Query 007352
Match_columns 607
No_of_seqs 139 out of 168
Neff 4.0
Searched_HMMs 29240
Date Mon Mar 25 23:37:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007352.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/007352hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1wcn_A Transcription elongatio 91.8 0.042 1.5E-06 45.2 0.8 62 254-322 5-67 (70)
2 2kz3_A Putative uncharacterize 86.3 0.58 2E-05 39.8 3.8 41 270-315 16-56 (83)
3 2i1q_A DNA repair and recombin 75.0 1.1 3.7E-05 44.6 1.8 59 256-321 3-61 (322)
4 3lda_A DNA repair protein RAD5 71.8 2.5 8.6E-05 44.6 3.8 62 256-322 81-142 (400)
5 1b22_A DNA repair protein RAD5 69.4 1.1 3.6E-05 40.2 0.3 62 257-323 24-85 (114)
6 3mab_A Uncharacterized protein 66.1 0.88 3E-05 39.5 -0.9 75 259-372 7-81 (93)
7 2z43_A DNA repair and recombin 66.0 1.3 4.4E-05 44.5 0.1 57 257-320 13-69 (324)
8 1pzn_A RAD51, DNA repair and r 63.5 3.7 0.00013 42.0 3.0 59 257-322 36-94 (349)
9 1v5w_A DMC1, meiotic recombina 61.3 1.9 6.4E-05 43.9 0.3 59 257-320 26-84 (343)
10 4dez_A POL IV 1, DNA polymeras 49.4 3.5 0.00012 42.1 0.0 51 258-317 180-230 (356)
11 3pzp_A DNA polymerase kappa; D 46.6 10 0.00035 41.3 3.1 51 258-318 340-390 (517)
12 3osn_A DNA polymerase IOTA; ho 42.4 5.4 0.00019 42.2 0.1 52 258-318 236-287 (420)
13 3im1_A Protein SNU246, PRE-mRN 41.7 15 0.00052 37.1 3.3 55 257-318 158-212 (328)
14 2aq4_A DNA repair protein REV1 39.5 11 0.00037 39.9 1.8 52 258-317 243-296 (434)
15 1t94_A Polymerase (DNA directe 38.6 15 0.00053 39.0 2.9 50 258-317 284-333 (459)
16 1jx4_A DNA polymerase IV (fami 35.5 10 0.00036 38.6 0.9 54 258-320 180-233 (352)
17 2q0z_X Protein Pro2281; SEC63, 34.3 32 0.0011 35.0 4.3 55 257-318 162-216 (339)
18 3bq0_A POL IV, DBH, DNA polyme 32.2 13 0.00043 38.0 0.9 54 258-320 181-234 (354)
19 4f4y_A POL IV, DNA polymerase 27.7 8 0.00027 40.0 -1.5 48 261-317 184-231 (362)
20 3gqc_A DNA repair protein REV1 25.5 15 0.00052 40.1 0.1 51 258-317 317-367 (504)
21 3bqs_A Uncharacterized protein 24.3 25 0.00087 30.2 1.3 76 258-372 6-81 (93)
22 1u9l_A Transcription elongatio 23.1 37 0.0013 27.7 2.0 50 267-321 15-64 (70)
23 1z3e_B DNA-directed RNA polyme 23.0 46 0.0016 27.5 2.5 25 272-299 22-46 (73)
24 3k4g_A DNA-directed RNA polyme 21.2 51 0.0017 28.2 2.5 38 272-314 25-62 (86)
No 1
>1wcn_A Transcription elongation protein NUSA; RNA-binding protein, escherichia coli NUSA, transcription regulation, regulation of RNA binding; NMR {Escherichia coli} PDB: 2jzb_B
Probab=91.78 E-value=0.042 Score=45.16 Aligned_cols=62 Identities=24% Similarity=0.407 Sum_probs=51.3
Q ss_pred CCCcceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhhc-ccCC
Q 007352 254 LHDEVWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKT-CVLG 322 (607)
Q Consensus 254 L~DeVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt-Cvl~ 322 (607)
..|++-.|++|+..-+ ++|.++||+||+|+.. .+++.|-.|. |+|...=+.++.-|+. |-+.
T Consensus 5 ~~~~l~~L~Gi~~~~~--~kL~e~Gi~TvedlA~---~~~~eL~~i~--gise~kA~~ii~aAr~~~w~~ 67 (70)
T 1wcn_A 5 PADDLLNLEGVDRDLA--FKLAARGVCTLEDLAE---QGIDDLADIE--GLTDEKAGALIMAARNICWFG 67 (70)
T ss_dssp CCHHHHSSTTCCHHHH--HHHHTTTCCSHHHHHT---SCHHHHHTSS--SCCHHHHHHHHHHHHHHHTTC
T ss_pred hhhHHHHcCCCCHHHH--HHHHHcCCCcHHHHHc---CCHHHHHHcc--CCCHHHHHHHHHHHHHccCcc
Confidence 4567778888877655 9999999999998764 4788898887 7899999999999998 7553
No 2
>2kz3_A Putative uncharacterized protein RAD51L3; RAD51D, homologous recombination, unknown function; NMR {Homo sapiens}
Probab=86.26 E-value=0.58 Score=39.83 Aligned_cols=41 Identities=20% Similarity=0.191 Sum_probs=31.1
Q ss_pred hhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHh
Q 007352 270 LHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEH 315 (607)
Q Consensus 270 ~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~H 315 (607)
.-++|.+++|.||+||+. .|+.+|-+++ |+|-+.=-.+..|
T Consensus 16 ~~~~L~~~~I~Tv~Dfl~---~d~~eL~~~~--~ls~~~v~~l~r~ 56 (83)
T 2kz3_A 16 MIQLLRSHRIKTVVDLVS---ADLEEVAQKC--GLSYKALVALRRV 56 (83)
T ss_dssp HHHHHHHTTCCCHHHHTT---SCHHHHHHHH--TCCHHHHHHHHHH
T ss_pred HHHHHHHCCCCCHHHHHh---CCHHHHHHHh--CCCHHHHHHHHHH
Confidence 458999999999999975 7999999999 4565544444433
No 3
>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*
Probab=75.03 E-value=1.1 Score=44.61 Aligned_cols=59 Identities=17% Similarity=0.213 Sum_probs=44.2
Q ss_pred CcceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhhcccC
Q 007352 256 DEVWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKTCVL 321 (607)
Q Consensus 256 DeVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl 321 (607)
+++..|++|+. ..-++|.++||+||+||+. .++..|-++. |+|.+.=+.+++.|+.+..
T Consensus 3 ~~~~~l~gi~~--~~~~kL~~~gi~t~~~~~~---~~~~~L~~~~--gis~~~a~~~i~~a~~~~~ 61 (322)
T 2i1q_A 3 DNLTDLPGVGP--STAEKLVEAGYIDFMKIAT---ATVGELTDIE--GISEKAAAKMIMGARDLCD 61 (322)
T ss_dssp --CTTSTTCCH--HHHHHHHHHTCCSHHHHHT---CCHHHHHTST--TCCHHHHHHHHHHHHHHTT
T ss_pred ccHhhcCCCCH--HHHHHHHHcCCCcHHHHHh---CCHHHHHHhh--CcCHHHHHHHHHHHHHhhh
Confidence 45667776665 4669999999999999985 4577777775 6788877788888877653
No 4
>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*
Probab=71.76 E-value=2.5 Score=44.57 Aligned_cols=62 Identities=21% Similarity=0.102 Sum_probs=50.5
Q ss_pred CcceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhhcccCC
Q 007352 256 DEVWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKTCVLG 322 (607)
Q Consensus 256 DeVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl~ 322 (607)
.+|-+|+..|-.-..-++|.++||+||++|+. .++..|.++. |+|...=+.+++.|++++..
T Consensus 81 ~~~~~l~~~gi~~~~~~~L~~ag~~tv~~~~~---~~~~~L~~~~--gis~~~~~~i~~~a~~~~~~ 142 (400)
T 3lda_A 81 VPIEKLQVNGITMADVKKLRESGLHTAEAVAY---APRKDLLEIK--GISEAKADKLLNEAARLVPM 142 (400)
T ss_dssp CBGGGGCCTTCCHHHHHHHHHTTCCBHHHHHH---SCHHHHHTST--TCCHHHHHHHHHHHHHHSCC
T ss_pred cCHHHHHhCCCCHHHHHHHHHcCCCcHHHHHh---CCHHHHHHHh--CCCHHHHHHHHHHHHHhccc
Confidence 46778888555556679999999999999975 5888999987 68888888888888876654
No 5
>1b22_A DNA repair protein RAD51; DNA binding, riken structural genomics/proteomics initiative, RSGI, structural genomics, DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: a.60.4.1
Probab=69.39 E-value=1.1 Score=40.20 Aligned_cols=62 Identities=27% Similarity=0.263 Sum_probs=50.3
Q ss_pred cceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhhcccCCC
Q 007352 257 EVWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKTCVLGG 323 (607)
Q Consensus 257 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl~~ 323 (607)
+|.+|+..|-.-+.-++|.++|++||++. ...++..|.+|- |+|...=+.+++=|+.++..+
T Consensus 24 ~I~~L~~~GIg~~~i~kL~eAG~~Tve~v---a~a~~~eL~~i~--GIse~ka~kIi~aA~kl~~~g 85 (114)
T 1b22_A 24 PISRLEQCGINANDVKKLEEAGFHTVEAV---AYAPKKELINIK--GISEAKADKILAEAAKLVPMG 85 (114)
T ss_dssp CHHHHHHTTCSHHHHHHHHTTCCSSGGGB---TSSBHHHHHTTT--TCSTTHHHHHHHHHHHHSCCC
T ss_pred cHHHHHhcCCCHHHHHHHHHcCcCcHHHH---HhCCHHHHHHcc--CCCHHHHHHHHHHHHHHcccC
Confidence 68889955444467799999999999976 456788999986 789999999999999887544
No 6
>3mab_A Uncharacterized protein; NYSGXRC, PSI-2, structural genomics; 1.42A {Listeria monocytogenes} PDB: 3bqt_A
Probab=66.15 E-value=0.88 Score=39.49 Aligned_cols=75 Identities=21% Similarity=0.356 Sum_probs=50.3
Q ss_pred eeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhhcccCCCeeEEEEecCCccEEE
Q 007352 259 WRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKTCVLGGKLYVYYADGTQNTGV 338 (607)
Q Consensus 259 wRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl~~k~y~y~~~~~~nvgl 338 (607)
-.|-+||+.- -+.|.+.||+||+||..+ ++ .+.|..+.++- .+ +
T Consensus 7 ~dLPNig~~~--e~~L~~~GI~t~~~Lr~~---Ga------------~~ay~rLk~~~-----------------~~--~ 50 (93)
T 3mab_A 7 SELPNIGKVL--EQDLIKAGIKTPVELKDV---GS------------KEAFLRIWEND-----------------SS--V 50 (93)
T ss_dssp GGSTTCCHHH--HHHHHHTTCCSHHHHHHH---CH------------HHHHHHHHHHC-----------------TT--C
T ss_pred hhCCCCCHHH--HHHHHHcCCCCHHHHHhC---CH------------HHHHHHHHHhC-----------------CC--C
Confidence 3455667654 488999999999998774 22 23333333220 01 2
Q ss_pred EEcccceeeeeecCCeeeeCCCCChHhHHHHHHH
Q 007352 339 VFNNIYELRGLIDDGQFVSLESLTHSQKISVDSL 372 (607)
Q Consensus 339 ~FN~i~~lVG~~~~g~y~s~d~L~~~qk~~V~~L 372 (607)
-+|..|.|+|++-| +....|++.+|....++
T Consensus 51 ~~~~L~aL~gAi~G---~~w~~l~~~~K~~L~~~ 81 (93)
T 3mab_A 51 CMSELYALEGAVQG---IRWHGLDEAKKIELKKF 81 (93)
T ss_dssp CHHHHHHHHHHHHT---SCGGGSCHHHHHHHHHH
T ss_pred CHHHHHHHHHHHcC---CcHHHCCHHHHHHHHHH
Confidence 37888999999988 67788999988766544
No 7
>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*
Probab=66.00 E-value=1.3 Score=44.49 Aligned_cols=57 Identities=19% Similarity=0.306 Sum_probs=0.0
Q ss_pred cceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhhccc
Q 007352 257 EVWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKTCV 320 (607)
Q Consensus 257 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCv 320 (607)
++.+|.+|+.. .-++|.++||+||++|+.. ++..|-++. |+|...=+.+++.|..+.
T Consensus 13 ~~~~l~g~~~~--~~~~l~~~g~~t~~~~~~~---~~~~l~~~~--g~s~~~~~~~~~~~~~~~ 69 (324)
T 2z43_A 13 TINDLPGISQT--VINKLIEAGYSSLETLAVA---SPQDLSVAA--GIPLSTAQKIIKEARDAL 69 (324)
T ss_dssp ----------------------------------------------------------------
T ss_pred cHHHcCCCCHH--HHHHHHHcCCCcHHHHHcC---CHHHHHHhh--CCCHHHHHHHHHHHHhhc
Confidence 67888877764 5599999999999999854 455666665 567766667777776653
No 8
>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11
Probab=63.47 E-value=3.7 Score=42.01 Aligned_cols=59 Identities=20% Similarity=0.226 Sum_probs=46.1
Q ss_pred cceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhhcccCC
Q 007352 257 EVWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKTCVLG 322 (607)
Q Consensus 257 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl~ 322 (607)
++.+|.+|+. ...++|.++||+||++++. .++..|-++. |+|...=+.+++.|.++...
T Consensus 36 ~l~~l~Gi~~--~~~~kL~~ag~~t~~~~~~---~~~~~L~~~~--~~s~~~~~~~l~~~~~~~~~ 94 (349)
T 1pzn_A 36 SIEDLPGVGP--ATAEKLREAGYDTLEAIAV---ASPIELKEVA--GISEGTALKIIQAARKAANL 94 (349)
T ss_dssp CSSCCTTCCH--HHHHHHHTTTCCSHHHHHT---CCHHHHHHHH--CCCHHHHHHHHHHHHHHCST
T ss_pred cHHHcCCCCH--HHHHHHHHcCCCcHHHHHh---CCHHHHHhhc--CCCHHHHHHHHHHHhhhccc
Confidence 4666765554 6779999999999999875 5788888887 57877778888888876643
No 9
>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A
Probab=61.31 E-value=1.9 Score=43.91 Aligned_cols=59 Identities=22% Similarity=0.220 Sum_probs=0.0
Q ss_pred cceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhhccc
Q 007352 257 EVWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKTCV 320 (607)
Q Consensus 257 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCv 320 (607)
++++|+.-|-.=..-++|.++||+||++|+. .++.+|.++. |+|...=+.+++.|..+.
T Consensus 26 ~~~~l~~~g~~~~~~~~l~~~g~~t~~~~~~---~~~~~l~~~~--~is~~~~~~~~~~a~~~~ 84 (343)
T 1v5w_A 26 DIDLLQKHGINVADIKKLKSVGICTIKGIQM---TTRRALCNVK--GLSEAKVDKIKEAANKLI 84 (343)
T ss_dssp ----------------------------------------------------------------
T ss_pred cHHHHhhCCCCHHHHHHHHHcCCCcHHHHHh---CCHHHHHHhh--CCCHHHHHHHHHHHHhhc
Confidence 6889994444445669999999999999985 4466666665 556666666666666553
No 10
>4dez_A POL IV 1, DNA polymerase IV 1; Y-family, transferase; HET: DNA; 2.60A {Mycobacterium smegmatis}
Probab=49.41 E-value=3.5 Score=42.14 Aligned_cols=51 Identities=29% Similarity=0.222 Sum_probs=36.2
Q ss_pred ceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhh
Q 007352 258 VWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAK 317 (607)
Q Consensus 258 VwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAk 317 (607)
|-.|-+||+.- -++|...||+|++|+. ..++..|++.||.. .-..+.++|+
T Consensus 180 v~~l~GiG~~~--~~~L~~~GI~Ti~dL~---~~~~~~L~~~fG~~----~g~~l~~~a~ 230 (356)
T 4dez_A 180 PDALWGVGPKT--TKKLAAMGITTVADLA---VTDPSVLTTAFGPS----TGLWLLLLAK 230 (356)
T ss_dssp GGGSTTCCHHH--HHHHHHTTCCSHHHHH---TSCHHHHHHHHCHH----HHHHHHHHHT
T ss_pred HHHHcCCchhH--HHHHHHcCCCeecccc---cCCHHHHHHHhCCh----HHHHHHHHHc
Confidence 34444777754 4899999999999986 56899999999742 2233445554
No 11
>3pzp_A DNA polymerase kappa; DNA nucleotidyltransferase, DNA binding nucleotide binding M binding, nucleus; HET: DNA TTD DTP; 3.34A {Homo sapiens}
Probab=46.59 E-value=10 Score=41.35 Aligned_cols=51 Identities=16% Similarity=0.243 Sum_probs=38.6
Q ss_pred ceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhhc
Q 007352 258 VWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKT 318 (607)
Q Consensus 258 VwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt 318 (607)
|-+|-+||+.+. ++|...||+|++|+.++ +..|+..|| ...|..+.++|.-
T Consensus 340 V~kl~GIG~~t~--~~L~~lGI~TigDL~~~----~~~L~~~fG----~~~~~~l~~~a~G 390 (517)
T 3pzp_A 340 IRKVSGIGKVTE--KMLKALGIITCTELYQQ----RALLSLLFS----ETSWHYFLHISLG 390 (517)
T ss_dssp GGGSTTCCHHHH--HHHHHTTCCBHHHHHHH----HHHHHHHSC----HHHHHHHHHHHTT
T ss_pred hhhhccccHHHH--HHHHHhCCCcHHHHHhh----HHHHHHHhC----hHHHHHHHHHHcC
Confidence 555567887554 99999999999999885 357888875 3568877777753
No 12
>3osn_A DNA polymerase IOTA; hoogsteen base PAIR, protein-DNA complex, Y-family DNA polym translesion synthesis, nucleoside triphosphate; HET: DNA DOC 6OG TTP; 1.90A {Homo sapiens} PDB: 2dpj_A* 2fll_A* 2fln_A* 2flp_A* 3epg_A* 3epi_A* 2dpi_A* 3g6v_A* 3g6y_A* 3g6x_A* 3gv7_B* 3gv8_B* 3ngd_A* 3gv5_B* 3q8p_B* 3q8q_B* 3q8r_B* 3q8s_B* 4ebc_A* 4ebd_A* ...
Probab=42.43 E-value=5.4 Score=42.23 Aligned_cols=52 Identities=19% Similarity=0.151 Sum_probs=38.2
Q ss_pred ceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhhc
Q 007352 258 VWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKT 318 (607)
Q Consensus 258 VwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt 318 (607)
|-+|-+||+ ..-++|...||+|++|+.+ .++..|++.||. +....+.+||.-
T Consensus 236 v~~l~GIG~--~t~~~L~~lGI~TigdLa~---~~~~~L~~~fG~----~~g~~L~~~a~G 287 (420)
T 3osn_A 236 IKEIPGIGY--KTAKCLEALGINSVRDLQT---FSPKILEKELGI----SVAQRIQKLSFG 287 (420)
T ss_dssp GGGSTTCCH--HHHHHHHHTTCCSHHHHHH---SCHHHHHHHHHH----HHHHHHHHHHTT
T ss_pred HHHccCCCH--HHHHHHHHhCCCcHHHHhh---CCHHHHHHHhCc----hHHHHHHHHhcC
Confidence 334445665 4569999999999999865 588999999974 345666677753
No 13
>3im1_A Protein SNU246, PRE-mRNA-splicing helicase BRR2; ATPase, RNA helicase, rnpase, RNA unwindase, molecular model mRNA splicing; 1.65A {Saccharomyces cerevisiae} PDB: 3im2_A* 3hib_A
Probab=41.74 E-value=15 Score=37.13 Aligned_cols=55 Identities=11% Similarity=0.192 Sum_probs=43.4
Q ss_pred cceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhhc
Q 007352 257 EVWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKT 318 (607)
Q Consensus 257 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt 318 (607)
+..-|.+|+.+-+ ++|.++||.|++||.. .+++++.++| +++++.-+.+.+-|..
T Consensus 158 pL~Qlp~i~~~~~--~~l~~~~i~s~~~l~~---~~~~e~~~ll--~~~~~~~~~v~~~~~~ 212 (328)
T 3im1_A 158 PLRQIPHFNNKIL--EKCKEINVETVYDIMA---LEDEERDEIL--TLTDSQLAQVAAFVNN 212 (328)
T ss_dssp GGGGSTTCCHHHH--HHHHHTTCCSHHHHHH---SCHHHHHHHC--CCCHHHHHHHHHHHHH
T ss_pred ceeCCCCCCHHHH--HHHHhCCCCCHHHHhc---CCHHHHHhHh--CCCHHHHHHHHHHHHh
Confidence 4567788887644 7799999999999865 5899999998 6888888887776654
No 14
>2aq4_A DNA repair protein REV1; polymerase, PAD, N-digit, G-loop, transferase; HET: DNA DOC DCP; 2.32A {Saccharomyces cerevisiae} PDB: 3bjy_A* 3osp_A*
Probab=39.49 E-value=11 Score=39.93 Aligned_cols=52 Identities=12% Similarity=0.118 Sum_probs=38.7
Q ss_pred ceeeeeecccchhhhhhhh--CCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhh
Q 007352 258 VWRLDRIAKDGALHKKLMK--ADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAK 317 (607)
Q Consensus 258 VwRLekIgKdG~~hkrL~~--~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAk 317 (607)
|-.|-+||+ ..-++|.. .||+|++|+.++. ++..|++.||. +....+..||+
T Consensus 243 v~~l~GiG~--~~~~~L~~~~~GI~ti~dL~~~~--~~~~L~~~fG~----~~g~~l~~~a~ 296 (434)
T 2aq4_A 243 LDDLPGVGH--STLSRLESTFDSPHSLNDLRKRY--TLDALKASVGS----KLGMKIHLALQ 296 (434)
T ss_dssp GGGSTTCCH--HHHHHHHHHTTCCCSHHHHHHHC--CHHHHHHHHCS----SHHHHHHHHTT
T ss_pred cccccCcCH--HHHHHHHHhcCCceEHHHHHhcC--CHHHHHHHhCH----HHHHHHHHHhc
Confidence 444556665 55689999 9999999999874 88999999974 34555556665
No 15
>1t94_A Polymerase (DNA directed) kappa; replication, DNA repair, Y-family DNA polymerase, translesion DNA synthesis, lesion bypass; 2.40A {Homo sapiens} SCOP: d.240.1.1 e.8.1.7 PDB: 2oh2_A* 2w7o_A* 2w7p_A* 3hed_A* 3in5_A*
Probab=38.57 E-value=15 Score=38.96 Aligned_cols=50 Identities=16% Similarity=0.258 Sum_probs=37.9
Q ss_pred ceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhh
Q 007352 258 VWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAK 317 (607)
Q Consensus 258 VwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAk 317 (607)
|-+|-+||+.+ .++|...||+|++|+.++ +..|++.|| .+.|..+..+|+
T Consensus 284 v~~l~GiG~~~--~~~L~~lGI~T~gdL~~~----~~~L~~~fG----~~~~~~l~~~a~ 333 (459)
T 1t94_A 284 IRKVSGIGKVT--EKMLKALGIITCTELYQQ----RALLSLLFS----ETSWHYFLHISL 333 (459)
T ss_dssp GGGCTTSCHHH--HHHHHHTTCCBHHHHHHT----HHHHHHHSC----HHHHHHHHHHHT
T ss_pred HHhcCCcCHHH--HHHHHHcCCCcHHHHHhh----HHHHHHHhC----hHhHHHHHHHHc
Confidence 66666788654 489999999999998874 356999886 345666777776
No 16
>1jx4_A DNA polymerase IV (family Y); protein-DNA complex, Y-family, transferase-D complex; HET: DNA MSE ADI; 1.70A {Sulfolobus solfataricus} SCOP: d.240.1.1 e.8.1.7 PDB: 1jxl_A* 1n48_A* 1n56_A* 1ryr_A* 1rys_A* 1s0m_A* 1s0n_A* 1s0o_A* 1s10_A* 1s97_A* 1s9f_A* 2ia6_A* 2ibk_A* 2r8g_A* 2r8h_A* 2r8i_A* 2rdj_A* 3fds_A* 3m9m_B* 3m9n_B* ...
Probab=35.46 E-value=10 Score=38.59 Aligned_cols=54 Identities=20% Similarity=0.212 Sum_probs=40.4
Q ss_pred ceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhhccc
Q 007352 258 VWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKTCV 320 (607)
Q Consensus 258 VwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCv 320 (607)
|..|-+||+ ...++|...||+|++|+.+ .++..|++.||. .....+..||+--+
T Consensus 180 v~~l~GiG~--~~~~~L~~~Gi~t~~dL~~---~~~~~L~~~fG~----~~g~~l~~~a~G~d 233 (352)
T 1jx4_A 180 IADVPGIGN--ITAEKLKKLGINKLVDTLS---IEFDKLKGMIGE----AKAKYLISLARDEY 233 (352)
T ss_dssp GGGSTTCCH--HHHHHHHTTTCCBGGGGGS---SCHHHHHHHHCH----HHHHHHHHHHTTCC
T ss_pred CCcccccCH--HHHHHHHHcCCchHHHHHC---CCHHHHHHhcCh----hHHHHHHHHhCCCC
Confidence 555666775 4568999999999999864 688999999974 22566777776433
No 17
>2q0z_X Protein Pro2281; SEC63, SEC, NESG, HR1979, structural genomics, translocase, northeast structural genomics consortium, PSI-2; 2.00A {Homo sapiens} SCOP: a.289.1.1 b.1.18.22
Probab=34.31 E-value=32 Score=35.01 Aligned_cols=55 Identities=9% Similarity=0.186 Sum_probs=42.9
Q ss_pred cceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhhc
Q 007352 257 EVWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKT 318 (607)
Q Consensus 257 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt 318 (607)
+..-|.+|+.+ .-++|.++||.|++||.. .++.++..+|| +++..-+.+.+-+..
T Consensus 162 pL~Qlp~i~~~--~~~~l~~~~i~s~~~l~~---~~~~e~~~ll~--l~~~~~~~i~~~~~~ 216 (339)
T 2q0z_X 162 YLKQLPHFTSE--HIKRCTDKGVESVFDIME---MEDEERNALLQ--LTDSQIADVARFCNR 216 (339)
T ss_dssp GGGGSTTCCHH--HHHHHHHTTCCSHHHHHH---SCHHHHHHHHC--CCHHHHHHHHHHHTT
T ss_pred ceecCCCCCHH--HHHHHHhcCCCCHHHHHh---CCHHHHHHHHC--CCHHHHHHHHHHHHh
Confidence 46678888875 448899999999999875 78999999994 887776776665543
No 18
>3bq0_A POL IV, DBH, DNA polymerase IV; Y-family, lesion bypass; HET: DNA; 2.60A {Sulfolobus acidocaldarius} SCOP: d.240.1.1 e.8.1.7 PDB: 3bq1_A* 3bq2_A* 1k1q_A 1k1s_A
Probab=32.25 E-value=13 Score=38.02 Aligned_cols=54 Identities=19% Similarity=0.235 Sum_probs=40.0
Q ss_pred ceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhhccc
Q 007352 258 VWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKTCV 320 (607)
Q Consensus 258 VwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCv 320 (607)
|..|-+||+ ...++|...||+|++|+.+ .++..|++.||. .....+.+||+--+
T Consensus 181 v~~l~GiG~--~~~~~L~~~Gi~t~~dL~~---~~~~~L~~~fG~----~~g~~l~~~a~G~d 234 (354)
T 3bq0_A 181 IDEIPGIGS--VLARRLNELGIQKLRDILS---KNYNELEKITGK----AKALYLLKLAQNKY 234 (354)
T ss_dssp STTSTTCCH--HHHHHHTTTTCCBGGGGGG---SCHHHHHHHHCH----HHHHHHHHHHTTCC
T ss_pred cccccCcCH--HHHHHHHHcCCccHHHHhc---CCHHHHHHHHCH----HHHHHHHHHhCCCC
Confidence 444446665 5669999999999999875 688999999974 22667777877443
No 19
>4f4y_A POL IV, DNA polymerase IV; Y-family polymerase, transferase-DNA complex; HET: DNA DCP; 2.34A {Sulfolobus acidocaldarius} PDB: 3bq0_A* 3bq1_A* 3bq2_A* 4hyk_A* 1k1q_A 1k1s_A
Probab=27.66 E-value=8 Score=39.98 Aligned_cols=48 Identities=21% Similarity=0.278 Sum_probs=35.7
Q ss_pred eeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhh
Q 007352 261 LDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAK 317 (607)
Q Consensus 261 LekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAk 317 (607)
|-+||+. .-++|...||+|++|+.+ .++..|++.||. +....+..+|+
T Consensus 184 l~GiG~~--~~~~L~~~GI~Ti~dL~~---~~~~~L~~~fG~----~~g~~l~~~a~ 231 (362)
T 4f4y_A 184 IPGIGSV--LARRLNELGIQKLRDILS---KNYNELEKITGK----AKALYLLKLAQ 231 (362)
T ss_dssp STTCCST--THHHHHHTTCCBGGGGTT---SCHHHHHHHHCH----HHHHHHHHHHT
T ss_pred ccCCCHH--HHHHHHHcCCChHHHHhc---CCHHHHHHHhCh----HHHHHHHHHhc
Confidence 3366664 458999999999999764 688999999973 34555666665
No 20
>3gqc_A DNA repair protein REV1; protein-DNA complex, DNA damage, DNA repair, DNA synthesis, binding, magnesium, metal-binding; HET: DNA DOC DCP; 2.50A {Homo sapiens}
Probab=25.52 E-value=15 Score=40.09 Aligned_cols=51 Identities=20% Similarity=0.204 Sum_probs=36.3
Q ss_pred ceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhh
Q 007352 258 VWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAK 317 (607)
Q Consensus 258 VwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAk 317 (607)
|-.|-+||+ ..-++|...||+|++|+. ..++..|++.||.. ....+..+|+
T Consensus 317 V~~l~GIG~--~t~~kL~~lGI~TigDLa---~~~~~~L~~~fG~~----~g~~L~~~a~ 367 (504)
T 3gqc_A 317 VTNLPGVGH--SMESKLASLGIKTCGDLQ---YMTMAKLQKEFGPK----TGQMLYRFCR 367 (504)
T ss_dssp GGGSTTCCH--HHHHHHHHTTCCBHHHHT---TSCHHHHHHHHCHH----HHHHHHHHTT
T ss_pred hhHhhCcCH--HHHHHHHHcCCCcHHHHH---hccHHHHHHhhChh----HHHHHHHHhc
Confidence 444556666 455899999999999986 46889999999742 2333445555
No 21
>3bqs_A Uncharacterized protein; 10114F, NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.42A {Listeria monocytogenes str} PDB: 3bqt_A 3mab_A
Probab=24.26 E-value=25 Score=30.22 Aligned_cols=76 Identities=22% Similarity=0.397 Sum_probs=49.6
Q ss_pred ceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhhcccCCCeeEEEEecCCccEE
Q 007352 258 VWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKTCVLGGKLYVYYADGTQNTG 337 (607)
Q Consensus 258 VwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl~~k~y~y~~~~~~nvg 337 (607)
+-.|-.||+. .-+.|.+.||+||+||..+ ++ .++|..+.+. ...
T Consensus 6 L~~LPNiG~~--~e~~L~~vGI~s~e~L~~~---Ga------------~~ay~rL~~~-----------------~~~-- 49 (93)
T 3bqs_A 6 LSELPNIGKV--LEQDLIKAGIKTPVELKDV---GS------------KEAFLRIWEN-----------------DSS-- 49 (93)
T ss_dssp GGGSTTCCHH--HHHHHHHTTCCSHHHHHHH---HH------------HHHHHHHHTT-----------------CTT--
T ss_pred hhcCCCCCHH--HHHHHHHcCCCCHHHHHhC---CH------------HHHHHHHHHH-----------------CCC--
Confidence 3445566764 4488999999999998864 22 2233333322 011
Q ss_pred EEEcccceeeeeecCCeeeeCCCCChHhHHHHHHH
Q 007352 338 VVFNNIYELRGLIDDGQFVSLESLTHSQKISVDSL 372 (607)
Q Consensus 338 l~FN~i~~lVG~~~~g~y~s~d~L~~~qk~~V~~L 372 (607)
+.+|.+|.|+|++-| +....|+...|....+.
T Consensus 50 ~c~~~L~aL~gAi~G---~~w~~l~~~~K~~L~~~ 81 (93)
T 3bqs_A 50 VCMSELYALEGAVQG---IRWHGLDEAKKIELKKF 81 (93)
T ss_dssp CCHHHHHHHHHHHHT---SCGGGSCHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHcC---CCHHHCCHHHHHHHHHH
Confidence 223778889999977 77788998888776543
No 22
>1u9l_A Transcription elongation protein NUSA; escherichia coli NUSA, phage lambda protein N, regulation of RNA binding, transcription antitermination, X-RAY crystallography; 1.90A {Escherichia coli} SCOP: a.60.4.2 PDB: 1wcl_A
Probab=23.14 E-value=37 Score=27.74 Aligned_cols=50 Identities=22% Similarity=0.268 Sum_probs=40.4
Q ss_pred cchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhhcccC
Q 007352 267 DGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKTCVL 321 (607)
Q Consensus 267 dG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl 321 (607)
+-..-++|..+|++||++. .+.+++.|-.|- |++...=+.+.+-|+.++.
T Consensus 15 ~e~~a~~L~~~Gf~tve~v---A~~~~~eL~~I~--G~dE~~a~~l~~~A~~~l~ 64 (70)
T 1u9l_A 15 DEDFATVLVEEGFSTLEEL---AYVPMKELLEIE--GLDEPTVEALRERAKNALA 64 (70)
T ss_dssp CHHHHHHHHHTTCCCHHHH---HHSCHHHHTTST--TCCHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHcCcCcHHHH---HcCCHHHHhhcc--CCCHHHHHHHHHHHHHHHH
Confidence 4456789999999999964 556777777775 7899999999999987754
No 23
>1z3e_B DNA-directed RNA polymerase alpha chain; bacterial transcription regulation, disulfide stress; 1.50A {Bacillus subtilis} SCOP: a.60.3.1 PDB: 3ihq_B
Probab=23.00 E-value=46 Score=27.45 Aligned_cols=25 Identities=20% Similarity=0.380 Sum_probs=19.3
Q ss_pred hhhhhCCcccHHHHHHHHhcChHHHHHH
Q 007352 272 KKLMKADIVTVEDFLRILVRDPQKLRNI 299 (607)
Q Consensus 272 krL~~~gI~tV~dFLrl~~~d~~kLR~i 299 (607)
.-|..+||+||+|+++ +.++.|.+|
T Consensus 22 NcLkragI~Tv~dL~~---~s~~dLlki 46 (73)
T 1z3e_B 22 NCLKRAGINTVQELAN---KTEEDMMKV 46 (73)
T ss_dssp HHHHHTTCCBHHHHHT---SCHHHHHTS
T ss_pred HHHHHcCCCcHHHHHc---CCHHHHHHc
Confidence 4688999999999877 456666666
No 24
>3k4g_A DNA-directed RNA polymerase subunit alpha; bacterial transcription regulation, DNA-directed RNA polymer nucleotidyltransferase; HET: MLY; 2.05A {Escherichia coli k-12} SCOP: a.60.3.1 PDB: 3n4m_B* 1lb2_B* 3n97_B* 1xs9_D
Probab=21.23 E-value=51 Score=28.23 Aligned_cols=38 Identities=11% Similarity=0.097 Sum_probs=24.2
Q ss_pred hhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHH
Q 007352 272 KKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVE 314 (607)
Q Consensus 272 krL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~ 314 (607)
.-|+.+||+||+|+++. +++.|.+|= |+-.|.-+.+.+
T Consensus 25 NcLkragI~Tv~dL~~~---se~dLlki~--n~G~KSl~EI~~ 62 (86)
T 3k4g_A 25 NCLXAEAIHYIGDLVQR---TEVELLXTP--NLGXXSLTEIXD 62 (86)
T ss_dssp HHHHHTTCCBHHHHHHS---CHHHHHTST--TCCHHHHHHHHH
T ss_pred HHHHHcCCCcHHHHHhC---CHHHHhhcc--ccCcccHHHHHH
Confidence 46899999999998774 455555552 344444444443
Done!