Query 043314
Match_columns 273
No_of_seqs 112 out of 140
Neff 4.3
Searched_HMMs 29240
Date Mon Mar 25 05:56:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043314.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/043314hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1wcn_A Transcription elongatio 90.9 0.02 7E-07 42.3 -1.7 61 159-226 5-67 (70)
2 2kz3_A Putative uncharacterize 89.2 0.15 5.3E-06 39.0 1.8 29 176-207 17-45 (83)
3 1b22_A DNA repair protein RAD5 70.8 0.64 2.2E-05 37.3 -0.8 60 162-226 24-84 (114)
4 2z43_A DNA repair and recombin 70.5 0.88 3E-05 40.9 0.0 56 162-224 13-69 (324)
5 3lda_A DNA repair protein RAD5 68.7 1.5 5.1E-05 41.5 1.1 60 161-225 81-141 (400)
6 1v5w_A DMC1, meiotic recombina 68.4 1.2 3.9E-05 40.7 0.3 57 162-223 26-83 (343)
7 2i1q_A DNA repair and recombin 66.4 1.2 4E-05 39.6 -0.1 57 161-224 3-60 (322)
8 1pzn_A RAD51, DNA repair and r 57.5 4.2 0.00014 37.2 1.9 57 162-225 36-93 (349)
9 4dez_A POL IV 1, DNA polymeras 53.2 1.2 4.2E-05 40.8 -2.4 37 166-207 183-219 (356)
10 3pzp_A DNA polymerase kappa; D 47.9 4.5 0.00015 39.6 0.5 49 163-221 340-389 (517)
11 3osn_A DNA polymerase IOTA; ho 44.2 2.2 7.4E-05 40.6 -2.4 41 174-221 245-286 (420)
12 1t94_A Polymerase (DNA directe 42.7 5.7 0.00019 37.9 0.3 49 163-221 284-333 (459)
13 2aq4_A DNA repair protein REV1 40.2 6.4 0.00022 37.3 0.2 38 166-207 246-285 (434)
14 4f4y_A POL IV, DNA polymerase 38.3 7.9 0.00027 35.8 0.5 34 168-206 186-219 (362)
15 1z3e_B DNA-directed RNA polyme 36.6 13 0.00044 27.5 1.4 25 177-204 22-46 (73)
16 1jx4_A DNA polymerase IV (fami 36.4 7.2 0.00025 35.6 -0.1 53 163-224 180-233 (352)
17 3bq0_A POL IV, DBH, DNA polyme 34.1 8.7 0.0003 35.0 0.1 50 166-224 184-234 (354)
18 3k4g_A DNA-directed RNA polyme 30.0 22 0.00074 27.3 1.7 18 177-194 25-42 (86)
19 3gqc_A DNA repair protein REV1 29.9 4.3 0.00015 39.8 -2.9 38 165-207 319-356 (504)
20 2c9r_A COPC, copper resistance 28.8 94 0.0032 23.7 5.2 30 11-41 18-47 (102)
21 3im1_A Protein SNU246, PRE-mRN 28.0 30 0.001 31.2 2.6 52 162-220 158-210 (328)
22 3mab_A Uncharacterized protein 27.0 11 0.00037 29.1 -0.5 26 166-193 9-34 (93)
23 1eaq_A RUNT-related transcript 24.7 99 0.0034 25.7 4.8 34 90-125 76-109 (140)
24 2q0z_X Protein Pro2281; SEC63, 23.1 55 0.0019 29.6 3.3 52 162-220 162-214 (339)
25 3gfk_B DNA-directed RNA polyme 22.5 26 0.00087 26.4 0.8 17 177-193 29-45 (79)
26 2f8v_T Telethonin; sarcomere, 21.0 16 0.00055 31.2 -0.6 23 13-35 80-102 (167)
27 3euh_C MUKE, chromosome partit 21.0 70 0.0024 28.8 3.4 48 177-224 107-159 (234)
28 3bqs_A Uncharacterized protein 20.9 34 0.0012 26.2 1.3 26 166-193 9-34 (93)
29 3lxu_X Tripeptidyl-peptidase 2 20.1 56 0.0019 36.0 3.1 35 94-128 87-127 (1354)
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=90.94 E-value=0.02 Score=42.28 Aligned_cols=61 Identities=28% Similarity=0.398 Sum_probs=47.8
Q ss_pred CCCceeeeeeecCCCcccchhhhCCCccHHHHHHHhccChHHHHHHHcCCCCccchh-hhhhhhc-ccCC
Q 043314 159 LEDEVWRLGKIGRGGNFCGKLAASGIKTVQDFLKVSIVEPQKLRRILGTGMSEKMWD-TMKHART-CSMG 226 (273)
Q Consensus 159 L~DeVwRLe~IgKdG~~hk~L~~~~I~tV~dFLkl~~~d~~kLr~iLg~~ms~k~W~-~v~HAkt-C~l~ 226 (273)
+.|++-.|++|+..- -++|.++||+||+|+..+ +++.|-.|. |+|...=+ ++.-|+. |-+.
T Consensus 5 ~~~~l~~L~Gi~~~~--~~kL~e~Gi~TvedlA~~---~~~eL~~i~--gise~kA~~ii~aAr~~~w~~ 67 (70)
T 1wcn_A 5 PADDLLNLEGVDRDL--AFKLAARGVCTLEDLAEQ---GIDDLADIE--GLTDEKAGALIMAARNICWFG 67 (70)
T ss_dssp CCHHHHSSTTCCHHH--HHHHHTTTCCSHHHHHTS---CHHHHHTSS--SCCHHHHHHHHHHHHHHHTTC
T ss_pred hhhHHHHcCCCCHHH--HHHHHHcCCCcHHHHHcC---CHHHHHHcc--CCCHHHHHHHHHHHHHccCcc
Confidence 456777788776643 499999999999997654 788898886 68888878 9999987 6553
No 2
>2kz3_A Putative uncharacterized protein RAD51L3; RAD51D, homologous recombination, unknown function; NMR {Homo sapiens}
Probab=89.19 E-value=0.15 Score=38.96 Aligned_cols=29 Identities=24% Similarity=0.313 Sum_probs=25.2
Q ss_pred cchhhhCCCccHHHHHHHhccChHHHHHHHcC
Q 043314 176 CGKLAASGIKTVQDFLKVSIVEPQKLRRILGT 207 (273)
Q Consensus 176 hk~L~~~~I~tV~dFLkl~~~d~~kLr~iLg~ 207 (273)
-++|++++|.||+||+. .|+.+|.+++|.
T Consensus 17 ~~~L~~~~I~Tv~Dfl~---~d~~eL~~~~~l 45 (83)
T 2kz3_A 17 IQLLRSHRIKTVVDLVS---ADLEEVAQKCGL 45 (83)
T ss_dssp HHHHHHTTCCCHHHHTT---SCHHHHHHHHTC
T ss_pred HHHHHHCCCCCHHHHHh---CCHHHHHHHhCC
Confidence 48899999999999975 699999999853
No 3
>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=70.76 E-value=0.64 Score=37.34 Aligned_cols=60 Identities=27% Similarity=0.283 Sum_probs=48.4
Q ss_pred ceeeeeeecCCCcccchhhhCCCccHHHHHHHhccChHHHHHHHcCCCCccchh-hhhhhhcccCC
Q 043314 162 EVWRLGKIGRGGNFCGKLAASGIKTVQDFLKVSIVEPQKLRRILGTGMSEKMWD-TMKHARTCSMG 226 (273)
Q Consensus 162 eVwRLe~IgKdG~~hk~L~~~~I~tV~dFLkl~~~d~~kLr~iLg~~ms~k~W~-~v~HAktC~l~ 226 (273)
+|.+|+..|-.-..-++|.++|++||++. ...++..|.++- |+|...=+ +++=|+.++.-
T Consensus 24 ~I~~L~~~GIg~~~i~kL~eAG~~Tve~v---a~a~~~eL~~i~--GIse~ka~kIi~aA~kl~~~ 84 (114)
T 1b22_A 24 PISRLEQCGINANDVKKLEEAGFHTVEAV---AYAPKKELINIK--GISEAKADKILAEAAKLVPM 84 (114)
T ss_dssp CHHHHHHTTCSHHHHHHHHTTCCSSGGGB---TSSBHHHHHTTT--TCSTTHHHHHHHHHHHHSCC
T ss_pred cHHHHHhcCCCHHHHHHHHHcCcCcHHHH---HhCCHHHHHHcc--CCCHHHHHHHHHHHHHHccc
Confidence 68889965444466799999999999975 556888999985 68888888 99999887653
No 4
>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=70.51 E-value=0.88 Score=40.89 Aligned_cols=56 Identities=21% Similarity=0.285 Sum_probs=0.0
Q ss_pred ceeeeeeecCCCcccchhhhCCCccHHHHHHHhccChHHHHHHHcCCCCccchh-hhhhhhccc
Q 043314 162 EVWRLGKIGRGGNFCGKLAASGIKTVQDFLKVSIVEPQKLRRILGTGMSEKMWD-TMKHARTCS 224 (273)
Q Consensus 162 eVwRLe~IgKdG~~hk~L~~~~I~tV~dFLkl~~~d~~kLr~iLg~~ms~k~W~-~v~HAktC~ 224 (273)
++.+|.+|+.. .-++|+++||+||++|+.. ++..|.++. |+|...=+ +++.|+.+.
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 67888866654 5599999999999999854 455566664 35554444 666665543
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=68.73 E-value=1.5 Score=41.50 Aligned_cols=60 Identities=23% Similarity=0.159 Sum_probs=46.4
Q ss_pred CceeeeeeecCCCcccchhhhCCCccHHHHHHHhccChHHHHHHHcCCCCccchh-hhhhhhcccC
Q 043314 161 DEVWRLGKIGRGGNFCGKLAASGIKTVQDFLKVSIVEPQKLRRILGTGMSEKMWD-TMKHARTCSM 225 (273)
Q Consensus 161 DeVwRLe~IgKdG~~hk~L~~~~I~tV~dFLkl~~~d~~kLr~iLg~~ms~k~W~-~v~HAktC~l 225 (273)
.++-+|+..|-.-.--++|.++||.||++++. .++.+|.++. |+|...=+ +++.|++++.
T Consensus 81 ~~~~~l~~~gi~~~~~~~L~~ag~~tv~~~~~---~~~~~L~~~~--gis~~~~~~i~~~a~~~~~ 141 (400)
T 3lda_A 81 VPIEKLQVNGITMADVKKLRESGLHTAEAVAY---APRKDLLEIK--GISEAKADKLLNEAARLVP 141 (400)
T ss_dssp CBGGGGCCTTCCHHHHHHHHHTTCCBHHHHHH---SCHHHHHTST--TCCHHHHHHHHHHHHHHSC
T ss_pred cCHHHHHhCCCCHHHHHHHHHcCCCcHHHHHh---CCHHHHHHHh--CCCHHHHHHHHHHHHHhcc
Confidence 46778888655556679999999999999875 4788898886 57775555 8888887654
No 6
>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=68.45 E-value=1.2 Score=40.69 Aligned_cols=57 Identities=25% Similarity=0.207 Sum_probs=0.0
Q ss_pred ceeeeeeecCCCcccchhhhCCCccHHHHHHHhccChHHHHHHHcCCCCccchh-hhhhhhcc
Q 043314 162 EVWRLGKIGRGGNFCGKLAASGIKTVQDFLKVSIVEPQKLRRILGTGMSEKMWD-TMKHARTC 223 (273)
Q Consensus 162 eVwRLe~IgKdG~~hk~L~~~~I~tV~dFLkl~~~d~~kLr~iLg~~ms~k~W~-~v~HAktC 223 (273)
++++|+.-|-.-..-++|+++||+||++|+.. ++.+|.++. |+|...=+ +++.|..+
T Consensus 26 ~~~~l~~~g~~~~~~~~l~~~g~~t~~~~~~~---~~~~l~~~~--~is~~~~~~~~~~a~~~ 83 (343)
T 1v5w_A 26 DIDLLQKHGINVADIKKLKSVGICTIKGIQMT---TRRALCNVK--GLSEAKVDKIKEAANKL 83 (343)
T ss_dssp ---------------------------------------------------------------
T ss_pred cHHHHhhCCCCHHHHHHHHHcCCCcHHHHHhC---CHHHHHHhh--CCCHHHHHHHHHHHHhh
Confidence 68899954444456699999999999999854 455555554 34443333 55555443
No 7
>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=66.38 E-value=1.2 Score=39.63 Aligned_cols=57 Identities=25% Similarity=0.266 Sum_probs=38.5
Q ss_pred CceeeeeeecCCCcccchhhhCCCccHHHHHHHhccChHHHHHHHcCCCCccchh-hhhhhhccc
Q 043314 161 DEVWRLGKIGRGGNFCGKLAASGIKTVQDFLKVSIVEPQKLRRILGTGMSEKMWD-TMKHARTCS 224 (273)
Q Consensus 161 DeVwRLe~IgKdG~~hk~L~~~~I~tV~dFLkl~~~d~~kLr~iLg~~ms~k~W~-~v~HAktC~ 224 (273)
+++..|++|+. ...++|+++||.||+|++.+ ++..|-++. |+|.+.=+ +++.|+.+.
T Consensus 3 ~~~~~l~gi~~--~~~~kL~~~gi~t~~~~~~~---~~~~L~~~~--gis~~~a~~~i~~a~~~~ 60 (322)
T 2i1q_A 3 DNLTDLPGVGP--STAEKLVEAGYIDFMKIATA---TVGELTDIE--GISEKAAAKMIMGARDLC 60 (322)
T ss_dssp --CTTSTTCCH--HHHHHHHHHTCCSHHHHHTC---CHHHHHTST--TCCHHHHHHHHHHHHHHT
T ss_pred ccHhhcCCCCH--HHHHHHHHcCCCcHHHHHhC---CHHHHHHhh--CcCHHHHHHHHHHHHHhh
Confidence 45666775544 46699999999999999854 466676664 46665545 666666654
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=57.45 E-value=4.2 Score=37.21 Aligned_cols=57 Identities=23% Similarity=0.318 Sum_probs=41.0
Q ss_pred ceeeeeeecCCCcccchhhhCCCccHHHHHHHhccChHHHHHHHcCCCCccchh-hhhhhhcccC
Q 043314 162 EVWRLGKIGRGGNFCGKLAASGIKTVQDFLKVSIVEPQKLRRILGTGMSEKMWD-TMKHARTCSM 225 (273)
Q Consensus 162 eVwRLe~IgKdG~~hk~L~~~~I~tV~dFLkl~~~d~~kLr~iLg~~ms~k~W~-~v~HAktC~l 225 (273)
++.+|.+|+ -...++|.++||+||++++.+ ++..|.++. |+|...=+ +++.|.++..
T Consensus 36 ~l~~l~Gi~--~~~~~kL~~ag~~t~~~~~~~---~~~~L~~~~--~~s~~~~~~~l~~~~~~~~ 93 (349)
T 1pzn_A 36 SIEDLPGVG--PATAEKLREAGYDTLEAIAVA---SPIELKEVA--GISEGTALKIIQAARKAAN 93 (349)
T ss_dssp CSSCCTTCC--HHHHHHHHTTTCCSHHHHHTC---CHHHHHHHH--CCCHHHHHHHHHHHHHHCS
T ss_pred cHHHcCCCC--HHHHHHHHHcCCCcHHHHHhC---CHHHHHhhc--CCCHHHHHHHHHHHhhhcc
Confidence 466666444 367799999999999998754 677888886 46755556 7777766553
No 9
>4dez_A POL IV 1, DNA polymerase IV 1; Y-family, transferase; HET: DNA; 2.60A {Mycobacterium smegmatis}
Probab=53.20 E-value=1.2 Score=40.79 Aligned_cols=37 Identities=38% Similarity=0.486 Sum_probs=28.7
Q ss_pred eeeecCCCcccchhhhCCCccHHHHHHHhccChHHHHHHHcC
Q 043314 166 LGKIGRGGNFCGKLAASGIKTVQDFLKVSIVEPQKLRRILGT 207 (273)
Q Consensus 166 Le~IgKdG~~hk~L~~~~I~tV~dFLkl~~~d~~kLr~iLg~ 207 (273)
|-+||+. .-++|...||+|++|+.+ .++..|++.||.
T Consensus 183 l~GiG~~--~~~~L~~~GI~Ti~dL~~---~~~~~L~~~fG~ 219 (356)
T 4dez_A 183 LWGVGPK--TTKKLAAMGITTVADLAV---TDPSVLTTAFGP 219 (356)
T ss_dssp STTCCHH--HHHHHHHTTCCSHHHHHT---SCHHHHHHHHCH
T ss_pred HcCCchh--HHHHHHHcCCCeeccccc---CCHHHHHHHhCC
Confidence 3356653 458999999999999864 588889999874
No 10
>3pzp_A DNA polymerase kappa; DNA nucleotidyltransferase, DNA binding nucleotide binding M binding, nucleus; HET: DNA TTD DTP; 3.34A {Homo sapiens}
Probab=47.95 E-value=4.5 Score=39.62 Aligned_cols=49 Identities=20% Similarity=0.319 Sum_probs=35.0
Q ss_pred eeeeeeecCCCcccchhhhCCCccHHHHHHHhccChHHHHHHHcCCCCccchh-hhhhhh
Q 043314 163 VWRLGKIGRGGNFCGKLAASGIKTVQDFLKVSIVEPQKLRRILGTGMSEKMWD-TMKHAR 221 (273)
Q Consensus 163 VwRLe~IgKdG~~hk~L~~~~I~tV~dFLkl~~~d~~kLr~iLg~~ms~k~W~-~v~HAk 221 (273)
|-+|-+||+.+ .++|...||.|++|+..+ +..|+..|| ...|. ..++|.
T Consensus 340 V~kl~GIG~~t--~~~L~~lGI~TigDL~~~----~~~L~~~fG----~~~~~~l~~~a~ 389 (517)
T 3pzp_A 340 IRKVSGIGKVT--EKMLKALGIITCTELYQQ----RALLSLLFS----ETSWHYFLHISL 389 (517)
T ss_dssp GGGSTTCCHHH--HHHHHHTTCCBHHHHHHH----HHHHHHHSC----HHHHHHHHHHHT
T ss_pred hhhhccccHHH--HHHHHHhCCCcHHHHHhh----HHHHHHHhC----hHHHHHHHHHHc
Confidence 33444667544 599999999999999885 457888876 35577 666655
No 11
>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=44.20 E-value=2.2 Score=40.58 Aligned_cols=41 Identities=27% Similarity=0.336 Sum_probs=30.9
Q ss_pred cccchhhhCCCccHHHHHHHhccChHHHHHHHcCCCCccchh-hhhhhh
Q 043314 174 NFCGKLAASGIKTVQDFLKVSIVEPQKLRRILGTGMSEKMWD-TMKHAR 221 (273)
Q Consensus 174 ~~hk~L~~~~I~tV~dFLkl~~~d~~kLr~iLg~~ms~k~W~-~v~HAk 221 (273)
...++|...||.|++|+.+ .+++.|++.||.. ... ..+||+
T Consensus 245 ~t~~~L~~lGI~TigdLa~---~~~~~L~~~fG~~----~g~~L~~~a~ 286 (420)
T 3osn_A 245 KTAKCLEALGINSVRDLQT---FSPKILEKELGIS----VAQRIQKLSF 286 (420)
T ss_dssp HHHHHHHHTTCCSHHHHHH---SCHHHHHHHHHHH----HHHHHHHHHT
T ss_pred HHHHHHHHhCCCcHHHHhh---CCHHHHHHHhCch----HHHHHHHHhc
Confidence 4569999999999999875 4788999999832 334 445554
No 12
>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=42.72 E-value=5.7 Score=37.85 Aligned_cols=49 Identities=20% Similarity=0.312 Sum_probs=34.4
Q ss_pred eeeeeeecCCCcccchhhhCCCccHHHHHHHhccChHHHHHHHcCCCCccchh-hhhhhh
Q 043314 163 VWRLGKIGRGGNFCGKLAASGIKTVQDFLKVSIVEPQKLRRILGTGMSEKMWD-TMKHAR 221 (273)
Q Consensus 163 VwRLe~IgKdG~~hk~L~~~~I~tV~dFLkl~~~d~~kLr~iLg~~ms~k~W~-~v~HAk 221 (273)
|-.|-+||+. ..++|+..||.|++|+.++ +..|++.|| .+.|. ...+|+
T Consensus 284 v~~l~GiG~~--~~~~L~~lGI~T~gdL~~~----~~~L~~~fG----~~~~~~l~~~a~ 333 (459)
T 1t94_A 284 IRKVSGIGKV--TEKMLKALGIITCTELYQQ----RALLSLLFS----ETSWHYFLHISL 333 (459)
T ss_dssp GGGCTTSCHH--HHHHHHHTTCCBHHHHHHT----HHHHHHHSC----HHHHHHHHHHHT
T ss_pred HHhcCCcCHH--HHHHHHHcCCCcHHHHHhh----HHHHHHHhC----hHhHHHHHHHHc
Confidence 4555566654 4589999999999998874 356888886 33455 555555
No 13
>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=40.20 E-value=6.4 Score=37.28 Aligned_cols=38 Identities=18% Similarity=0.317 Sum_probs=30.2
Q ss_pred eeeecCCCcccchhhh--CCCccHHHHHHHhccChHHHHHHHcC
Q 043314 166 LGKIGRGGNFCGKLAA--SGIKTVQDFLKVSIVEPQKLRRILGT 207 (273)
Q Consensus 166 Le~IgKdG~~hk~L~~--~~I~tV~dFLkl~~~d~~kLr~iLg~ 207 (273)
|-+||+ ..-++|.. .||.|++|+.++. +++.|++.||.
T Consensus 246 l~GiG~--~~~~~L~~~~~GI~ti~dL~~~~--~~~~L~~~fG~ 285 (434)
T 2aq4_A 246 LPGVGH--STLSRLESTFDSPHSLNDLRKRY--TLDALKASVGS 285 (434)
T ss_dssp STTCCH--HHHHHHHHHTTCCCSHHHHHHHC--CHHHHHHHHCS
T ss_pred ccCcCH--HHHHHHHHhcCCceEHHHHHhcC--CHHHHHHHhCH
Confidence 334453 45689999 8999999999875 78899999984
No 14
>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=38.26 E-value=7.9 Score=35.78 Aligned_cols=34 Identities=29% Similarity=0.506 Sum_probs=27.8
Q ss_pred eecCCCcccchhhhCCCccHHHHHHHhccChHHHHHHHc
Q 043314 168 KIGRGGNFCGKLAASGIKTVQDFLKVSIVEPQKLRRILG 206 (273)
Q Consensus 168 ~IgKdG~~hk~L~~~~I~tV~dFLkl~~~d~~kLr~iLg 206 (273)
+||+. ..++|...||.|++|+.+ .++..|++.||
T Consensus 186 GiG~~--~~~~L~~~GI~Ti~dL~~---~~~~~L~~~fG 219 (362)
T 4f4y_A 186 GIGSV--LARRLNELGIQKLRDILS---KNYNELEKITG 219 (362)
T ss_dssp TCCST--THHHHHHTTCCBGGGGTT---SCHHHHHHHHC
T ss_pred CCCHH--HHHHHHHcCCChHHHHhc---CCHHHHHHHhC
Confidence 55554 458999999999999754 58889999997
No 15
>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=36.59 E-value=13 Score=27.48 Aligned_cols=25 Identities=24% Similarity=0.438 Sum_probs=18.5
Q ss_pred chhhhCCCccHHHHHHHhccChHHHHHH
Q 043314 177 GKLAASGIKTVQDFLKVSIVEPQKLRRI 204 (273)
Q Consensus 177 k~L~~~~I~tV~dFLkl~~~d~~kLr~i 204 (273)
.-|+.+||+||+|+++. .++.|.++
T Consensus 22 NcLkragI~Tv~dL~~~---s~~dLlki 46 (73)
T 1z3e_B 22 NCLKRAGINTVQELANK---TEEDMMKV 46 (73)
T ss_dssp HHHHHTTCCBHHHHHTS---CHHHHHTS
T ss_pred HHHHHcCCCcHHHHHcC---CHHHHHHc
Confidence 46888999999998874 45555554
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=36.44 E-value=7.2 Score=35.56 Aligned_cols=53 Identities=26% Similarity=0.302 Sum_probs=37.3
Q ss_pred eeeeeeecCCCcccchhhhCCCccHHHHHHHhccChHHHHHHHcCCCCccchh-hhhhhhccc
Q 043314 163 VWRLGKIGRGGNFCGKLAASGIKTVQDFLKVSIVEPQKLRRILGTGMSEKMWD-TMKHARTCS 224 (273)
Q Consensus 163 VwRLe~IgKdG~~hk~L~~~~I~tV~dFLkl~~~d~~kLr~iLg~~ms~k~W~-~v~HAktC~ 224 (273)
|..|-+||+ ...++|...||+|++|+.+ .++..|++.||. .... +..||+--+
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 444445554 4568999999999999864 688999999973 2245 666666433
No 17
>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=34.09 E-value=8.7 Score=35.03 Aligned_cols=50 Identities=24% Similarity=0.315 Sum_probs=36.0
Q ss_pred eeeecCCCcccchhhhCCCccHHHHHHHhccChHHHHHHHcCCCCccchh-hhhhhhccc
Q 043314 166 LGKIGRGGNFCGKLAASGIKTVQDFLKVSIVEPQKLRRILGTGMSEKMWD-TMKHARTCS 224 (273)
Q Consensus 166 Le~IgKdG~~hk~L~~~~I~tV~dFLkl~~~d~~kLr~iLg~~ms~k~W~-~v~HAktC~ 224 (273)
|-+||+ ...++|...||+|++|+.+ .++..|++.||. .... +..||+--+
T Consensus 184 l~GiG~--~~~~~L~~~Gi~t~~dL~~---~~~~~L~~~fG~----~~g~~l~~~a~G~d 234 (354)
T 3bq0_A 184 IPGIGS--VLARRLNELGIQKLRDILS---KNYNELEKITGK----AKALYLLKLAQNKY 234 (354)
T ss_dssp STTCCH--HHHHHHTTTTCCBGGGGGG---SCHHHHHHHHCH----HHHHHHHHHHTTCC
T ss_pred ccCcCH--HHHHHHHHcCCccHHHHhc---CCHHHHHHHHCH----HHHHHHHHHhCCCC
Confidence 334554 4569999999999999875 688999999973 2245 666776443
No 18
>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=30.04 E-value=22 Score=27.27 Aligned_cols=18 Identities=22% Similarity=0.342 Sum_probs=15.0
Q ss_pred chhhhCCCccHHHHHHHh
Q 043314 177 GKLAASGIKTVQDFLKVS 194 (273)
Q Consensus 177 k~L~~~~I~tV~dFLkl~ 194 (273)
.-|+.+||+||+|+++.-
T Consensus 25 NcLkragI~Tv~dL~~~s 42 (86)
T 3k4g_A 25 NCLXAEAIHYIGDLVQRT 42 (86)
T ss_dssp HHHHHTTCCBHHHHHHSC
T ss_pred HHHHHcCCCcHHHHHhCC
Confidence 568899999999988763
No 19
>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=29.92 E-value=4.3 Score=39.84 Aligned_cols=38 Identities=34% Similarity=0.483 Sum_probs=29.3
Q ss_pred eeeeecCCCcccchhhhCCCccHHHHHHHhccChHHHHHHHcC
Q 043314 165 RLGKIGRGGNFCGKLAASGIKTVQDFLKVSIVEPQKLRRILGT 207 (273)
Q Consensus 165 RLe~IgKdG~~hk~L~~~~I~tV~dFLkl~~~d~~kLr~iLg~ 207 (273)
.|-+||+ ...++|...||.|++|+.+ .++..|++.||.
T Consensus 319 ~l~GIG~--~t~~kL~~lGI~TigDLa~---~~~~~L~~~fG~ 356 (504)
T 3gqc_A 319 NLPGVGH--SMESKLASLGIKTCGDLQY---MTMAKLQKEFGP 356 (504)
T ss_dssp GSTTCCH--HHHHHHHHTTCCBHHHHTT---SCHHHHHHHHCH
T ss_pred HhhCcCH--HHHHHHHHcCCCcHHHHHh---ccHHHHHHhhCh
Confidence 3335554 4558999999999999864 588899999974
No 20
>2c9r_A COPC, copper resistance protein C; copper transport, copper proteins, copper dissociation const metal-binding, electron transport; 2.0A {Pseudomonas syringae PV} PDB: 1m42_A 1nm4_A 1ot4_A 2c9p_A 2c9q_A
Probab=28.78 E-value=94 Score=23.71 Aligned_cols=30 Identities=27% Similarity=0.596 Sum_probs=20.9
Q ss_pred CCceEEEEccCCCCCcccCCceeecCCCceE
Q 043314 11 PSSLKLNFSKKLSLPIFTGSKITNIESDHLQ 41 (273)
Q Consensus 11 ~~~~~L~F~n~l~~pifT~~~I~a~~g~~i~ 41 (273)
|..+.|.|...+ .+.|++=+|.+.+|..+.
T Consensus 18 P~~v~L~Fse~v-~~~~s~v~v~~~~g~~v~ 47 (102)
T 2c9r_A 18 PAKIELHFSENL-VTQFSGAKLVMTAMPGME 47 (102)
T ss_dssp CSCEEEEESSCC-CGGGCEEEEEEEECC---
T ss_pred CCEEEEEeCCCC-ccCccEEEEECCCCCeee
Confidence 457999999988 567877777776666644
No 21
>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=27.99 E-value=30 Score=31.15 Aligned_cols=52 Identities=13% Similarity=0.192 Sum_probs=39.0
Q ss_pred ceeeeeeecCCCcccchhhhCCCccHHHHHHHhccChHHHHHHHcCCCCccchh-hhhhh
Q 043314 162 EVWRLGKIGRGGNFCGKLAASGIKTVQDFLKVSIVEPQKLRRILGTGMSEKMWD-TMKHA 220 (273)
Q Consensus 162 eVwRLe~IgKdG~~hk~L~~~~I~tV~dFLkl~~~d~~kLr~iLg~~ms~k~W~-~v~HA 220 (273)
+..-|.+|+.+- .++|.++||.|++|+.. .+++++.++| +++++.-+ +.+-|
T Consensus 158 pL~Qlp~i~~~~--~~~l~~~~i~s~~~l~~---~~~~e~~~ll--~~~~~~~~~v~~~~ 210 (328)
T 3im1_A 158 PLRQIPHFNNKI--LEKCKEINVETVYDIMA---LEDEERDEIL--TLTDSQLAQVAAFV 210 (328)
T ss_dssp GGGGSTTCCHHH--HHHHHHTTCCSHHHHHH---SCHHHHHHHC--CCCHHHHHHHHHHH
T ss_pred ceeCCCCCCHHH--HHHHHhCCCCCHHHHhc---CCHHHHHhHh--CCCHHHHHHHHHHH
Confidence 456778887753 47899999999999865 4888999987 57776666 55444
No 22
>3mab_A Uncharacterized protein; NYSGXRC, PSI-2, structural genomics; 1.42A {Listeria monocytogenes} PDB: 3bqt_A
Probab=26.96 E-value=11 Score=29.12 Aligned_cols=26 Identities=35% Similarity=0.451 Sum_probs=18.4
Q ss_pred eeeecCCCcccchhhhCCCccHHHHHHH
Q 043314 166 LGKIGRGGNFCGKLAASGIKTVQDFLKV 193 (273)
Q Consensus 166 Le~IgKdG~~hk~L~~~~I~tV~dFLkl 193 (273)
|-+||+. .-+.|.+.||.||+||..+
T Consensus 9 LPNig~~--~e~~L~~~GI~t~~~Lr~~ 34 (93)
T 3mab_A 9 LPNIGKV--LEQDLIKAGIKTPVELKDV 34 (93)
T ss_dssp STTCCHH--HHHHHHHTTCCSHHHHHHH
T ss_pred CCCCCHH--HHHHHHHcCCCCHHHHHhC
Confidence 3344443 3478999999999998765
No 23
>1eaq_A RUNT-related transcription factor 1; transcription/DNA, acute myeloid leukemia, AML, RUNX1, RUNT domain, chloride binding, IG fold; HET: MSE; 1.25A {Mus musculus} SCOP: b.2.5.6 PDB: 1ean_A 1eao_A* 2j6w_A 1e50_A 1h9d_A* 1ljm_A 1cmo_A 1hjc_A* 1hjb_C* 1io4_C 1co1_A
Probab=24.72 E-value=99 Score=25.66 Aligned_cols=34 Identities=29% Similarity=0.487 Sum_probs=29.0
Q ss_pred EEEEeCcEEeecCeEEecCCCcccCcceEEEEEEee
Q 043314 90 NVTIKNGVARVEDIEFTDNSNWIRSRKFRIGAKVAQ 125 (273)
Q Consensus 90 ~v~L~~Gva~l~di~FtDnSs~~rsrKFRLgarv~~ 125 (273)
.-.|+|.+|...|+.|---|.+ .+.|-|-.-+..
T Consensus 76 ~a~mknqvA~FnDLRFvgRSGR--GKsFtlTItv~t 109 (140)
T 1eaq_A 76 TAAMKNQVARFNDLRFVGRSGR--GKSFTLTITVFT 109 (140)
T ss_dssp EEEEETTEEECSSCEECSCCCT--TCCBEEEEEECS
T ss_pred HHHHhhccceeecccccccCCC--CccEEEEEEEec
Confidence 5789999999999999998884 666999887765
No 24
>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=23.11 E-value=55 Score=29.64 Aligned_cols=52 Identities=12% Similarity=0.247 Sum_probs=39.2
Q ss_pred ceeeeeeecCCCcccchhhhCCCccHHHHHHHhccChHHHHHHHcCCCCccchh-hhhhh
Q 043314 162 EVWRLGKIGRGGNFCGKLAASGIKTVQDFLKVSIVEPQKLRRILGTGMSEKMWD-TMKHA 220 (273)
Q Consensus 162 eVwRLe~IgKdG~~hk~L~~~~I~tV~dFLkl~~~d~~kLr~iLg~~ms~k~W~-~v~HA 220 (273)
+..-|.+|+.+ .-++|.++||.|++||.. .+++++..+|| +++..-+ +.+-+
T Consensus 162 pL~Qlp~i~~~--~~~~l~~~~i~s~~~l~~---~~~~e~~~ll~--l~~~~~~~i~~~~ 214 (339)
T 2q0z_X 162 YLKQLPHFTSE--HIKRCTDKGVESVFDIME---MEDEERNALLQ--LTDSQIADVARFC 214 (339)
T ss_dssp GGGGSTTCCHH--HHHHHHHTTCCSHHHHHH---SCHHHHHHHHC--CCHHHHHHHHHHH
T ss_pred ceecCCCCCHH--HHHHHHhcCCCCHHHHHh---CCHHHHHHHHC--CCHHHHHHHHHHH
Confidence 56778888764 458899999999999875 68999999985 7765555 44433
No 25
>3gfk_B DNA-directed RNA polymerase subunit alpha; protein-protein complex, cytoplasm, redox-active center, stress response, transcription; 2.30A {Bacillus subtilis} SCOP: a.60.3.1
Probab=22.54 E-value=26 Score=26.42 Aligned_cols=17 Identities=35% Similarity=0.477 Sum_probs=14.5
Q ss_pred chhhhCCCccHHHHHHH
Q 043314 177 GKLAASGIKTVQDFLKV 193 (273)
Q Consensus 177 k~L~~~~I~tV~dFLkl 193 (273)
.-|+.+||+||+|+++.
T Consensus 29 NcLk~agI~Tv~dL~~~ 45 (79)
T 3gfk_B 29 NCLKRAGINTVQELANK 45 (79)
T ss_dssp HHHHHTTCCBHHHHTTC
T ss_pred HHHHHhCCCCHHHHHhC
Confidence 56889999999998764
No 26
>2f8v_T Telethonin; sarcomere, titin, Z1Z2, contractIle protein-CONT protein complex; 2.75A {Homo sapiens}
Probab=21.01 E-value=16 Score=31.21 Aligned_cols=23 Identities=35% Similarity=0.635 Sum_probs=8.3
Q ss_pred ceEEEEccCCCCCcccCCceeec
Q 043314 13 SLKLNFSKKLSLPIFTGSKITNI 35 (273)
Q Consensus 13 ~~~L~F~n~l~~pifT~~~I~a~ 35 (273)
.|||=|.|-|++||||-.++.+.
T Consensus 80 EYqLPY~~~LPlPIFtPak~~~~ 102 (167)
T 2f8v_T 80 EYQLPYQRVLPLPIFTPAKMGAT 102 (167)
T ss_dssp EEESSCCCC--------------
T ss_pred hhccchhccCCccccchhhcCCc
Confidence 59999999999999999988743
No 27
>3euh_C MUKE, chromosome partition protein MUKF; chromosome condensation, condensin, non-SMC subunit, kleisin, calcium, cell cycle, cell division; 2.90A {Escherichia coli} PDB: 3rpu_G
Probab=20.97 E-value=70 Score=28.77 Aligned_cols=48 Identities=19% Similarity=0.270 Sum_probs=35.5
Q ss_pred chhhhCCCccHHHHHHHh--ccChHHHHHHHcCCCC--ccchh-hhhhhhccc
Q 043314 177 GKLAASGIKTVQDFLKVS--IVEPQKLRRILGTGMS--EKMWD-TMKHARTCS 224 (273)
Q Consensus 177 k~L~~~~I~tV~dFLkl~--~~d~~kLr~iLg~~ms--~k~W~-~v~HAktC~ 224 (273)
++|++.||.|+++...-+ -.|+++|.++++..++ +..-+ +-+-.++|-
T Consensus 107 erLa~~gift~qeL~eeL~sl~dE~kLlkl~~~R~~GSDlD~~kl~ekv~~sL 159 (234)
T 3euh_C 107 ERLANEGIFTQQELYDELLTLADEAKLLKLVNNRSTGSDVDRQKLQEKVRSSL 159 (234)
T ss_dssp GGGGGTTEEEHHHHHHHHHHHSCHHHHHHHHSSSCSSCHHHHHHHHHHHHHHH
T ss_pred HHHhcCCcccHHHHHHHHHHhhCHHHHHHHHhccCCCchhhHHHHHHHHHHHH
Confidence 789999999999988766 3589999999964444 33444 666666664
No 28
>3bqs_A Uncharacterized protein; 10114F, NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.42A {Listeria monocytogenes str} PDB: 3bqt_A 3mab_A
Probab=20.94 E-value=34 Score=26.20 Aligned_cols=26 Identities=35% Similarity=0.451 Sum_probs=18.9
Q ss_pred eeeecCCCcccchhhhCCCccHHHHHHH
Q 043314 166 LGKIGRGGNFCGKLAASGIKTVQDFLKV 193 (273)
Q Consensus 166 Le~IgKdG~~hk~L~~~~I~tV~dFLkl 193 (273)
|-+||+. .-+.|.+.||.||+||..+
T Consensus 9 LPNiG~~--~e~~L~~vGI~s~e~L~~~ 34 (93)
T 3bqs_A 9 LPNIGKV--LEQDLIKAGIKTPVELKDV 34 (93)
T ss_dssp STTCCHH--HHHHHHHTTCCSHHHHHHH
T ss_pred CCCCCHH--HHHHHHHcCCCCHHHHHhC
Confidence 3444443 4488999999999998765
No 29
>3lxu_X Tripeptidyl-peptidase 2; spindle complex, aminopeptidase, hydrolase, phosphoprotein, protease; 3.14A {Drosophila melanogaster}
Probab=20.09 E-value=56 Score=36.05 Aligned_cols=35 Identities=14% Similarity=0.115 Sum_probs=13.7
Q ss_pred eCcE-EeecCeEEecCCCc-----ccCcceEEEEEEeecCC
Q 043314 94 KNGV-ARVEDIEFTDNSNW-----IRSRKFRIGAKVAQWTY 128 (273)
Q Consensus 94 ~~Gv-a~l~di~FtDnSs~-----~rsrKFRLgarv~~~~~ 128 (273)
+||. .-++.-+++-+++| -++++||+|.+....-.
T Consensus 87 ~~g~i~glsgr~l~~~~~w~~~~~~p~g~~~vG~k~~~~l~ 127 (1354)
T 3lxu_X 87 ENGNIKGLSGNSLKLSPELMALNTDPEKAVRVGLKSFSDLL 127 (1354)
T ss_dssp TCC-----------------------CCSCCCCCSCCSSCT
T ss_pred CCCcEecccCCeEecCHHHhhcccCCCCcEEEEEeeccccC
Confidence 4554 33677788999999 47999999998876543
Done!