Query 009611
Match_columns 531
No_of_seqs 140 out of 165
Neff 4.0
Searched_HMMs 29240
Date Mon Mar 25 09:04:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009611.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/009611hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1wcn_A Transcription elongatio 92.1 0.04 1.4E-06 44.6 0.9 62 178-246 5-67 (70)
2 2kz3_A Putative uncharacterize 86.9 0.53 1.8E-05 39.4 3.8 40 195-239 17-56 (83)
3 2i1q_A DNA repair and recombin 77.1 0.91 3.1E-05 44.3 1.9 59 180-245 3-61 (322)
4 3mab_A Uncharacterized protein 74.6 0.79 2.7E-05 39.1 0.7 75 183-296 7-81 (93)
5 3lda_A DNA repair protein RAD5 73.5 2.2 7.4E-05 44.3 3.7 62 180-246 81-142 (400)
6 1b22_A DNA repair protein RAD5 69.7 1 3.5E-05 39.6 0.2 62 181-247 24-85 (114)
7 2z43_A DNA repair and recombin 67.8 1.1 3.9E-05 44.1 0.1 57 181-244 13-69 (324)
8 1pzn_A RAD51, DNA repair and r 65.1 3.4 0.00011 41.6 2.9 59 181-246 36-94 (349)
9 3bqs_A Uncharacterized protein 63.3 1.4 4.9E-05 37.4 -0.1 76 182-296 6-81 (93)
10 1v5w_A DMC1, meiotic recombina 62.7 1.7 5.8E-05 43.4 0.3 59 181-244 26-84 (343)
11 4dez_A POL IV 1, DNA polymeras 52.6 3 0.0001 41.9 0.1 51 182-241 180-230 (356)
12 3pzp_A DNA polymerase kappa; D 50.2 8.5 0.00029 41.2 3.1 51 182-242 340-390 (517)
13 3osn_A DNA polymerase IOTA; ho 45.9 4.6 0.00016 42.1 0.2 51 182-241 236-286 (420)
14 3im1_A Protein SNU246, PRE-mRN 44.0 14 0.00046 36.8 3.3 55 181-242 158-212 (328)
15 2aq4_A DNA repair protein REV1 42.8 9.2 0.00031 39.7 1.9 52 182-241 243-296 (434)
16 1t94_A Polymerase (DNA directe 41.6 13 0.00046 38.8 2.9 50 182-241 284-333 (459)
17 1jx4_A DNA polymerase IV (fami 38.4 9 0.00031 38.4 1.0 54 182-244 180-233 (352)
18 2q0z_X Protein Pro2281; SEC63, 37.1 28 0.00095 34.8 4.3 55 181-242 162-216 (339)
19 3bq0_A POL IV, DBH, DNA polyme 35.1 11 0.00037 37.8 0.9 54 182-244 181-234 (354)
20 4f4y_A POL IV, DNA polymerase 29.9 6.7 0.00023 39.8 -1.6 48 185-241 184-231 (362)
21 3gqc_A DNA repair protein REV1 27.8 13 0.00045 39.8 0.2 51 182-241 317-367 (504)
22 1z3e_B DNA-directed RNA polyme 24.7 42 0.0014 27.2 2.5 25 196-223 22-46 (73)
23 1u9l_A Transcription elongatio 23.3 37 0.0013 27.2 2.0 50 191-245 15-64 (70)
24 3k4g_A DNA-directed RNA polyme 22.4 47 0.0016 27.9 2.5 37 196-237 25-61 (86)
25 2va8_A SSO2462, SKI2-type heli 22.2 45 0.0016 35.9 3.0 48 184-241 661-708 (715)
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=92.07 E-value=0.04 Score=44.58 Aligned_cols=62 Identities=24% Similarity=0.407 Sum_probs=51.0
Q ss_pred CCCcceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhcc-cccC
Q 009611 178 LHDEVWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKT-CVLG 246 (531)
Q Consensus 178 L~DeVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt-Cvl~ 246 (531)
+.|++-.|++|+..-+ ++|.++||+||+|+.. .++..|-.|. |+|...=+.++.-|+. |-+.
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 9999999999998754 4788898887 7899999999999998 7553
No 2
>2kz3_A Putative uncharacterized protein RAD51L3; RAD51D, homologous recombination, unknown function; NMR {Homo sapiens}
Probab=86.90 E-value=0.53 Score=39.42 Aligned_cols=40 Identities=20% Similarity=0.173 Sum_probs=30.6
Q ss_pred hhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHh
Q 009611 195 HKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEH 239 (531)
Q Consensus 195 hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~H 239 (531)
-++|.+++|.||+||+. .|+.+|.+++ |+|-+.=-.+..|
T Consensus 17 ~~~L~~~~I~Tv~Dfl~---~d~~eL~~~~--~ls~~~v~~l~r~ 56 (83)
T 2kz3_A 17 IQLLRSHRIKTVVDLVS---ADLEEVAQKC--GLSYKALVALRRV 56 (83)
T ss_dssp HHHHHHTTCCCHHHHTT---SCHHHHHHHH--TCCHHHHHHHHHH
T ss_pred HHHHHHCCCCCHHHHHh---CCHHHHHHHh--CCCHHHHHHHHHH
Confidence 48999999999999975 7999999998 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=77.14 E-value=0.91 Score=44.32 Aligned_cols=59 Identities=17% Similarity=0.209 Sum_probs=43.7
Q ss_pred CcceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhccccc
Q 009611 180 DEVWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKTCVL 245 (531)
Q Consensus 180 DeVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl 245 (531)
+++..|++|+.. .-++|.++||+||+||+. .++..|-++. |+|.+.=+.+++.|+.+..
T Consensus 3 ~~~~~l~gi~~~--~~~kL~~~gi~t~~~~~~---~~~~~L~~~~--gis~~~a~~~i~~a~~~~~ 61 (322)
T 2i1q_A 3 DNLTDLPGVGPS--TAEKLVEAGYIDFMKIAT---ATVGELTDIE--GISEKAAAKMIMGARDLCD 61 (322)
T ss_dssp --CTTSTTCCHH--HHHHHHHHTCCSHHHHHT---CCHHHHHTST--TCCHHHHHHHHHHHHHHTT
T ss_pred ccHhhcCCCCHH--HHHHHHHcCCCcHHHHHh---CCHHHHHHhh--CcCHHHHHHHHHHHHHhhh
Confidence 456677766554 569999999999999985 4577777775 6788877788888877643
No 4
>3mab_A Uncharacterized protein; NYSGXRC, PSI-2, structural genomics; 1.42A {Listeria monocytogenes} PDB: 3bqt_A
Probab=74.62 E-value=0.79 Score=39.09 Aligned_cols=75 Identities=21% Similarity=0.354 Sum_probs=49.9
Q ss_pred eeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhcccccCCceEEEEecCCccEEE
Q 009611 183 WRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKTCVLGGKLYVYYADGTQNTGV 262 (531)
Q Consensus 183 wRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl~~k~y~y~~~~~~nv~l 262 (531)
-.|-+||+.-. +.|.+.||+||+||..+ ++ .+.|..+.++- .+ +
T Consensus 7 ~dLPNig~~~e--~~L~~~GI~t~~~Lr~~---Ga------------~~ay~rLk~~~-----------------~~--~ 50 (93)
T 3mab_A 7 SELPNIGKVLE--QDLIKAGIKTPVELKDV---GS------------KEAFLRIWEND-----------------SS--V 50 (93)
T ss_dssp GGSTTCCHHHH--HHHHHTTCCSHHHHHHH---CH------------HHHHHHHHHHC-----------------TT--C
T ss_pred hhCCCCCHHHH--HHHHHcCCCCHHHHHhC---CH------------HHHHHHHHHhC-----------------CC--C
Confidence 34455666533 88999999999998774 22 23333333220 11 2
Q ss_pred EEcccceeeeeecCCeeeeCCCCChHhHHHHHHH
Q 009611 263 VFNNIYELRGLIDDGQFVSLESLTHSQKISVDSL 296 (531)
Q Consensus 263 ~FN~i~~lvG~~~~g~y~s~d~L~~~qk~~V~~L 296 (531)
-+|.+|.|+|++-| +....|++..|....++
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 37889999999988 67788999988776554
No 5
>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=73.50 E-value=2.2 Score=44.29 Aligned_cols=62 Identities=21% Similarity=0.102 Sum_probs=50.1
Q ss_pred CcceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhcccccC
Q 009611 180 DEVWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKTCVLG 246 (531)
Q Consensus 180 DeVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl~ 246 (531)
.+|-+|+..|-.-..-++|.++||+||++|+. .++..|.++. |+|...=+.+++.|++++..
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 46778888555555669999999999999975 5888999987 68888888888888876654
No 6
>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=69.74 E-value=1 Score=39.65 Aligned_cols=62 Identities=27% Similarity=0.263 Sum_probs=49.9
Q ss_pred cceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhcccccCC
Q 009611 181 EVWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKTCVLGG 247 (531)
Q Consensus 181 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl~~ 247 (531)
+|.+|+..|-.-+.-++|.++|++||++. ...++..|.+|- |+|...=+.+++=|+.++..+
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 68889855444456799999999999976 456788999986 789999999999999887544
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=67.76 E-value=1.1 Score=44.11 Aligned_cols=57 Identities=19% Similarity=0.306 Sum_probs=0.0
Q ss_pred cceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhcccc
Q 009611 181 EVWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKTCV 244 (531)
Q Consensus 181 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCv 244 (531)
++.+|.+|+.. .-++|.++||+||++|+.. ++..|-++. |+|...=+.+++.|..+.
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 67888877665 4499999999999999854 455566665 566666666777776653
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=65.06 E-value=3.4 Score=41.60 Aligned_cols=59 Identities=20% Similarity=0.226 Sum_probs=45.5
Q ss_pred cceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhcccccC
Q 009611 181 EVWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKTCVLG 246 (531)
Q Consensus 181 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl~ 246 (531)
++.+|.+|+. ...++|.++||+||++++. .++..|-++. |+|...=+.+++.|.++...
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 4666665554 5779999999999999875 5788888887 57877778888888776543
No 9
>3bqs_A Uncharacterized protein; 10114F, NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.42A {Listeria monocytogenes str} PDB: 3bqt_A 3mab_A
Probab=63.28 E-value=1.4 Score=37.44 Aligned_cols=76 Identities=22% Similarity=0.397 Sum_probs=49.1
Q ss_pred ceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhcccccCCceEEEEecCCccEE
Q 009611 182 VWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKTCVLGGKLYVYYADGTQNTG 261 (531)
Q Consensus 182 VwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl~~k~y~y~~~~~~nv~ 261 (531)
+-.|-.||+. .-+.|.+.||+||+||..+ ++ .++|..+.+. ...
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 3345556665 3488999999999998864 22 2233333221 011
Q ss_pred EEEcccceeeeeecCCeeeeCCCCChHhHHHHHHH
Q 009611 262 VVFNNIYELRGLIDDGQFVSLESLTHSQKISVDSL 296 (531)
Q Consensus 262 l~FN~i~~lvG~~~~g~y~s~d~L~~~qk~~V~~L 296 (531)
+-++.+|.|+||+-| ++...|++..|....+.
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 223778889999987 77788998888776543
No 10
>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=62.71 E-value=1.7 Score=43.43 Aligned_cols=59 Identities=22% Similarity=0.220 Sum_probs=0.0
Q ss_pred cceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhcccc
Q 009611 181 EVWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKTCV 244 (531)
Q Consensus 181 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCv 244 (531)
++++|+.-|-.=..-++|.++||+||++|+. .++.+|.++. |+|...=+.+++.|..+.
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 6889984444444569999999999999985 3456666665 456666666666666543
No 11
>4dez_A POL IV 1, DNA polymerase IV 1; Y-family, transferase; HET: DNA; 2.60A {Mycobacterium smegmatis}
Probab=52.62 E-value=3 Score=41.92 Aligned_cols=51 Identities=29% Similarity=0.222 Sum_probs=36.1
Q ss_pred ceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhc
Q 009611 182 VWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAK 241 (531)
Q Consensus 182 VwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAk 241 (531)
|-.|-+||+.- -++|...||+|++|+. ..++..|++.||..+ -..+.++|+
T Consensus 180 v~~l~GiG~~~--~~~L~~~GI~Ti~dL~---~~~~~~L~~~fG~~~----g~~l~~~a~ 230 (356)
T 4dez_A 180 PDALWGVGPKT--TKKLAAMGITTVADLA---VTDPSVLTTAFGPST----GLWLLLLAK 230 (356)
T ss_dssp GGGSTTCCHHH--HHHHHHTTCCSHHHHH---TSCHHHHHHHHCHHH----HHHHHHHHT
T ss_pred HHHHcCCchhH--HHHHHHcCCCeecccc---cCCHHHHHHHhCChH----HHHHHHHHc
Confidence 44444677654 4899999999999986 468999999997422 233445554
No 12
>3pzp_A DNA polymerase kappa; DNA nucleotidyltransferase, DNA binding nucleotide binding M binding, nucleus; HET: DNA TTD DTP; 3.34A {Homo sapiens}
Probab=50.21 E-value=8.5 Score=41.25 Aligned_cols=51 Identities=16% Similarity=0.243 Sum_probs=38.6
Q ss_pred ceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhcc
Q 009611 182 VWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKT 242 (531)
Q Consensus 182 VwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt 242 (531)
|-+|-+||+.+. ++|...||+|++|+.++ +..|+..|| ...|..+.++|.-
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 555557787554 99999999999999885 357888875 3568877777653
No 13
>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=45.89 E-value=4.6 Score=42.08 Aligned_cols=51 Identities=20% Similarity=0.167 Sum_probs=37.3
Q ss_pred ceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhc
Q 009611 182 VWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAK 241 (531)
Q Consensus 182 VwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAk 241 (531)
|-+|-+||+. .-++|...||+|++|+.+ .++..|++.||. +....+.+||+
T Consensus 236 v~~l~GIG~~--t~~~L~~lGI~TigdLa~---~~~~~L~~~fG~----~~g~~L~~~a~ 286 (420)
T 3osn_A 236 IKEIPGIGYK--TAKCLEALGINSVRDLQT---FSPKILEKELGI----SVAQRIQKLSF 286 (420)
T ss_dssp GGGSTTCCHH--HHHHHHHTTCCSHHHHHH---SCHHHHHHHHHH----HHHHHHHHHHT
T ss_pred HHHccCCCHH--HHHHHHHhCCCcHHHHhh---CCHHHHHHHhCc----hHHHHHHHHhc
Confidence 3333355554 559999999999999865 588999999974 34566667775
No 14
>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=44.03 E-value=14 Score=36.85 Aligned_cols=55 Identities=11% Similarity=0.192 Sum_probs=43.6
Q ss_pred cceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhcc
Q 009611 181 EVWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKT 242 (531)
Q Consensus 181 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt 242 (531)
+..-|.+|+.+-+ ++|.++||.|++|+.. .+++++.++| +++++.-+.+.+-|..
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 4567888887644 7799999999999865 5899999998 6888888877776654
No 15
>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=42.77 E-value=9.2 Score=39.74 Aligned_cols=52 Identities=12% Similarity=0.118 Sum_probs=38.4
Q ss_pred ceeeeeecccchhhhhhhh--CCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhc
Q 009611 182 VWRLDRIAKDGALHKKLMK--ADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAK 241 (531)
Q Consensus 182 VwRLekIgKdG~~hkrL~~--~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAk 241 (531)
|-.|-+||+ ..-++|.. .||+|++|+.++. ++..|++.||. +....+..||+
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 444455665 45589999 8999999999874 88999999974 34455556665
No 16
>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=41.58 E-value=13 Score=38.76 Aligned_cols=50 Identities=16% Similarity=0.258 Sum_probs=37.6
Q ss_pred ceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhc
Q 009611 182 VWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAK 241 (531)
Q Consensus 182 VwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAk 241 (531)
|-+|-+||+.+ .++|...||+|++|+.++ +..|++.|| .+.|..+.++|+
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 56666777654 489999999999998874 356999886 345666777776
No 17
>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=38.36 E-value=9 Score=38.39 Aligned_cols=54 Identities=20% Similarity=0.212 Sum_probs=39.9
Q ss_pred ceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhcccc
Q 009611 182 VWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKTCV 244 (531)
Q Consensus 182 VwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCv 244 (531)
|..|-+||+ ...++|...||+|++|+.+ .++..|++.||. .....+.+||+--+
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 555556665 4568999999999999864 688999999974 22566777776433
No 18
>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=37.11 E-value=28 Score=34.80 Aligned_cols=55 Identities=9% Similarity=0.186 Sum_probs=43.1
Q ss_pred cceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhcc
Q 009611 181 EVWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKT 242 (531)
Q Consensus 181 eVwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAkt 242 (531)
...-|.+|+.+ .-++|.++||.|++||.. .++.++..+|| +++..-+.+.+-+..
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 56778888876 348899999999999875 78999999994 887776777665543
No 19
>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=35.13 E-value=11 Score=37.84 Aligned_cols=54 Identities=19% Similarity=0.235 Sum_probs=39.6
Q ss_pred ceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhcccc
Q 009611 182 VWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKTCV 244 (531)
Q Consensus 182 VwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCv 244 (531)
|..|-+||+ ...++|...||+|++|+.+ .++..|++.||. .....+.+||+--+
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 344445665 4569999999999999875 688999999974 22666777777433
No 20
>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=29.94 E-value=6.7 Score=39.83 Aligned_cols=48 Identities=21% Similarity=0.278 Sum_probs=35.4
Q ss_pred eeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhc
Q 009611 185 LDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAK 241 (531)
Q Consensus 185 LekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAk 241 (531)
|-+||+. .-++|...||+|++|+.+ .++..|++.||. +....+..+|+
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 3356665 448999999999999764 688999999973 34555666665
No 21
>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=27.78 E-value=13 Score=39.85 Aligned_cols=51 Identities=20% Similarity=0.201 Sum_probs=35.9
Q ss_pred ceeeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhc
Q 009611 182 VWRLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAK 241 (531)
Q Consensus 182 VwRLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAk 241 (531)
|-.|-+||+. .-++|...||+|++|+. ..++..|++.||.. ....+..+|+
T Consensus 317 V~~l~GIG~~--t~~kL~~lGI~TigDLa---~~~~~~L~~~fG~~----~g~~L~~~a~ 367 (504)
T 3gqc_A 317 VTNLPGVGHS--MESKLASLGIKTCGDLQ---YMTMAKLQKEFGPK----TGQMLYRFCR 367 (504)
T ss_dssp GGGSTTCCHH--HHHHHHHTTCCBHHHHT---TSCHHHHHHHHCHH----HHHHHHHHTT
T ss_pred hhHhhCcCHH--HHHHHHHcCCCcHHHHH---hccHHHHHHhhChh----HHHHHHHHhc
Confidence 4444466654 45899999999999986 46889999999752 2333445554
No 22
>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=24.67 E-value=42 Score=27.23 Aligned_cols=25 Identities=20% Similarity=0.380 Sum_probs=19.4
Q ss_pred hhhhhCCcccHHHHHHHHhcChHHHHHH
Q 009611 196 KKLMKADIVTVEDFLRILVRDPQKLRNI 223 (531)
Q Consensus 196 krL~~~gI~tV~dFLrl~~~d~~kLR~i 223 (531)
.-|+.+||+||+|+++ +.++.|.+|
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 5688999999999876 455666666
No 23
>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=23.28 E-value=37 Score=27.23 Aligned_cols=50 Identities=22% Similarity=0.268 Sum_probs=40.0
Q ss_pred cchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhccccc
Q 009611 191 DGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAKTCVL 245 (531)
Q Consensus 191 dG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAktCvl 245 (531)
+-..-++|..+|++||++. .+.+++.|-.|- |++...=+.+.+-|+..+.
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 3456689999999999964 456777777775 7899999999999987754
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=22.38 E-value=47 Score=27.93 Aligned_cols=37 Identities=11% Similarity=0.076 Sum_probs=23.5
Q ss_pred hhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHH
Q 009611 196 KKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTV 237 (531)
Q Consensus 196 krL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v 237 (531)
.-|+.+||+||+|+++. +++.|.+|= |+-.|.-+.+.
T Consensus 25 NcLkragI~Tv~dL~~~---se~dLlki~--n~G~KSl~EI~ 61 (86)
T 3k4g_A 25 NCLXAEAIHYIGDLVQR---TEVELLXTP--NLGXXSLTEIX 61 (86)
T ss_dssp HHHHHTTCCBHHHHHHS---CHHHHHTST--TCCHHHHHHHH
T ss_pred HHHHHcCCCcHHHHHhC---CHHHHhhcc--ccCcccHHHHH
Confidence 57899999999998764 444555542 33344444443
No 25
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Probab=22.16 E-value=45 Score=35.90 Aligned_cols=48 Identities=23% Similarity=0.490 Sum_probs=35.4
Q ss_pred eeeeecccchhhhhhhhCCcccHHHHHHHHhcChHHHHHHHcCCCCchhHHHHHHhhc
Q 009611 184 RLDRIAKDGALHKKLMKADIVTVEDFLRILVRDPQKLRNILGSGMSNRMWENTVEHAK 241 (531)
Q Consensus 184 RLekIgKdG~~hkrL~~~gI~tV~dFLrl~~~d~~kLR~iLg~gmS~k~We~~v~HAk 241 (531)
+|.+|+.. ..++|.++||.|++|+. .|+.+|.+++| .+.-+.+++-|+
T Consensus 661 qlp~i~~~--rar~L~~~g~~s~~~l~----~~~~~l~~~l~----~~~~~~i~~~~~ 708 (715)
T 2va8_A 661 QISGVGRK--RARLLYNNGIKELGDVV----MNPDKVKNLLG----QKLGEKVVQEAA 708 (715)
T ss_dssp TSTTCCHH--HHHHHHHTTCCSHHHHH----HCHHHHHHHHC----HHHHHHHHHHHH
T ss_pred hCCCCCHH--HHHHHHHcCCCCHHHHh----CCHHHHHHHhC----hhHHHHHHHHHH
Confidence 33444433 45788999999999965 68999999985 677777777554
Done!