~~Tp~WRr~~~g-~~lCnaCgl~~Kl~G 40 (115)
T 4hc9_A 4 MGRECVNCGATSTPLWRRDGTG-HYLCNACGLYHKMNG 40 (115)
T ss_dssp --CCCTTTCCSCCSSCEECTTS-CEECHHHHHHHHHHS
T ss_pred CCCCCCCCCCccCCcceECCCC-CCcCcchhhhhhhcc
Confidence 5789999999999999999999 799999999997543
No 8
>1dl6_A Transcription factor II B (TFIIB); zinc ribbon, gene regulation; NMR {Homo sapiens} SCOP: g.41.3.1 PDB: 1rly_A 1ro4_A
Probab=66.60 E-value=2.6 Score=30.60 Aligned_cols=32 Identities=19% Similarity=0.394 Sum_probs=22.9
Q ss_pred CCCcccccCCCCCCCccccCCCCCcccchHHHHHH
Q 020987 177 NTVRICSDCNTTTTPLWRSGPRGPKSLCNACGIRQ 211 (319)
Q Consensus 177 g~~~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL~~ 211 (319)
.....|.+|+.+. +-.....| ..+|..||+-+
T Consensus 9 l~~~~Cp~C~~~~--lv~D~~~g-e~vC~~CGlVl 40 (58)
T 1dl6_A 9 LPRVTCPNHPDAI--LVEDYRAG-DMICPECGLVV 40 (58)
T ss_dssp CSCCSBTTBSSSC--CEECSSSC-CEECTTTCCEE
T ss_pred cccccCcCCCCCc--eeEeCCCC-eEEeCCCCCEE
Confidence 3455799998755 44455567 68999999854
No 9
>3cw2_K Translation initiation factor 2 subunit beta; AIF2, intact AIF2, initiation factor 2 alpha subunit, initiation factor 2 beta subunit; 2.80A {Sulfolobus solfataricus} PDB: 2nxu_A 2qmu_C* 3v11_C*
Probab=63.48 E-value=2.9 Score=35.58 Aligned_cols=30 Identities=30% Similarity=0.517 Sum_probs=20.3
Q ss_pred cccccCCCCCCCccccCCCCCcccchHHHHH
Q 020987 180 RICSDCNTTTTPLWRSGPRGPKSLCNACGIR 210 (319)
Q Consensus 180 ~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL~ 210 (319)
-.|..|+...|-+-+.+..- -.-|+|||-.
T Consensus 104 VlC~~C~sPdT~l~k~~r~~-~l~C~ACGa~ 133 (139)
T 3cw2_K 104 VECSTCKSLDTILKKEKKSW-YIVCLACGAQ 133 (139)
T ss_dssp SSCCSSSSSCCCSCSSCSTT-TSSCCC----
T ss_pred eECCCCCCcCcEEEEeCCeE-EEEecCCCCC
Confidence 67999999999998865332 2359999963
No 10
>2d74_B Translation initiation factor 2 beta subunit; protein complex; 2.80A {Pyrococcus furiosus} PDB: 2dcu_B*
Probab=60.65 E-value=2.9 Score=35.93 Aligned_cols=29 Identities=28% Similarity=0.565 Sum_probs=22.6
Q ss_pred cccccCCCCCCCccccCCCCCcccchHHHH
Q 020987 180 RICSDCNTTTTPLWRSGPRGPKSLCNACGI 209 (319)
Q Consensus 180 ~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL 209 (319)
-.|..|+...|-+-+.+..- -.-|+|||-
T Consensus 105 VlC~~C~sPdT~L~k~~r~~-~l~C~ACGa 133 (148)
T 2d74_B 105 VICPVCGSPDTKIIKRDRFH-FLKCEACGA 133 (148)
T ss_dssp SSCSSSCCTTCCCCBSSSSB-CCCCSSSCC
T ss_pred EECCCCCCcCcEEEEeCCEE-EEEecCCCC
Confidence 57999999999998865322 235999996
No 11
>1nee_A EIF-2-beta, probable translation initiation factor 2 beta subunit; two domain protein, mixed alpha-beta structure; NMR {Methanothermobacterthermautotrophicus} SCOP: d.241.1.1 g.59.1.1
Probab=55.59 E-value=3 Score=35.38 Aligned_cols=29 Identities=38% Similarity=0.784 Sum_probs=22.4
Q ss_pred cccccCCCCCCCccccCCCCCcccchHHHH
Q 020987 180 RICSDCNTTTTPLWRSGPRGPKSLCNACGI 209 (319)
Q Consensus 180 ~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL 209 (319)
-.|..|+...|-+-+.+..- -.-|+|||-
T Consensus 103 VlC~~C~sPdT~l~k~~r~~-~l~C~ACGa 131 (138)
T 1nee_A 103 VICHECNRPDTRIIREGRIS-LLKCEACGA 131 (138)
T ss_dssp HHHTCCSSCSSCCEEETTTT-EEECSTTSC
T ss_pred EECCCCCCcCcEEEEcCCeE-EEEccCCCC
Confidence 57999999999998865322 234999985
No 12
>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, DNA-binding, DNA- directed RNA polymerase, isopeptide bond, magnesium; 3.80A {Saccharomyces cerevisiae}
Probab=55.56 E-value=4.1 Score=38.08 Aligned_cols=31 Identities=23% Similarity=0.639 Sum_probs=20.6
Q ss_pred CCcccccCCCCCCCccccCCCCCcccchHHHH
Q 020987 178 TVRICSDCNTTTTPLWRSGPRGPKSLCNACGI 209 (319)
Q Consensus 178 ~~~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL 209 (319)
....|.+|+...+-+-..-..| ..+|..||+
T Consensus 20 ~~~~Cp~Cg~~~~~iv~D~~~G-~~vC~~CG~ 50 (345)
T 3k7a_M 20 IVLTCPECKVYPPKIVERFSEG-DVVCALCGL 50 (345)
T ss_dssp CCCCCSTTCCSCCCCCCCSSSC-SCCCSSSCC
T ss_pred CCCcCcCCCCCCCceEEECCCC-CEecCCCCe
Confidence 3556999988643232344566 678999987
No 13
>1k81_A EIF-2-beta, probable translation initiation factor 2 beta subunit; zinc ribbon; NMR {Methanocaldococcus jannaschii} SCOP: g.59.1.1
Probab=54.83 E-value=1.5 Score=29.39 Aligned_cols=28 Identities=32% Similarity=0.725 Sum_probs=20.8
Q ss_pred ccccCCCCCCCccccCCCCCcccchHHHH
Q 020987 181 ICSDCNTTTTPLWRSGPRGPKSLCNACGI 209 (319)
Q Consensus 181 ~CsnC~Tt~TPlWRrGP~G~~~LCNACGL 209 (319)
.|..|+..+|-+=+++..- -.-|+|||-
T Consensus 2 lC~~C~~peT~l~~~~~~~-~l~C~aCG~ 29 (36)
T 1k81_A 2 ICRECGKPDTKIIKEGRVH-LLKCMACGA 29 (36)
T ss_dssp CCSSSCSCEEEEEEETTEE-EEEEETTTE
T ss_pred CCcCCCCCCcEEEEeCCcE-EEEhhcCCC
Confidence 5999999999998854222 123999995
No 14
>2g2k_A EIF-5, eukaryotic translation initiation factor 5; EIF125 fold; NMR {Homo sapiens}
Probab=50.37 E-value=2.8 Score=36.87 Aligned_cols=31 Identities=29% Similarity=0.702 Sum_probs=22.5
Q ss_pred cccccCCCCCCCccccCCCCCc-ccchHHHHH
Q 020987 180 RICSDCNTTTTPLWRSGPRGPK-SLCNACGIR 210 (319)
Q Consensus 180 ~~CsnC~Tt~TPlWRrGP~G~~-~LCNACGL~ 210 (319)
-.|..|+...|-+-+....+-- .-|+|||-.
T Consensus 97 VlC~~C~sPdT~L~k~~~~r~~~l~C~ACGa~ 128 (170)
T 2g2k_A 97 VLCPECENPETDLHVNPKKQTIGNSCKACGYR 128 (170)
T ss_dssp HSCTTTSSSCEEEEEETTTTEEEEEETTTCCC
T ss_pred EECCCCCCCccEEEEecCCCEEEEEccccCCc
Confidence 5799999999999884333312 249999963
No 15
>2e9h_A EIF-5, eukaryotic translation initiation factor 5; zinc binding, C4 type zinc finger, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=45.38 E-value=3.8 Score=35.59 Aligned_cols=30 Identities=27% Similarity=0.685 Sum_probs=21.6
Q ss_pred cccccCCCCCCCccccCCCCC-cccchHHHH
Q 020987 180 RICSDCNTTTTPLWRSGPRGP-KSLCNACGI 209 (319)
Q Consensus 180 ~~CsnC~Tt~TPlWRrGP~G~-~~LCNACGL 209 (319)
-.|..|+..+|-+-+....+- -.-|+|||-
T Consensus 104 VlC~~C~sPdT~L~~~~~~r~~~l~C~ACGa 134 (157)
T 2e9h_A 104 VLCPECENPETDLHVNPKKQTIGNSCKACGY 134 (157)
T ss_dssp TSCTTTCCSCCEEEEETTTTEEEEECSSSCC
T ss_pred EECCCCCCCccEEEEecCCCEEEEEccCCCC
Confidence 579999999999986322221 224999996
No 16
>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1
Probab=41.80 E-value=5.7 Score=27.27 Aligned_cols=30 Identities=27% Similarity=0.728 Sum_probs=20.1
Q ss_pred CcccccCCCCCCCccccCCCCCcccchHHHHHH
Q 020987 179 VRICSDCNTTTTPLWRSGPRGPKSLCNACGIRQ 211 (319)
Q Consensus 179 ~~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL~~ 211 (319)
...|-+|+.+ ++-.....| ..+|..||+-|
T Consensus 5 ~~~CP~C~~~--~l~~d~~~g-elvC~~CG~v~ 34 (50)
T 1pft_A 5 QKVCPACESA--ELIYDPERG-EIVCAKCGYVI 34 (50)
T ss_dssp CCSCTTTSCC--CEEEETTTT-EEEESSSCCBC
T ss_pred cEeCcCCCCc--ceEEcCCCC-eEECcccCCcc
Confidence 4569999773 443333445 67899999855
No 17
>2b0o_E UPLC1; arfgap, structural genomics, structural genomics consortium, SGC, metal binding protein; 2.06A {Homo sapiens}
Probab=41.67 E-value=8.8 Score=34.12 Aligned_cols=29 Identities=31% Similarity=0.676 Sum_probs=24.7
Q ss_pred CcccccCCCCCCCccccCCCCCcccchHHHH
Q 020987 179 VRICSDCNTTTTPLWRSGPRGPKSLCNACGI 209 (319)
Q Consensus 179 ~~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL 209 (319)
-..|++|+... |.|-.-.-| ..+|-.|.-
T Consensus 42 n~~c~dc~~~~-p~w~s~~~g-~~~c~~cs~ 70 (301)
T 2b0o_E 42 NSQCCDCGAAD-PTWLSTNLG-VLTCIQCSG 70 (301)
T ss_dssp TTBCTTTCCBS-CCEEETTTT-EEECHHHHH
T ss_pred CCcCCCCCCCC-CCeEEeecC-eEEcHHHHH
Confidence 45799999965 999999999 789999944
No 18
>2owa_A Arfgap-like finger domain containing protein; zinc finger protein, cysteine-rich motif, GTPase activation; 2.00A {Cryptosporidium parvum iowa II}
Probab=41.60 E-value=9.1 Score=32.39 Aligned_cols=32 Identities=31% Similarity=0.682 Sum_probs=26.0
Q ss_pred CcccccCCCCCCCccccCCCCCcccchHHHHHHH
Q 020987 179 VRICSDCNTTTTPLWRSGPRGPKSLCNACGIRQR 212 (319)
Q Consensus 179 ~~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL~~k 212 (319)
-..|++|+... |.|-.-.-| -.+|-.|.-..+
T Consensus 36 N~~CaDCga~~-P~WaS~n~G-vfiC~~CsgiHR 67 (138)
T 2owa_A 36 NRTCFDCESRN-PTWLSLSFA-VFICLNCSSDHR 67 (138)
T ss_dssp GGBCTTTCCBS-CCEEETTTT-EEECHHHHHHHH
T ss_pred CCcCCCCcCCC-CCeEEecCC-EEEhHhhhHHHh
Confidence 45799999865 999999999 789999965443
No 19
>3cng_A Nudix hydrolase; structural genomics, APC7497, PSI-2, protei structure initiative; 2.00A {Nitrosomonas europaea atcc 19718}
Probab=37.51 E-value=9.8 Score=31.44 Aligned_cols=32 Identities=22% Similarity=0.572 Sum_probs=25.9
Q ss_pred CCcccccCCCCCCCccccCCCCCcccchHHHH
Q 020987 178 TVRICSDCNTTTTPLWRSGPRGPKSLCNACGI 209 (319)
Q Consensus 178 ~~~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL 209 (319)
..+.|..|++..+.....|..+....|-.||.
T Consensus 2 ~~~~C~~CG~~~~~~~~~G~~~~~~~~~~~~~ 33 (189)
T 3cng_A 2 HMKFCSQCGGEVILRIPEGDTLPRYICPKCHT 33 (189)
T ss_dssp -CCBCTTTCCBCEEECCTTCSSCEEEETTTTE
T ss_pred CcccCchhCCccccccccCCCCcceECCCCCC
Confidence 45789999999988877777776678999994
No 20
>2qiy_C Ubiquitin carboxyl-terminal hydrolase 3; deubiquitylation, ubiquitin-specific processing proteases(UB NTF2, protein-protein recognition; 1.69A {Saccharomyces cerevisiae}
Probab=36.42 E-value=11 Score=27.35 Aligned_cols=13 Identities=23% Similarity=0.800 Sum_probs=7.2
Q ss_pred Ccc-cccceeccCC
Q 020987 41 AAS-VSRPIFLNSS 53 (319)
Q Consensus 41 ~ss-~s~p~~~n~~ 53 (319)
+.+ ++||+|||.+
T Consensus 15 ~~~~ie~Plf~NT~ 28 (48)
T 2qiy_C 15 SSNLIQLPLFINTT 28 (48)
T ss_dssp ------CCEEESSC
T ss_pred cccceeeeeEeeCC
Confidence 356 8999999974
No 21
>2iqj_A Stromal membrane-associated protein 1-like; zinc, structural genomics, structural genomics consortium, SGC, protein transport; 1.90A {Homo sapiens}
Probab=35.34 E-value=19 Score=30.17 Aligned_cols=33 Identities=30% Similarity=0.709 Sum_probs=26.5
Q ss_pred CcccccCCCCCCCccccCCCCCcccchHHHHHHHH
Q 020987 179 VRICSDCNTTTTPLWRSGPRGPKSLCNACGIRQRK 213 (319)
Q Consensus 179 ~~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL~~kk 213 (319)
-..|++|+... |.|-.-.-| ..+|-.|.-..+.
T Consensus 27 N~~CaDCg~~~-P~WaS~n~G-vfiC~~CsgiHR~ 59 (134)
T 2iqj_A 27 NKFCADCQSKG-PRWASWNIG-VFICIRCAGIHRN 59 (134)
T ss_dssp GGBCTTTCCBS-CCEEETTTT-EEECHHHHHHHHH
T ss_pred CCcCCcCcCCC-CCeEEecCC-EEEhHhhhHHHhc
Confidence 46799999874 999999999 7899999654443
No 22
>4bbr_M Transcription initiation factor IIB; RNA polymerase, TFIIB; 3.40A {Saccharomyces cerevisiae} PDB: 3k7a_M 4bbs_M
Probab=35.09 E-value=7.1 Score=36.81 Aligned_cols=30 Identities=23% Similarity=0.667 Sum_probs=19.3
Q ss_pred CcccccCCCCCCCccccCCCCCcccchHHHH
Q 020987 179 VRICSDCNTTTTPLWRSGPRGPKSLCNACGI 209 (319)
Q Consensus 179 ~~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL 209 (319)
...|-+|+...+-+--+-..| ..+|..||+
T Consensus 21 ~~~Cp~C~~~~~~lv~D~~~G-~~vC~~CGl 50 (345)
T 4bbr_M 21 VLTCPECKVYPPKIVERFSEG-DVVCALCGL 50 (345)
T ss_dssp -CCCSSCCCSSCCEEEEGGGT-EEEETTTCB
T ss_pred CCcCCCCCCCCCceeEECCCC-cEEeCCCCC
Confidence 456999987433343334556 678999987
No 23
>2crr_A Stromal membrane-associated protein SMAP1B; arfgap domain, zinc finger, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=33.73 E-value=23 Score=29.86 Aligned_cols=32 Identities=31% Similarity=0.729 Sum_probs=25.7
Q ss_pred cccccCCCCCCCccccCCCCCcccchHHHHHHHH
Q 020987 180 RICSDCNTTTTPLWRSGPRGPKSLCNACGIRQRK 213 (319)
Q Consensus 180 ~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL~~kk 213 (319)
..|++|+.. -|.|-.-.-| ..+|-.|.-..+.
T Consensus 30 ~~CaDCga~-~P~WaS~n~G-vfiC~~CsgiHR~ 61 (141)
T 2crr_A 30 KYCADCEAK-GPRWASWNIG-VFICIRCAGIHRN 61 (141)
T ss_dssp SSCSSSCCS-SCCSEETTTT-EECCHHHHHHHHH
T ss_pred CcCCCCCCC-CCCeEEeccC-eEEhhhhhHhHhc
Confidence 579999986 5999999999 7899999654433
No 24
>2olm_A Nucleoporin-like protein RIP; arfgap, GTPase-activating protein, REV-interacting protein, human immunodeficiency virus, AIDS, structural genomics; 1.48A {Homo sapiens} PDB: 2d9l_A
Probab=33.69 E-value=15 Score=30.94 Aligned_cols=31 Identities=26% Similarity=0.587 Sum_probs=25.4
Q ss_pred CcccccCCCCCCCccccCCCCCcccchHHHHHH
Q 020987 179 VRICSDCNTTTTPLWRSGPRGPKSLCNACGIRQ 211 (319)
Q Consensus 179 ~~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL~~ 211 (319)
-..|++|+.. -|.|-.-.-| -.+|-.|.-..
T Consensus 25 N~~CaDCg~~-~P~WaS~n~G-vfiC~~CsgiH 55 (140)
T 2olm_A 25 NRKCFDCDQR-GPTYVNMTVG-SFVCTSCSGSL 55 (140)
T ss_dssp GGSCTTTCSS-CCCEEETTTT-EEECHHHHHHH
T ss_pred CCcCCCCCCC-CCCceeeccC-EEEchhccchh
Confidence 4679999986 6999999999 78999996533
No 25
>2crw_A ARF GAP 3, ADP-ribosylation factor GTPase-activating protein 3; arfgap domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=33.33 E-value=16 Score=31.36 Aligned_cols=33 Identities=33% Similarity=0.736 Sum_probs=26.3
Q ss_pred CcccccCCCCCCCccccCCCCCcccchHHHHHHHH
Q 020987 179 VRICSDCNTTTTPLWRSGPRGPKSLCNACGIRQRK 213 (319)
Q Consensus 179 ~~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL~~kk 213 (319)
-..|++|+.. -|.|-.-.-| ..+|-.|.-..+.
T Consensus 29 N~~CaDCga~-~P~WaS~n~G-vfiC~~CsgiHR~ 61 (149)
T 2crw_A 29 NKVCFDCGAK-NPSWASITYG-VFLCIDCSGSHRS 61 (149)
T ss_dssp TSBCSSSCCB-SCCCEETTTT-EECCHHHHHHHHH
T ss_pred CCcCCCCcCC-CCCcEEeccC-EEEchhcchhhcc
Confidence 4579999975 6999999999 7899999654443
No 26
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, transcription factor, DNA-binding, DNA-directed RNA polymerase; 4.30A {Saccharomyces cerevisiae}
Probab=30.78 E-value=11 Score=34.11 Aligned_cols=33 Identities=24% Similarity=0.619 Sum_probs=22.8
Q ss_pred CCCcccccCCCCCCCccccCCCCCcccchHHHHH
Q 020987 177 NTVRICSDCNTTTTPLWRSGPRGPKSLCNACGIR 210 (319)
Q Consensus 177 g~~~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL~ 210 (319)
.....|-.|+...+-+--.-..| ..+|..||+-
T Consensus 19 n~~~~CPECGs~~t~IV~D~erG-E~VCsdCGLV 51 (197)
T 3k1f_M 19 NIVLTCPECKVYPPKIVERFSEG-DVVCALCGLV 51 (197)
T ss_dssp CCCCCCTTTCCSSCCEEEEGGGT-EEEETTTCBB
T ss_pred ccCeECcCCCCcCCeEEEeCCCC-EEEEcCCCCC
Confidence 44568999998544343334456 6899999984
No 27
>1pqv_S STP-alpha, transcription elongation factor S-II, DNA; mRNA cleavage, proofreading, BACKTRACKING, gene expression, multiprotein complex; 3.80A {Saccharomyces cerevisiae} SCOP: i.8.1.1 PDB: 1eo0_A
Probab=27.54 E-value=12 Score=35.04 Aligned_cols=35 Identities=26% Similarity=0.576 Sum_probs=25.6
Q ss_pred CCcccccCCCCCCCcc----ccCCCCCc--ccchHHHHHHH
Q 020987 178 TVRICSDCNTTTTPLW----RSGPRGPK--SLCNACGIRQR 212 (319)
Q Consensus 178 ~~~~CsnC~Tt~TPlW----RrGP~G~~--~LCNACGL~~k 212 (319)
....|..|+-...-.| |++.+|-. +.|..||-+|+
T Consensus 267 ~~~~C~~C~~~~~~~~q~Q~rsaDe~~t~f~~C~~Cg~~w~ 307 (309)
T 1pqv_S 267 DRFTCGKCKEKKVSYYQLQTRSADEPLTTFCTCEACGNRWK 307 (309)
T ss_pred ccccCCCCCCCeeEEEEeecccCCCCCcEEEEeCCCCCcee
Confidence 3568999998887665 56666532 36999999884
No 28
>2p57_A GTPase-activating protein ZNF289; zinc finger, GAP, structural genomics, structural genomics consortium, SGC, metal binding protein; 1.80A {Homo sapiens}
Probab=27.12 E-value=24 Score=30.17 Aligned_cols=33 Identities=33% Similarity=0.679 Sum_probs=26.2
Q ss_pred CcccccCCCCCCCccccCCCCCcccchHHHHHHHH
Q 020987 179 VRICSDCNTTTTPLWRSGPRGPKSLCNACGIRQRK 213 (319)
Q Consensus 179 ~~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL~~kk 213 (319)
-..|++|+.. -|.|-.-.-| ..+|-.|.-..+.
T Consensus 37 N~~CaDCga~-~P~WaS~n~G-vfiC~~CsgiHR~ 69 (144)
T 2p57_A 37 NKACFDCGAK-NPSWASITYG-VFLCIDCSGVHRS 69 (144)
T ss_dssp GGBCTTTCCB-SCCEEEGGGT-EEECHHHHHHHHH
T ss_pred CCcCCCCcCC-CCCeEEeccC-EEEhhhchHHHcC
Confidence 4579999986 5999998889 7899999664443
No 29
>3dwd_A ADP-ribosylation factor GTPase-activating protein; GAP, structural genomics consorti ER-golgi transport, golgi apparatus, GTPase activation; 2.40A {Homo sapiens}
Probab=26.89 E-value=31 Score=29.67 Aligned_cols=33 Identities=30% Similarity=0.689 Sum_probs=26.5
Q ss_pred CcccccCCCCCCCccccCCCCCcccchHHHHHHHH
Q 020987 179 VRICSDCNTTTTPLWRSGPRGPKSLCNACGIRQRK 213 (319)
Q Consensus 179 ~~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL~~kk 213 (319)
-..|++|+... |.|-.-.-| -.+|-.|.-..+.
T Consensus 38 N~~CaDCga~~-P~WaS~nlG-vfiC~~CSgiHR~ 70 (147)
T 3dwd_A 38 NNVCFECGAFN-PQWVSVTYG-IWICLECSGRHRG 70 (147)
T ss_dssp TTBCTTTCCBS-CCEEETTTT-EEECHHHHHHHHH
T ss_pred CCccCCCCCCC-CCeEEeccc-EeEhHhhChHHhc
Confidence 45799999874 999999989 7899999754443
No 30
>3lju_X ARF-GAP with dual PH domain-containing protein 1; structural genomics consortium, GTPase activation, SGC, binding, nucleus, phosphoprotein; HET: IP9; 1.70A {Homo sapiens} PDB: 3feh_A* 3fm8_C 3mdb_C*
Probab=21.57 E-value=31 Score=32.69 Aligned_cols=28 Identities=32% Similarity=0.739 Sum_probs=24.0
Q ss_pred cccccCCCCCCCccccCCCCCcccchHHHH
Q 020987 180 RICSDCNTTTTPLWRSGPRGPKSLCNACGI 209 (319)
Q Consensus 180 ~~CsnC~Tt~TPlWRrGP~G~~~LCNACGL 209 (319)
..|++|+.. -|.|-.-.-| -.+|-.|.-
T Consensus 35 ~~C~dC~~~-~p~w~s~~~g-~~~C~~Csg 62 (386)
T 3lju_X 35 ARCADCGAP-DPDWASYTLG-VFICLSCSG 62 (386)
T ss_dssp SBCTTTCCB-SCCEEETTTT-EEECHHHHH
T ss_pred CcCccCCCC-CCCeEEeccc-EEEhhhhch
Confidence 469999997 7999999989 789999953
No 31
>1qyp_A RNA polymerase II; transcription, RPB9, Zn ribbon, hyperthermophilic, extremophIle; NMR {Thermococcus celer} SCOP: g.41.3.1
Probab=21.37 E-value=19 Score=25.36 Aligned_cols=33 Identities=24% Similarity=0.472 Sum_probs=23.4
Q ss_pred CcccccCCCCC----CCccccCCCCCc--ccchHHHHHH
Q 020987 179 VRICSDCNTTT----TPLWRSGPRGPK--SLCNACGIRQ 211 (319)
Q Consensus 179 ~~~CsnC~Tt~----TPlWRrGP~G~~--~LCNACGL~~ 211 (319)
...|..|+-.. +.+||...++.. +.|..||-.|
T Consensus 15 ~~~Cp~Cg~~~~~~~q~Q~rsadep~T~fy~C~~Cg~~w 53 (57)
T 1qyp_A 15 KITCPKCGNDTAYWWEMQTRAGDEPSTIFYKCTKCGHTW 53 (57)
T ss_dssp ECCCTTTCCSEEEEEEECCSSSSCSSEEEEEESSSCCEE
T ss_pred EeECCCCCCCEEEEEEeecccCCCCCcEEEEcCCCCCEe
Confidence 46799999855 346787776622 3699998765
No 32
>3po3_S Transcription elongation factor S-II; RNA polymerase II, mRNA, transcription, arrest, BACKTRACKING cleavage, transferase-DNA-RNA complex; HET: DNA BRU EPE PGE; 3.30A {Saccharomyces cerevisiae} PDB: 1y1v_S 1y1y_S 3gtm_S* 1enw_A
Probab=21.26 E-value=16 Score=31.74 Aligned_cols=35 Identities=26% Similarity=0.576 Sum_probs=23.6
Q ss_pred CCcccccCCCCCCCcc----ccCCCCCc--ccchHHHHHHH
Q 020987 178 TVRICSDCNTTTTPLW----RSGPRGPK--SLCNACGIRQR 212 (319)
Q Consensus 178 ~~~~CsnC~Tt~TPlW----RrGP~G~~--~LCNACGL~~k 212 (319)
....|..|+-...-.| |++.++.. +.|..||-+|+
T Consensus 136 ~~~~Cp~C~~~~a~~~q~Q~rsaDE~mt~f~~C~~C~~~w~ 176 (178)
T 3po3_S 136 DRFTCGKCKEKKVSYYQLQTRSAAAPLTTFCTCEACGNRWK 176 (178)
T ss_dssp SSSCCSSSCCSCEECCCCCCSCTTSCCCCCEEETTTCCEEC
T ss_pred CCcCCCCCCCCceEEEEeecccCCCCCcEEEEcCCCCCeec
Confidence 4568999998775443 55555532 35999998763
Done!