Query psy874
Match_columns 191
No_of_seqs 208 out of 1261
Neff 6.1
Searched_HMMs 29240
Date Fri Aug 16 17:59:11 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy874.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/874hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2lsn_A Reverse transcriptase; 100.0 7.9E-30 2.7E-34 204.9 9.8 125 4-151 5-138 (165)
2 2qkb_A Ribonuclease H1, HS-RNA 100.0 6.8E-30 2.3E-34 201.0 6.9 138 4-164 5-150 (154)
3 3h08_A RNH (ribonuclease H); R 99.9 2E-28 6.8E-33 190.7 5.9 132 5-164 3-143 (146)
4 3qio_A GAG-POL polyprotein; RN 99.9 1.6E-27 5.5E-32 188.2 6.5 130 4-165 10-147 (150)
5 1jl1_A Ribonuclease HI; RNAse 99.9 7.6E-27 2.6E-31 184.3 6.6 131 5-164 3-142 (155)
6 2e4l_A Ribonuclease HI, RNAse 99.9 1.4E-26 4.7E-31 183.5 7.0 131 5-164 5-144 (158)
7 1ril_A Ribonuclease H; hydrola 99.9 6.4E-27 2.2E-31 187.1 3.1 138 1-166 1-149 (166)
8 4htu_A Ribonuclease H, RNAse H 99.9 1E-25 3.4E-30 175.8 8.0 117 3-146 2-122 (134)
9 1zbf_A Ribonuclease H-related 99.9 2.9E-23 9.9E-28 163.1 8.4 105 3-128 8-115 (142)
10 3u3g_D Ribonuclease H, RNAse H 99.9 1.1E-21 3.8E-26 149.0 11.6 127 5-165 2-137 (140)
11 3hst_B Protein RV2228C/MT2287; 99.9 1.8E-21 6.3E-26 148.7 10.5 124 6-165 3-133 (141)
12 3p1g_A Xenotropic murine leuke 99.8 5.3E-22 1.8E-26 159.1 6.0 120 6-164 23-155 (165)
13 2ehg_A Ribonuclease HI; RNAse 99.8 3.7E-20 1.3E-24 143.9 13.1 123 6-164 1-133 (149)
14 2kq2_A Ribonuclease H-related 99.8 1.7E-21 5.8E-26 152.6 1.2 77 1-85 1-83 (147)
15 1mu2_A HIV-2 RT; HIV-2 reverse 99.7 7.4E-17 2.5E-21 149.4 9.3 112 4-158 434-547 (555)
16 2zd1_A Reverse transcriptase/r 99.7 8.4E-17 2.9E-21 149.1 9.2 74 4-89 437-510 (557)
17 3crv_A XPD/RAD3 related DNA he 89.7 0.029 1E-06 51.2 -2.3 72 95-183 448-526 (551)
18 1rw3_A POL polyprotein; RNA an 83.6 0.68 2.3E-05 41.1 3.2 75 3-87 343-425 (455)
19 2zd1_B P51 RT; P51/P66, hetero 81.2 3.8 0.00013 36.2 7.2 74 2-85 320-401 (428)
20 4a15_A XPD helicase, ATP-depen 76.5 0.26 8.8E-06 46.0 -2.1 72 95-184 505-580 (620)
21 2lsn_A Reverse transcriptase; 76.4 0.61 2.1E-05 36.4 0.4 21 46-66 49-69 (165)
22 2vl7_A XPD; helicase, unknown 56.5 1.5 5.2E-05 39.7 -1.2 73 95-184 439-517 (540)
23 2zd1_A Reverse transcriptase/r 45.4 55 0.0019 29.5 7.3 74 2-84 322-402 (557)
24 2p22_B Vacuolar protein sortin 23.4 32 0.0011 25.5 1.5 34 48-85 37-70 (118)
25 2kqv_A Non-structural protein 21.6 1.4E+02 0.0048 23.8 5.0 60 59-123 13-76 (198)
26 2f6m_B Vacuolar protein sortin 20.5 32 0.0011 25.2 0.9 34 48-85 28-61 (109)
27 2caz_B Vacuolar protein sortin 20.0 41 0.0014 26.1 1.5 33 48-84 45-77 (155)
No 1
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus}
Probab=99.96 E-value=7.9e-30 Score=204.93 Aligned_cols=125 Identities=19% Similarity=0.162 Sum_probs=94.9
Q ss_pred CCcEEEEEeeccCCCCCC--CCceEEEEEEcCC-ceeEEEec--c-CCCCChHHHHHHHHHHHHHHhHhcCCcceeEEEE
Q psy874 4 DNHVVVFTDGACPRNGKV--GASAGYGVYFGEN-NPLNVAGK--V-TGRVTNNNAEIQGAIHALKQAKSANEKVKLKRSY 77 (191)
Q Consensus 4 ~~~i~IYtDGac~~N~~~--~~~AG~Gv~~~~~-~~~~~s~~--l-~g~~TNnrAEL~Avi~AL~~~~~~~~~~~v~~I~ 77 (191)
+..++|||||||++||+| .++|||||++..+ +...+++. . .+.+||++||+.|++.||+.+...+ ++|+ |+
T Consensus 5 ~~evviYTDGsc~gNpgp~~~~~aG~Gv~~~~~~~~~~~~~~~~~~tnn~te~~Aei~Al~~al~~al~~~--~~v~-I~ 81 (165)
T 2lsn_A 5 QYEGVFYTDGSAIKSPDPTKSNNAGMGIVHATYKPEYQVLNQWSIPLGNHTAQMAEIAAVEFACKKALKIP--GPVL-VI 81 (165)
T ss_dssp CCSEEEEEEEEEEECSSCTTCEEEEEEEEEECCSSSCCEEEEEEEEESSCCHHHHHHHHHHHHHHHHHHSS--SCEE-EE
T ss_pred CceEEEEEcCCCCCCCCCCCCCcEEEEEEEEECCCccEEeccccCCchHHHHHHHHHHHHHHHHHHHhcCC--CeEE-EE
Confidence 356889999999999987 3568999987543 22333322 1 3478888899988888888776543 4899 99
Q ss_pred cChHHHHccccccccccccccccccccccee-ecCCCc--chhHHHHHHHHHHHHHHhhhhcCCCCCCcceEEEecc
Q psy874 78 NDTHAQKKVRNVSSVAMRIAQKVDYISHDVI-SVGIPF--PSIQDENVKLKRSYNDTHAQKKGIPFPSIQDEKVKLK 151 (191)
Q Consensus 78 TDS~Yvv~~~~~~~~~~~w~~~edW~~ng~~-s~G~PV--~dL~~~~v~l~~~~~d~~~~~~g~~~~~~~~~~v~a~ 151 (191)
|||+||++.++ + |..+ |++|||. +.|+|| +|||+++.++.+.. +.+.|.+|+.|
T Consensus 82 TDS~Yvi~~it---~---w~~~--Wk~ngw~~~~~~pVkN~dL~~~l~~~~~~~------------~~v~~~~VkgH 138 (165)
T 2lsn_A 82 TDSFYVAESAN---K---ELPY--WKSNGFVNNKKKPLKHISKWKSIAECLSMK------------PDITIQHEKGH 138 (165)
T ss_dssp ESCHHHHHHHH---T---HHHH--HHHTTSCSCSSSCCSSHHHHHHHHHHHHHC------------TTCEEEECCSS
T ss_pred eChHHHHhhhh---h---hhhh--heeccccccCCCcccCHHHHHHHHHHHhCC------------CCEEEEEEeCC
Confidence 99999999664 2 7777 9999985 789999 89999877764421 25788888876
No 2
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A*
Probab=99.96 E-value=6.8e-30 Score=201.03 Aligned_cols=138 Identities=33% Similarity=0.419 Sum_probs=112.2
Q ss_pred CCcEEEEEeeccCCCCCCCCceEEEEEEcCCceeEEEeccCCCCChHHHHHHHHHHHHHHhHhcCCcceeEEEEcChHHH
Q psy874 4 DNHVVVFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKSANEKVKLKRSYNDTHAQ 83 (191)
Q Consensus 4 ~~~i~IYtDGac~~N~~~~~~AG~Gv~~~~~~~~~~s~~l~g~~TNnrAEL~Avi~AL~~~~~~~~~~~v~~I~TDS~Yv 83 (191)
++.++|||||||.+||++++.+|||+++.+++..+++.++.+.+|||+|||+|++.||+.+.+.+.. +++ |+|||+||
T Consensus 5 ~~~~~iytDGs~~~n~~~~~~aG~Gvv~~~~~~~~~~~~l~~~~tn~~aEl~A~~~aL~~~~~~~~~-~v~-i~tDS~~v 82 (154)
T 2qkb_A 5 GDFVVVYTDGCCSSNGRRRPRAGIGVYWGPGHPLNVGIRLPGRQTNQRAEIHAACKAIEQAKTQNIN-KLV-LYTNSMFT 82 (154)
T ss_dssp TTEEEEEEEEEEETTTSSSCEEEEEEECSTTCTTCEEEECCSSCCHHHHHHHHHHHHHHHHHHTTCC-EEE-EEESCHHH
T ss_pred CCeEEEEEccCcCCCCCCCCcEEEEEEEECCCceeEEeecCCCCchHHHHHHHHHHHHHHHHhCCCc-eEE-EEECcHHH
Confidence 5789999999999999887789999999876666778887778999999999999999999887654 899 99999999
Q ss_pred Hccccccccccccccccccccccee-ecCCCc--chhHHHHHHHHHHHHHHhhhhcCCCCCCcceEEEecc--ccccchH
Q psy874 84 KKVRNVSSVAMRIAQKVDYISHDVI-SVGIPF--PSIQDENVKLKRSYNDTHAQKKGIPFPSIQDEKVKLK--RSYNDTH 158 (191)
Q Consensus 84 v~~~~~~~~~~~w~~~edW~~ng~~-s~G~PV--~dL~~~~v~l~~~~~d~~~~~~g~~~~~~~~~~v~a~--r~~n~~~ 158 (191)
++.++. |..+ |++++|. +.|.|+ ++||+++..+.+ +. .+.|.+|+.+ +..|+.+
T Consensus 83 i~~i~~------~~~~--w~~~~w~~~~~~~~~n~~l~~~i~~l~~----------~~---~v~~~~V~~H~g~~~N~~A 141 (154)
T 2qkb_A 83 INGITN------WVQG--WKKNGWKTSAGKEVINKEDFVALERLTQ----------GM---DIQWMHVPGHSGFIGNEEA 141 (154)
T ss_dssp HHHHHT------HHHH--HHTTTSBCTTSSBCTTHHHHHHHHHHHT----------TC---EEEEEECCTTSSCHHHHHH
T ss_pred Hhhhhh------hHHH--HHhccccccCCCccccHHHHHHHHHHHc----------CC---ceEEEEccCCCCCHhHHHH
Confidence 997653 6677 9999985 678899 788988776643 11 4778887775 5788755
Q ss_pred ---hhhhhh
Q psy874 159 ---AQKKVR 164 (191)
Q Consensus 159 ---~~~~~~ 164 (191)
|.++++
T Consensus 142 D~LA~~a~~ 150 (154)
T 2qkb_A 142 DRLAREGAK 150 (154)
T ss_dssp HHHHHHHHT
T ss_pred HHHHHHHHH
Confidence 555544
No 3
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum}
Probab=99.95 E-value=2e-28 Score=190.66 Aligned_cols=132 Identities=22% Similarity=0.326 Sum_probs=102.0
Q ss_pred CcEEEEEeeccCCCCCCCCceEEEEEEcCC-ceeEEEeccCCCCChHHHHHHHHHHHHHHhHhcCCcceeEEEEcChHHH
Q psy874 5 NHVVVFTDGACPRNGKVGASAGYGVYFGEN-NPLNVAGKVTGRVTNNNAEIQGAIHALKQAKSANEKVKLKRSYNDTHAQ 83 (191)
Q Consensus 5 ~~i~IYtDGac~~N~~~~~~AG~Gv~~~~~-~~~~~s~~l~g~~TNnrAEL~Avi~AL~~~~~~~~~~~v~~I~TDS~Yv 83 (191)
..++|||||||++||++ +|||+++..+ +...+++++ +.+|||+|||+|++.||+.+.+ .++++ |+|||+||
T Consensus 3 ~~i~iytDGs~~~n~g~---~g~G~v~~~~~~~~~~~~~~-~~~Tnn~aEl~A~~~AL~~~~~---~~~v~-I~tDS~~v 74 (146)
T 3h08_A 3 KTITIYTDGAASGNPGK---GGWGALLMYGSSRKEISGYD-PATTNNRMELMAAIKGLEALKE---PARVQ-LYSDSAYL 74 (146)
T ss_dssp CEEEEEEEEEESSTTEE---EEEEEEEEETTEEEEEEEEE-EEECHHHHHHHHHHHHHHTCSS---CCEEE-EEESCHHH
T ss_pred ceEEEEEecCCCCCCCc---eEEEEEEEECCeeEEeecCC-CCCcHHHHHHHHHHHHHHhcCc---cCcEE-EEeChHHH
Confidence 47999999999999965 6999987543 456677764 4789999999999999999876 34899 99999999
Q ss_pred Hccccccccccccccccccccccee-ecCCCc--chhHHHHHHHHHHHHHHhhhhcCCCCCCcceEEEe--ccccccchH
Q psy874 84 KKVRNVSSVAMRIAQKVDYISHDVI-SVGIPF--PSIQDENVKLKRSYNDTHAQKKGIPFPSIQDEKVK--LKRSYNDTH 158 (191)
Q Consensus 84 v~~~~~~~~~~~w~~~edW~~ng~~-s~G~PV--~dL~~~~v~l~~~~~d~~~~~~g~~~~~~~~~~v~--a~r~~n~~~ 158 (191)
++.++.. |..+ |++++|. +.|.|| ++||+++..+.+.+ .+.|.+|+ .++..|+++
T Consensus 75 i~~i~~~-----w~~~--W~~~~w~~~~~~~v~n~~l~~~~~~~~~~~-------------~v~~~~V~gH~g~~~N~~A 134 (146)
T 3h08_A 75 VNAMNEG-----WLKR--WVKNGWKTAAKKPVENIDLWQEILKLTTLH-------------RVTFHKVKGHSDNPYNSRA 134 (146)
T ss_dssp HHHHHSS-----HHHH--HHHTTCC----CCCTTHHHHHHHHHHHHHS-------------EEEEEECCC-CCSHHHHHH
T ss_pred HHHHHHH-----HHHH--HHHCCCccCCCCCcCCHHHHHHHHHHHhhC-------------ceEEEEcCCcCCcHhHHHH
Confidence 9987643 6777 9999985 778999 88999888876532 25566555 568999976
Q ss_pred ---hhhhhh
Q psy874 159 ---AQKKVR 164 (191)
Q Consensus 159 ---~~~~~~ 164 (191)
|.++++
T Consensus 135 D~LA~~a~~ 143 (146)
T 3h08_A 135 DELARLAIK 143 (146)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 555554
No 4
>3qio_A GAG-POL polyprotein; RNAse H, inhibitor, nuclease, transferase, hydrolase- complex; HET: QID; 1.40A {Hiv-1 M} SCOP: c.55.3.1 PDB: 3qin_A* 3hyf_A* 1o1w_A 3lp3_A* 1hrh_A 3k2p_A* 1rdh_A
Probab=99.94 E-value=1.6e-27 Score=188.15 Aligned_cols=130 Identities=14% Similarity=0.127 Sum_probs=91.2
Q ss_pred CCcEEEEEeeccCCCCCCCCceEEEEEEcCCceeEEEeccCCCCChHHHHHHHHHHHHHHhHhcCCcceeEEEEcChHHH
Q psy874 4 DNHVVVFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKSANEKVKLKRSYNDTHAQ 83 (191)
Q Consensus 4 ~~~i~IYtDGac~~N~~~~~~AG~Gv~~~~~~~~~~s~~l~g~~TNnrAEL~Avi~AL~~~~~~~~~~~v~~I~TDS~Yv 83 (191)
++.++|||||||++||++ +|||+++..++...++ .+.+|||+|||+|++.||+.+. ++++ |+|||+||
T Consensus 10 ~~~~~iytDGs~~~n~g~---~g~G~v~~~~~~~~~~---~~~~Tnn~aEl~A~i~AL~~~~-----~~v~-i~tDS~~v 77 (150)
T 3qio_A 10 VGAETFYVDGAANRETKL---GKAGYVTNRGRQKVVT---LTDTTNQKTELQAIYLALQDSG-----LEVN-IVTDSQYA 77 (150)
T ss_dssp TTCEEEEEEEEECTTTCC---EEEEEEETTSCEEEEE---ESSCCHHHHHHHHHHHHHHHSC-----SEEE-EEESCHHH
T ss_pred CCCEEEEEccCCCCCCCC---eEEEEEEEcCCEEEEe---CCCCCHHHHHHHHHHHHHHhCC-----CcEE-EEeCcHHH
Confidence 578999999999999988 4999987655443332 2479999999999999999852 4899 99999999
Q ss_pred Hccccccccccccccccccccccee-ecCCCc--chhHHHHHHHHHHHHHHhhhhcCCCCCCcceEEEecc--ccccchH
Q psy874 84 KKVRNVSSVAMRIAQKVDYISHDVI-SVGIPF--PSIQDENVKLKRSYNDTHAQKKGIPFPSIQDEKVKLK--RSYNDTH 158 (191)
Q Consensus 84 v~~~~~~~~~~~w~~~edW~~ng~~-s~G~PV--~dL~~~~v~l~~~~~d~~~~~~g~~~~~~~~~~v~a~--r~~n~~~ 158 (191)
++.++. |..+ |++|||. +.|.|| +|||++++++..+ . ..+.|.+|+.+ ...|+++
T Consensus 78 ~~~i~~------w~~~--W~~~gw~~~~g~~v~n~~l~~~l~~~l~~---------~---~~v~~~wV~gH~g~~~Ne~A 137 (150)
T 3qio_A 78 LGIITQ------WIHN--WKKRGWKTADKKPVKNVDLVNQIIEQLIK---------K---EKVYLAWVPAHKGIGGNEQV 137 (150)
T ss_dssp HHHHHH------HHHH--HCC------------CHHHHHHHHHHHTT---------C---SEEEEEECCTTSCCHHHHHH
T ss_pred HHHHHH------HHHH--HhhcCcCcCcCcccccHHHHHHHHHHHhh---------c---CceEEEEccCcCCChhHHHH
Confidence 997652 7777 9999995 778999 8899887654321 1 24777777765 4677765
Q ss_pred ---hhhhhhc
Q psy874 159 ---AQKKVRN 165 (191)
Q Consensus 159 ---~~~~~~~ 165 (191)
|.+++++
T Consensus 138 D~LA~~a~~~ 147 (150)
T 3qio_A 138 DKLVSAGIRK 147 (150)
T ss_dssp HHHHHTTTSC
T ss_pred HHHHHHHHHH
Confidence 6666654
No 5
>1jl1_A Ribonuclease HI; RNAse HI, protein stability, thermostability, hydrogen exchange, cooperativity, hydrolase; 1.30A {Escherichia coli} SCOP: c.55.3.1 PDB: 1f21_A 1jxb_A 1g15_A 1rch_A 1rdd_A 1rnh_A* 2rn2_A 1rda_A 1law_A 1rdb_A 1lav_A 3aa4_A 1rbu_A 1gob_A 1rdc_A 1kvc_A 3aa3_A 3aa2_A 3aa5_X 1rbv_A ...
Probab=99.93 E-value=7.6e-27 Score=184.30 Aligned_cols=131 Identities=20% Similarity=0.178 Sum_probs=101.8
Q ss_pred CcEEEEEeeccCCCCCCCCceEEEEEEc-CCceeEEEeccCCCCChHHHHHHHHHHHHHHhHhcCCcceeEEEEcChHHH
Q psy874 5 NHVVVFTDGACPRNGKVGASAGYGVYFG-ENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKSANEKVKLKRSYNDTHAQ 83 (191)
Q Consensus 5 ~~i~IYtDGac~~N~~~~~~AG~Gv~~~-~~~~~~~s~~l~g~~TNnrAEL~Avi~AL~~~~~~~~~~~v~~I~TDS~Yv 83 (191)
..++|||||||.+||++ +|||+++. .++...+++++ +.+|||+|||+|++.||+.+.+. ++++ |+|||+||
T Consensus 3 ~~~~iytDGs~~~n~~~---~G~G~v~~~~~~~~~~~~~~-~~~tn~~aEl~A~~~aL~~~~~~---~~v~-I~tDS~~v 74 (155)
T 1jl1_A 3 KQVEIFTAGSALGNPGP---GGYGAILRYRGREKTFSAGY-TRTTNNRMELMAAIVALEALKEH---AEVI-LSTDSQYV 74 (155)
T ss_dssp CCEEEEEEEEESSTTEE---EEEEEEEEETTEEEEEEEEE-EEECHHHHHHHHHHHHHHTCCSC---CEEE-EEECCHHH
T ss_pred ceEEEEEccccCCCCCc---eEEEEEEEECCeEEEEecCC-CCCcHHHHHHHHHHHHHHHhCcC---CcEE-EEeCHHHH
Confidence 35899999999999976 69999874 34556677764 46899999999999999998763 4899 99999999
Q ss_pred Hccccccccccccccccccccccee-ecCCCc--chhHHHHHHHHHHHHHHhhhhcCCCCCCcceEEEecc--ccccchH
Q psy874 84 KKVRNVSSVAMRIAQKVDYISHDVI-SVGIPF--PSIQDENVKLKRSYNDTHAQKKGIPFPSIQDEKVKLK--RSYNDTH 158 (191)
Q Consensus 84 v~~~~~~~~~~~w~~~edW~~ng~~-s~G~PV--~dL~~~~v~l~~~~~d~~~~~~g~~~~~~~~~~v~a~--r~~n~~~ 158 (191)
++.++. |..+ |++|+|. +.|.|| ++||+++..+.+. ..+.|.+|++| +..|+.+
T Consensus 75 i~~i~~------w~~~--W~~n~~~~~~g~~v~n~~l~~~i~~l~~~-------------~~v~~~wV~gH~g~~~Ne~A 133 (155)
T 1jl1_A 75 RQGITQ------WIHN--WKKRGWKTADKKPVKNVDLWQRLDAALGQ-------------HQIKWEWVKGHAGHPENERA 133 (155)
T ss_dssp HHHHHT------THHH--HHHTTTBCTTSCBCTTHHHHHHHHHHTTT-------------CEEEEEECCSSTTCHHHHHH
T ss_pred HHHHHH------HHHH--HhhcccccccCCccCCHHHHHHHHHHHcc-------------CceEEEEcCCCCCCHHHHHH
Confidence 997653 7777 9999985 778999 6888876665321 14777777765 8899855
Q ss_pred ---hhhhhh
Q psy874 159 ---AQKKVR 164 (191)
Q Consensus 159 ---~~~~~~ 164 (191)
|.++++
T Consensus 134 D~LA~~a~~ 142 (155)
T 1jl1_A 134 DELARAAAM 142 (155)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHh
Confidence 444443
No 6
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A
Probab=99.93 E-value=1.4e-26 Score=183.53 Aligned_cols=131 Identities=21% Similarity=0.245 Sum_probs=102.6
Q ss_pred CcEEEEEeeccCCCCCCCCceEEEEEEc-CCceeEEEeccCCCCChHHHHHHHHHHHHHHhHhcCCcceeEEEEcChHHH
Q psy874 5 NHVVVFTDGACPRNGKVGASAGYGVYFG-ENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKSANEKVKLKRSYNDTHAQ 83 (191)
Q Consensus 5 ~~i~IYtDGac~~N~~~~~~AG~Gv~~~-~~~~~~~s~~l~g~~TNnrAEL~Avi~AL~~~~~~~~~~~v~~I~TDS~Yv 83 (191)
..++|||||||.+||++ +|||+++. .++...+++++ +.+|||+|||+|++.||+.+.+. ++++ |+|||+||
T Consensus 5 ~~i~iytDGs~~~n~g~---~G~G~v~~~~~~~~~~~~~~-~~~tn~~aEl~A~~~AL~~~~~~---~~v~-I~tDS~~v 76 (158)
T 2e4l_A 5 KLIHIFTDGSCLGNPGP---GGYGIVMNYKGHTKEMSDGF-SLTTNNRMELLAPIVALEALKEP---CKII-LTSDSQYM 76 (158)
T ss_dssp CEEEEEEEEEESSSSEE---EEEEEEEEETTEEEEEEEEE-EEECHHHHHHHHHHHHHHTCSSC---CEEE-EEECCHHH
T ss_pred CeEEEEEcccccCCCCc---EEEEEEEEECCEEEEEecCc-CCCccHHHHHHHHHHHHHHhccC---CeEE-EEeCHHHH
Confidence 56999999999999976 69999874 34556677764 36899999999999999998753 4899 99999999
Q ss_pred Hccccccccccccccccccccccee-ecCCCc--chhHHHHHHHHHHHHHHhhhhcCCCCCCcceEEEecc--ccccchH
Q psy874 84 KKVRNVSSVAMRIAQKVDYISHDVI-SVGIPF--PSIQDENVKLKRSYNDTHAQKKGIPFPSIQDEKVKLK--RSYNDTH 158 (191)
Q Consensus 84 v~~~~~~~~~~~w~~~edW~~ng~~-s~G~PV--~dL~~~~v~l~~~~~d~~~~~~g~~~~~~~~~~v~a~--r~~n~~~ 158 (191)
++.++. |..+ |++|+|. +.|.|| ++||+++..+.+. ..+.|.+|++| +..|+.+
T Consensus 77 i~~i~~------w~~~--W~~n~~~~~~g~~v~n~~l~~~i~~l~~~-------------~~v~~~wV~gH~g~~~Ne~A 135 (158)
T 2e4l_A 77 RQGIMT------WIHG--WKKKGWMTSNRTPVKNVDLWKRLDKAAQL-------------HQIDWRWVKGHAGHAENERC 135 (158)
T ss_dssp HHHHHT------HHHH--HHHTTTBCTTSSBCTTHHHHHHHHHHHTT-------------SEEEEEECCTTCCCHHHHHH
T ss_pred HHHHHH------HHHH--HHHccccccCCCcccCHHHHHHHHHHHcc-------------CcEEEEEccCCCCchhHHHH
Confidence 997653 7777 9999985 778999 7899877665431 14778877765 8899855
Q ss_pred ---hhhhhh
Q psy874 159 ---AQKKVR 164 (191)
Q Consensus 159 ---~~~~~~ 164 (191)
|.++++
T Consensus 136 D~LAk~a~~ 144 (158)
T 2e4l_A 136 DQLARAAAE 144 (158)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 444443
No 7
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A
Probab=99.93 E-value=6.4e-27 Score=187.10 Aligned_cols=138 Identities=23% Similarity=0.318 Sum_probs=103.1
Q ss_pred CCCC--CcEEEEEeeccCCCCCCCCceEEEEEEc-CCceeEEEeccCCCCChHHHHHHHHHHHHHHhHhcCCcceeEEEE
Q psy874 1 MDPD--NHVVVFTDGACPRNGKVGASAGYGVYFG-ENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKSANEKVKLKRSY 77 (191)
Q Consensus 1 ~~~~--~~i~IYtDGac~~N~~~~~~AG~Gv~~~-~~~~~~~s~~l~g~~TNnrAEL~Avi~AL~~~~~~~~~~~v~~I~ 77 (191)
|+++ +.++|||||||.+||++ +|||+++. .++...+++++ +.+|||+|||+|++.||+.+.+. ++++ |+
T Consensus 1 ~~p~~m~~i~iytDGs~~~n~g~---~G~G~v~~~~~~~~~~~~~~-~~~Tnn~aEl~Ai~~AL~~~~~~---~~v~-I~ 72 (166)
T 1ril_A 1 MNPSPRKRVALFTDGACLGNPGP---GGWAALLRFHAHEKLLSGGE-ACTTNNRMELKAAIEGLKALKEP---CEVD-LY 72 (166)
T ss_dssp -----CCCCCEEEEEEESSTTEE---EEEEEEECBTTBCCEECCEE-EEECHHHHHHHHHHHHHHSCCSC---CEEE-EE
T ss_pred CCCCCCccEEEEECccccCCCCC---EEEEEEEEECCEEEEEecCC-CCCcHHHHHHHHHHHHHHHhccC---CeEE-EE
Confidence 4554 35899999999999976 69999874 34555666653 46899999999999999988763 4899 99
Q ss_pred cChHHHHccccccccccccccccccccccee-ecCCCc--chhHHHHHHHHHHHHHHhhhhcCCCCCCcceEEEec--cc
Q psy874 78 NDTHAQKKVRNVSSVAMRIAQKVDYISHDVI-SVGIPF--PSIQDENVKLKRSYNDTHAQKKGIPFPSIQDEKVKL--KR 152 (191)
Q Consensus 78 TDS~Yvv~~~~~~~~~~~w~~~edW~~ng~~-s~G~PV--~dL~~~~v~l~~~~~d~~~~~~g~~~~~~~~~~v~a--~r 152 (191)
|||+||++.++.. |..+ |++|+|. +.|.|| ++||+++..+.+. . .+.|.+|++ ++
T Consensus 73 tDS~~vi~~i~~~-----w~~~--W~~~~w~~~~g~~v~n~~l~~~i~~l~~~----------~---~v~~~wV~gH~g~ 132 (166)
T 1ril_A 73 TDSHYLKKAFTEG-----WLEG--WRKRGWRTAEGKPVKNRDLWEALLLAMAP----------H---RVRFHFVKGHTGH 132 (166)
T ss_dssp CCCHHHHHHHHSS-----HHHH--HHHTTSBCTTSSBCTTHHHHHHHHHHHTT----------S---EEECCCCCGGGSC
T ss_pred eChHHHHHHHhhh-----HHHH--HHhcccccccCCccCcHHHHHHHHHHHhc----------C---eEEEEEeeCCCCc
Confidence 9999999977642 6677 9999985 778999 6799887766432 1 355555554 59
Q ss_pred cccchH---hhhhhhcc
Q psy874 153 SYNDTH---AQKKVRNV 166 (191)
Q Consensus 153 ~~n~~~---~~~~~~~~ 166 (191)
..|+.+ |.++++..
T Consensus 133 ~~Ne~AD~LAk~a~~~~ 149 (166)
T 1ril_A 133 PENERVDREARRQAQSQ 149 (166)
T ss_dssp THHHHHHHHHHHHHTSS
T ss_pred hhHHHHHHHHHHHHHHh
Confidence 999866 66666554
No 8
>4htu_A Ribonuclease H, RNAse H; 5-chloro-2'-deoxyuridine, W-C base PAIR, wobble base PAIR, D helix; HET: DNA UCL; 1.49A {Bacillus halodurans} PDB: 3d0p_A* 4hue_A* 4huf_A* 4hug_A* 1zbf_A 1zbi_A 2g8u_A 3uld_A* 3ey1_A* 3twh_A* 2g8f_A 2g8v_A 2g8w_A 2g8i_A 2g8h_A 2g8k_A 3i8d_A* 2r7y_A* 1zbl_A
Probab=99.92 E-value=1e-25 Score=175.83 Aligned_cols=117 Identities=15% Similarity=0.057 Sum_probs=88.4
Q ss_pred CCCcEEEEEeeccCCCCCCCCceEEE-EEEcCCceeEEEeccCCCCChHHHHHHHHHHHHHHhHhcCCcceeEEEEcChH
Q psy874 3 PDNHVVVFTDGACPRNGKVGASAGYG-VYFGENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKSANEKVKLKRSYNDTH 81 (191)
Q Consensus 3 ~~~~i~IYtDGac~~N~~~~~~AG~G-v~~~~~~~~~~s~~l~g~~TNnrAEL~Avi~AL~~~~~~~~~~~v~~I~TDS~ 81 (191)
|++...|||||||++||+| +||| |++..++....++++ +.+|||+|||+|+++||+.+++.+. ++. |+|||+
T Consensus 2 ep~~~~iytDGac~GNPGp---~G~ggV~~~~g~~~~~~g~~-~~tTNN~aEl~A~i~aL~~l~~~~~--~v~-i~tDSq 74 (134)
T 4htu_A 2 EIIWESLSVDVGSQGNPGI---VEYKGVDTKTGEVLFEREPI-PIGTNNMGEFLAIVHGLRYLKERNS--RKP-IYSNSQ 74 (134)
T ss_dssp CCCSSSEEEEEEEETTTEE---EEEEEEETTTCCEEEEEEEE-EEECHHHHHHHHHHHHHHHHHHTTC--CCC-EEESCH
T ss_pred CccceEEEEeeccCCCCCC---eEEEEEEEECCEEEEEecCC-CCCchHHHHHHHHHHHHHHHHhCCC--CEE-EEcchH
Confidence 6788899999999999987 5994 555656667777663 4799999999999999999998654 578 999999
Q ss_pred HHHcccccccccccccccccccccce-eecCCCc--chhHHHHHHHHHHHHHHhhhhcCCCCCCcceE
Q psy874 82 AQKKVRNVSSVAMRIAQKVDYISHDV-ISVGIPF--PSIQDENVKLKRSYNDTHAQKKGIPFPSIQDE 146 (191)
Q Consensus 82 Yvv~~~~~~~~~~~w~~~edW~~ng~-~s~G~PV--~dL~~~~v~l~~~~~d~~~~~~g~~~~~~~~~ 146 (191)
||++ |..+ | +| ++.++|| +|||+++..+.+-+... ....+-+.|+
T Consensus 75 yVi~----------wi~~--~---~~kt~~~~~vkN~dLw~~ld~~~~~l~~~-----~~~~~~~kw~ 122 (134)
T 4htu_A 75 TAIK----------WVKD--K---KAKSTLVRNEETALIWKLVDEAEEWLNTH-----TYETPILKWQ 122 (134)
T ss_dssp HHHH----------HHHH--T---CCCCCCCCSSTTHHHHHHHHHHHHHHHHC-----CCCCCEEECC
T ss_pred HHHH----------HHHc--C---CcccCCCCCccCHHHHHHHHHHHHHHHhC-----CCCCceEEEE
Confidence 9997 3333 2 23 4668999 89999877775555432 2333446665
No 9
>1zbf_A Ribonuclease H-related protein; RNAse H, RNA/DNA hybrid, DDE motif, hydrolase; 1.50A {Bacillus halodurans} SCOP: c.55.3.1 PDB: 1zbi_A 2g8u_A 2g8i_A 2g8h_A 2g8k_A 2g8f_A 2g8v_A 2g8w_A 3ey1_A* 1zbl_A 3d0p_A* 3i8d_A* 2r7y_A*
Probab=99.88 E-value=2.9e-23 Score=163.10 Aligned_cols=105 Identities=14% Similarity=0.004 Sum_probs=80.3
Q ss_pred CCCcEEEEEeeccCCCCCCCCceEEEEEEc-CCceeEEEeccCCCCChHHHHHHHHHHHHHHhHhcCCcceeEEEEcChH
Q psy874 3 PDNHVVVFTDGACPRNGKVGASAGYGVYFG-ENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKSANEKVKLKRSYNDTH 81 (191)
Q Consensus 3 ~~~~i~IYtDGac~~N~~~~~~AG~Gv~~~-~~~~~~~s~~l~g~~TNnrAEL~Avi~AL~~~~~~~~~~~v~~I~TDS~ 81 (191)
+++.++|||||||++||++ +|||+++. .++....++++ +.+|||+|||+|+++||+.+.+.+. ++. |+|||+
T Consensus 8 ~~~~~~iy~DGa~~gNpG~---~G~G~vl~~~g~~~~~~~~~-~~~TNN~aEl~A~i~aL~~~~~~~~--~v~-i~tDS~ 80 (142)
T 1zbf_A 8 EIIWESLSVDVGSQGNPGI---VEYKGVDTKTGEVLFEREPI-PIGTNNMGEFLAIVHGLRYLKERNS--RKP-IYSNSQ 80 (142)
T ss_dssp CCCSSSEEEEEEECSSSEE---EEEEEEETTTCCEEEECCCE-EEECHHHHHHHHHHHHHHHHHHTTC--CCC-EEESCH
T ss_pred CCCeEEEEEeeccCCCCCC---eEEEEEEEeCCEEEEEeccc-CCcCcHHHHHHHHHHHHHHHHhCCC--eEE-EEEehH
Confidence 3467899999999999976 69999885 45555566653 4689999999999999999998764 799 999999
Q ss_pred HHHcccccccccccccccccccccceeecCCCc--chhHHHHHHHHHHH
Q psy874 82 AQKKVRNVSSVAMRIAQKVDYISHDVISVGIPF--PSIQDENVKLKRSY 128 (191)
Q Consensus 82 Yvv~~~~~~~~~~~w~~~edW~~ng~~s~G~PV--~dL~~~~v~l~~~~ 128 (191)
||++.+ .+. |.+ ++.+.|| +|||+++..+.+-.
T Consensus 81 ~vi~w~----------~~~-~~k---~~~~~~v~n~dLw~~l~~~~~w~ 115 (142)
T 1zbf_A 81 TAIKWV----------KDK-KAK---STLVRNEETALIWKLVDEAEEWL 115 (142)
T ss_dssp HHHHHH----------HHT-CCC---CCCCCSTTTHHHHHHHHHHHHHH
T ss_pred HHHHHH----------HcC-Ccc---CCCCCCcccHHHHHHHHHHHHHH
Confidence 999922 111 211 2346788 88999877765444
No 10
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism}
Probab=99.87 E-value=1.1e-21 Score=149.05 Aligned_cols=127 Identities=22% Similarity=0.361 Sum_probs=86.6
Q ss_pred CcEEEEEeeccCCCCCCCCceEEEEEEcC--Ccee-EEEeccCCCCChHHHHHHHHHHHHHHhHhcCCc---ceeEEEEc
Q psy874 5 NHVVVFTDGACPRNGKVGASAGYGVYFGE--NNPL-NVAGKVTGRVTNNNAEIQGAIHALKQAKSANEK---VKLKRSYN 78 (191)
Q Consensus 5 ~~i~IYtDGac~~N~~~~~~AG~Gv~~~~--~~~~-~~s~~l~g~~TNnrAEL~Avi~AL~~~~~~~~~---~~v~~I~T 78 (191)
..++|||||||.+||++ +|||+++.. ++.. ..++++ +.+|||+|||+|++.||+.+.+.+.. .+++ |+|
T Consensus 2 ~~~~iy~DGs~~~n~g~---~G~G~v~~~~~g~~~~~~~~~~-~~~tn~~aEl~A~~~aL~~a~~~~~~~~~~~v~-i~t 76 (140)
T 3u3g_D 2 NKIIIYTDGGARGNPGP---AGIGVVITDEKGNTLHESSAYI-GETTNNVAEYEALIRALEDLQMFGDKLVDMEVE-VRM 76 (140)
T ss_dssp CEEEEEEEEEESSTTEE---EEEEEEEECTTSCEEEEEEEEE-EEECHHHHHHHHHHHHHHHHGGGGGGGTTCEEE-EEE
T ss_pred ceEEEEEecCCCCCCCC---cEEEEEEEeCCCCEEEEEEeeC-CCCchHHHHHHHHHHHHHHHHHcCCCCCCceEE-EEe
Confidence 35899999999999876 699998743 3332 556654 46899999999999999999876431 1799 999
Q ss_pred ChHHHHcccccccccccccccccccccceeecCCCcchhHHHHHHHHHHHHHHhhhhcCCCCCCcceEEEeccccccchH
Q psy874 79 DTHAQKKVRNVSSVAMRIAQKVDYISHDVISVGIPFPSIQDENVKLKRSYNDTHAQKKGIPFPSIQDEKVKLKRSYNDTH 158 (191)
Q Consensus 79 DS~Yvv~~~~~~~~~~~w~~~edW~~ng~~s~G~PV~dL~~~~v~l~~~~~d~~~~~~g~~~~~~~~~~v~a~r~~n~~~ 158 (191)
||+||++.++.. |+-.. ++||+.+..+.+..-..+ ..+.|.+|+ |..|+.+
T Consensus 77 DS~~vi~~i~~~-----------~~~~~--------~~l~~~~~~i~~l~~~~~--------~~v~~~~V~--~~~N~~A 127 (140)
T 3u3g_D 77 DSELIVRQMQGV-----------YKVKE--------PTLKEKFAKIAHIKMERV--------PNLVFVHIP--REKNARA 127 (140)
T ss_dssp SCHHHHHHHTTS-----------SCCCC--------GGGHHHHHHHHHHHHHHC--------TTCEEEECC--GGGGHHH
T ss_pred ChHHHHHHhCCC-----------cccCC--------HHHHHHHHHHHHHhhcCC--------CcEEEEEcC--chhhHHH
Confidence 999999966532 32111 455553323222101221 257888776 7899865
Q ss_pred ---hhhhhhc
Q psy874 159 ---AQKKVRN 165 (191)
Q Consensus 159 ---~~~~~~~ 165 (191)
|+++++.
T Consensus 128 D~LA~~a~~~ 137 (140)
T 3u3g_D 128 DELVNEAIDK 137 (140)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHh
Confidence 6665544
No 11
>3hst_B Protein RV2228C/MT2287; ribonuclease H1, RV2228C N-terminal domain, fusion protein, maltose binding protein, HYDR; HET: MLR TAR; 2.25A {Mycobacterium tuberculosis}
Probab=99.86 E-value=1.8e-21 Score=148.69 Aligned_cols=124 Identities=24% Similarity=0.277 Sum_probs=86.6
Q ss_pred cEEEEEeeccCCCCCCCCceEEEEEEcC---Cce-eEEEeccCCCCChHHHHHHHHHHHHHHhHhcCCcceeEEEEcChH
Q psy874 6 HVVVFTDGACPRNGKVGASAGYGVYFGE---NNP-LNVAGKVTGRVTNNNAEIQGAIHALKQAKSANEKVKLKRSYNDTH 81 (191)
Q Consensus 6 ~i~IYtDGac~~N~~~~~~AG~Gv~~~~---~~~-~~~s~~l~g~~TNnrAEL~Avi~AL~~~~~~~~~~~v~~I~TDS~ 81 (191)
.++|||||||.+||++ +|||+++.. +.. ..+++++ +.+|||+|||+|++.||+.+.+.+.. +++ |+|||+
T Consensus 3 ~~~iy~DGs~~~~~g~---~g~G~v~~~~~~~~~~~~~~~~~-~~~tn~~aEl~A~~~aL~~a~~~~~~-~v~-i~tDS~ 76 (141)
T 3hst_B 3 KVVIEADGGSRGNPGP---AGYGAVVWTADHSTVLAESKQAI-GRATNNVAEYRGLIAGLDDAVKLGAT-EAA-VLMDSK 76 (141)
T ss_dssp EEEEEEEEEESSSSEE---EEEEEEEEETTSCSEEEEEEEEE-EEECHHHHHHHHHHHHHHHHHHHTCS-EEE-EEESCH
T ss_pred EEEEEEecCCCCCCCC---cEEEEEEEeCCCCcEEEeeeccC-CCCchHHHHHHHHHHHHHHHHHCCCc-eEE-EEeChH
Confidence 5899999999999876 699998743 222 3456554 47899999999999999999987765 899 999999
Q ss_pred HHHcccccccccccccccccccccceeecCCCcchhHHHHHHHHHHHHHHhhhhcCCCCCCcceEEEeccccccchH---
Q psy874 82 AQKKVRNVSSVAMRIAQKVDYISHDVISVGIPFPSIQDENVKLKRSYNDTHAQKKGIPFPSIQDEKVKLKRSYNDTH--- 158 (191)
Q Consensus 82 Yvv~~~~~~~~~~~w~~~edW~~ng~~s~G~PV~dL~~~~v~l~~~~~d~~~~~~g~~~~~~~~~~v~a~r~~n~~~--- 158 (191)
||++.++.. |+.+. ++||+.+.++ ... .. . +..+.|.+|+ |..|+.+
T Consensus 77 ~vv~~i~~~-----------~~~~~--------~~l~~~~~~i-~~l---~~---~--~~~v~~~~V~--~~~N~~AD~L 126 (141)
T 3hst_B 77 LVVEQMSGR-----------WKVKH--------PDLLKLYVQA-QAL---AS---Q--FRRINYEWVP--RARNTYADRL 126 (141)
T ss_dssp HHHHHHTTS-----------SCCCS--------HHHHHHHHHH-HHH---HT---T--SSEEEEEECC--GGGCHHHHHH
T ss_pred HHHHHHhCC-----------cccCC--------HHHHHHHHHH-HHH---Hh---c--CCeEEEEEcC--CcccHHHHHH
Confidence 999976532 43111 5555532222 111 11 1 1357888666 7889866
Q ss_pred hhhhhhc
Q psy874 159 AQKKVRN 165 (191)
Q Consensus 159 ~~~~~~~ 165 (191)
|+++++.
T Consensus 127 A~~a~~~ 133 (141)
T 3hst_B 127 ANDAMDA 133 (141)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 6655543
No 12
>3p1g_A Xenotropic murine leukemia virus-related virus (X H domain; XMRV, RNAse H, reverse transcriptase, transcription; 1.50A {Xenotropic mulv-related virus} PDB: 3v1q_A 3v1o_A 3v1r_A* 2hb5_A 4e89_A
Probab=99.85 E-value=5.3e-22 Score=159.13 Aligned_cols=120 Identities=17% Similarity=0.075 Sum_probs=87.3
Q ss_pred cEEEEEeeccCCCCCCCCceEEEEEE-cCCceeEEEeccCCCCChHHHHHHHHHHHHHHhHhcCCcceeEEEEcChHHHH
Q psy874 6 HVVVFTDGACPRNGKVGASAGYGVYF-GENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKSANEKVKLKRSYNDTHAQK 84 (191)
Q Consensus 6 ~i~IYtDGac~~N~~~~~~AG~Gv~~-~~~~~~~~s~~l~g~~TNnrAEL~Avi~AL~~~~~~~~~~~v~~I~TDS~Yvv 84 (191)
.++|||||||++||++ +|||+++ ..++....+ .+.+.+|||+|||+|++.||+.+. .++++ |+|||+||+
T Consensus 23 ~i~iytDGs~~~npG~---~g~G~vi~~~~~~~~~~-~~~~~~Tnn~aEl~Ai~~AL~~~~----~~~v~-I~tDS~~vi 93 (165)
T 3p1g_A 23 DYTWYTDGSSFLQEGQ---RRAGAAVTTETEVIWAR-ALPAGTSAQRAELIALTQALKMAE----GKKLN-VYTDSRYAF 93 (165)
T ss_dssp SEEEEEEEEEEEETTE---EEEEEEEECSSCEEEEE-EECTTCCHHHHHHHHHHHHHHHTB----TSEEE-EEECCHHHH
T ss_pred CEEEEEEcccCCCCCc---eEEEEEEEECCEEEEEe-cCCCCCcHHHHHHHHHHHHHHHcc----CceEE-EEEchHHHH
Confidence 4899999999999976 5899854 444544444 345678999999999999999983 24899 999999999
Q ss_pred cccccccccccccccccccccceeecCCCc--chhHHHHHHHHHHHHHHhhhhcCCCCCCcceEEEeccc-------ccc
Q psy874 85 KVRNVSSVAMRIAQKVDYISHDVISVGIPF--PSIQDENVKLKRSYNDTHAQKKGIPFPSIQDEKVKLKR-------SYN 155 (191)
Q Consensus 85 ~~~~~~~~~~~w~~~edW~~ng~~s~G~PV--~dL~~~~v~l~~~~~d~~~~~~g~~~~~~~~~~v~a~r-------~~n 155 (191)
+.+ |. ++.|.|| +|||++++.... .+ ..+.|.+|+.+. ..|
T Consensus 94 ~~i--------------w~----~~~g~~v~n~dl~~~l~~~l~---------~~---~~v~~~wVkgH~g~~~~~~~gN 143 (165)
T 3p1g_A 94 ATA--------------HV----HSEGREIKNKNEILALLKALF---------LP---KRLSIIHCPGHQKGNSAEARGN 143 (165)
T ss_dssp HHH--------------HS----CCCSCCCSSHHHHHHHHHHTT---------SB---SEEEEEECCSSCCSCSHHHHHH
T ss_pred hhh--------------hc----ccCCCcccCHHHHHHHHHHHh---------cC---CceEEEEecCCCCCCcCcchHH
Confidence 955 21 2457888 788887654321 01 358888888764 567
Q ss_pred chH---hhhhhh
Q psy874 156 DTH---AQKKVR 164 (191)
Q Consensus 156 ~~~---~~~~~~ 164 (191)
+++ |.++++
T Consensus 144 e~AD~LA~~aa~ 155 (165)
T 3p1g_A 144 RMADQAAREAAM 155 (165)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHh
Confidence 755 555544
No 13
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A
Probab=99.83 E-value=3.7e-20 Score=143.86 Aligned_cols=123 Identities=18% Similarity=0.172 Sum_probs=85.9
Q ss_pred cEEEEEeeccC-CCCCCCCceE-EEEEE-cCCceeE-EEeccC---CCCChHHHHHHHHHHHHHHhHhcCCcceeEEEEc
Q psy874 6 HVVVFTDGACP-RNGKVGASAG-YGVYF-GENNPLN-VAGKVT---GRVTNNNAEIQGAIHALKQAKSANEKVKLKRSYN 78 (191)
Q Consensus 6 ~i~IYtDGac~-~N~~~~~~AG-~Gv~~-~~~~~~~-~s~~l~---g~~TNnrAEL~Avi~AL~~~~~~~~~~~v~~I~T 78 (191)
+++|||||||. +||++ +| ||+++ .+|+... .+..+. +.+|||+|||+|++.||+.+.+.+.. +++ |+|
T Consensus 1 m~~iy~DGs~~~~n~g~---~G~~G~vi~~~g~~~~~~~~~~~~~~~~~tnn~aEl~A~~~aL~~a~~~g~~-~v~-i~t 75 (149)
T 2ehg_A 1 MIIGYFDGLCEPKNPGG---IATFGFVIYLDNRKIEGYGLAEKPFSINSTNNVAEYSGLICLMETMLRLGIS-SPI-IKG 75 (149)
T ss_dssp CCEEEEEEEEESSSSSS---EEEEEEEEECSSCEEEEEEECSCTTCTTCCHHHHHHHHHHHHHHHHHHHTCC-SCE-EEE
T ss_pred CEEEEEeeccCCCCCCh---heEEEEEEEECCEEEEEeccccCCCCCCccHHHHHHHHHHHHHHHHHHcCCC-EEE-EEe
Confidence 57899999999 89876 58 49865 3455433 233222 37899999999999999999987765 899 999
Q ss_pred ChHHHHcccccccccccccccccccccceeecCCCcchhHHHHHHHHHHHHHHhhhhcCCCCCCcceEEEeccccccchH
Q psy874 79 DTHAQKKVRNVSSVAMRIAQKVDYISHDVISVGIPFPSIQDENVKLKRSYNDTHAQKKGIPFPSIQDEKVKLKRSYNDTH 158 (191)
Q Consensus 79 DS~Yvv~~~~~~~~~~~w~~~edW~~ng~~s~G~PV~dL~~~~v~l~~~~~d~~~~~~g~~~~~~~~~~v~a~r~~n~~~ 158 (191)
||+||++.++.. |+.+ .....+||+++..+.+.+ ++.|.+|+ |..|+.+
T Consensus 76 DS~~vi~~i~~~-----------w~~~-----~~~~~~l~~~i~~l~~~~-------------~v~~~~V~--~~~N~~A 124 (149)
T 2ehg_A 76 DSQLVIKQMNGE-----------YKVK-----AKRIIPLYEKAIELKKKL-------------NATLIWVP--REENKEA 124 (149)
T ss_dssp SCHHHHHHHTTS-----------SCCC-----CTTHHHHHHHHHHHHHHH-------------TCEEEECC--GGGCHHH
T ss_pred ChHHHHHHHhCc-----------cccC-----CHHHHHHHHHHHHHHhcC-------------CEEEEEcC--CcccHHH
Confidence 999999966432 3322 123478888777665543 25677555 4778754
Q ss_pred ---hhhhhh
Q psy874 159 ---AQKKVR 164 (191)
Q Consensus 159 ---~~~~~~ 164 (191)
|+++++
T Consensus 125 D~LA~~a~~ 133 (149)
T 2ehg_A 125 DRLSRVAYE 133 (149)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 554443
No 14
>2kq2_A Ribonuclease H-related protein; PSI, NESG, protein structure, APO enzyme, structural genomics, protein structure initiative; NMR {Desulfitobacterium hafniense dcb-2} PDB: 2kw4_A
Probab=99.81 E-value=1.7e-21 Score=152.62 Aligned_cols=77 Identities=21% Similarity=0.207 Sum_probs=60.2
Q ss_pred CCCCCcEEEEEeeccCCCCCCCCceEEEEEEc-CCceeEEEe-cc--CC--CCChHHHHHHHHHHHHHHhHhcCCcceeE
Q psy874 1 MDPDNHVVVFTDGACPRNGKVGASAGYGVYFG-ENNPLNVAG-KV--TG--RVTNNNAEIQGAIHALKQAKSANEKVKLK 74 (191)
Q Consensus 1 ~~~~~~i~IYtDGac~~N~~~~~~AG~Gv~~~-~~~~~~~s~-~l--~g--~~TNnrAEL~Avi~AL~~~~~~~~~~~v~ 74 (191)
|-+++.++|||||||++ ++ +|||+++. +++...+++ .+ +. .+|||+|||+|++.||+.+.+.+. +++
T Consensus 1 ~~~~~~i~iytDGs~~~--g~---~G~G~vi~~~g~~~~~~~~~~~~~~~~~~tNn~aEl~A~~~AL~~a~~~~~--~v~ 73 (147)
T 2kq2_A 1 MDDRTEYDVYTDGSYVN--GQ---YAWAYAFVKDGKVHYEDADVGKNPAAATMRNVAGEIAAALYAVKKASQLGV--KIR 73 (147)
T ss_dssp CCTTSCCEEECCCCCBT--TB---CEEEEEEEETTEEEEEEEEECCCGGGGGTCTTHHHHHHHHHHHHHHHHHTC--CCC
T ss_pred CCCCCeEEEEECCCCCC--CC---cEEEEEEEECCEEEEEEeccccccccccccHHHHHHHHHHHHHHHHHHCCC--eEE
Confidence 56788999999999987 33 69999874 455556665 32 21 479999999999999998877654 799
Q ss_pred EEEcChHHHHc
Q psy874 75 RSYNDTHAQKK 85 (191)
Q Consensus 75 ~I~TDS~Yvv~ 85 (191)
|+|||+.+.+
T Consensus 74 -I~tDS~~i~~ 83 (147)
T 2kq2_A 74 -ILHDYAGIAF 83 (147)
T ss_dssp -BSSCCSTHHH
T ss_pred -EEECcHHHHH
Confidence 9999976554
No 15
>1mu2_A HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polymerase, drug design, transferase; 2.35A {Human immunodeficiency virus 2} SCOP: c.55.3.1 e.8.1.2 PDB: 1mu2_B
Probab=99.68 E-value=7.4e-17 Score=149.38 Aligned_cols=112 Identities=18% Similarity=0.141 Sum_probs=80.0
Q ss_pred CCcEEEEEeeccCCCCCCCCceEEEEEEcCCceeEEEeccCCCCChHHHHHHHHHHHHHHhHhcCCcceeEEEEcChHHH
Q psy874 4 DNHVVVFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKSANEKVKLKRSYNDTHAQ 83 (191)
Q Consensus 4 ~~~i~IYtDGac~~N~~~~~~AG~Gv~~~~~~~~~~s~~l~g~~TNnrAEL~Avi~AL~~~~~~~~~~~v~~I~TDS~Yv 83 (191)
++.++|||||||.+||++ +|||+++..++.. ++. .+.+|||+|||+|++.||+. + .++++ |+|||+||
T Consensus 434 ~~~~~iytDGs~~~n~g~---~g~G~v~~~~~~~--~~~-~~~~TNn~aEl~A~i~aL~~----~-~~~v~-I~tDS~~v 501 (555)
T 1mu2_A 434 PGAETFYTDGSCNRQSKE---GKAGYVTDRGKDK--VKK-LEQTTNQQAELEAFAMALTD----S-GPKVN-IIVDSQYV 501 (555)
T ss_dssp TTCEEEEEEEEECTTTCC---EEEEEEETTSCEE--EEE-ESSCCHHHHHHHHHHHHHHT----S-CSEEE-EEESCHHH
T ss_pred CCceEEEEcccccCCCCC---ceEEEEEEeCCEe--ecc-CCCCCHHHHHHHHHHHHHHc----C-CCeEE-EEEehHHH
Confidence 467999999999999987 4999987555432 333 24789999999999999997 2 24899 99999999
Q ss_pred HcccccccccccccccccccccceeecCCCcchhHHHHHHHHHHHHHHhhhhcCCCCCCcceEEEec--cccccchH
Q psy874 84 KKVRNVSSVAMRIAQKVDYISHDVISVGIPFPSIQDENVKLKRSYNDTHAQKKGIPFPSIQDEKVKL--KRSYNDTH 158 (191)
Q Consensus 84 v~~~~~~~~~~~w~~~edW~~ng~~s~G~PV~dL~~~~v~l~~~~~d~~~~~~g~~~~~~~~~~v~a--~r~~n~~~ 158 (191)
++.++. |+.. ++ +++|++++++... . ..+.|.+|+. ++..|+++
T Consensus 502 ~~~i~~------------~~~~----~~---~~l~~~~~~~~~~---------~---~~v~~~wV~~H~g~~~Ne~A 547 (555)
T 1mu2_A 502 MGIVAS------------QPTE----SE---SKIVNQIIEEMIK---------K---EAIYVAWVPAHKGIGGNQEV 547 (555)
T ss_dssp HHHHHT------------CCSE----ES---CHHHHHHHHHHHH---------C---SEEEEEECCSSSCCTTHHHH
T ss_pred HHHHhc------------cccc----cc---HHHHHHHHHHhcc---------C---CcEEEEEEECCCCChhHHHH
Confidence 996643 3321 11 6677755554332 1 2466777666 56889865
No 16
>2zd1_A Reverse transcriptase/ribonuclease H; P51/P66, hetero dimer, NNRTI, nonnucleoside inhibitor, AIDS, HIV, rilpivirine, diarylpyrimidine, DAPY, DNA recombination; HET: T27; 1.80A {Human immunodeficiency virus 1} PDB: 3is9_A* 3irx_A* 2ze2_A* 3bgr_A* 3qlh_A* 3klf_A* 3qo9_A* 1dlo_A 1bqm_A 2be2_A* 1s6q_A* 1s6p_A* 1s9g_A* 1suq_A* 2b5j_A* 2b6a_A* 2ban_A* 1s9e_A* 1hni_A* 1hnv_A* ...
Probab=99.67 E-value=8.4e-17 Score=149.09 Aligned_cols=74 Identities=19% Similarity=0.230 Sum_probs=60.8
Q ss_pred CCcEEEEEeeccCCCCCCCCceEEEEEEcCCceeEEEeccCCCCChHHHHHHHHHHHHHHhHhcCCcceeEEEEcChHHH
Q psy874 4 DNHVVVFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKSANEKVKLKRSYNDTHAQ 83 (191)
Q Consensus 4 ~~~i~IYtDGac~~N~~~~~~AG~Gv~~~~~~~~~~s~~l~g~~TNnrAEL~Avi~AL~~~~~~~~~~~v~~I~TDS~Yv 83 (191)
++.++|||||||.+||++ +|||+++..++...+ . .+.+|||+|||+|++.||+.+ .+++. |+|||+||
T Consensus 437 ~~~~~iytDGs~~~n~g~---~g~g~v~~~~~~~~~--~-~~~~TNn~aEl~Ai~~aL~~~-----~~~v~-I~tDS~~v 504 (557)
T 2zd1_A 437 VGAETFYVDGAANRETKL---GKAGYVTNKGRQKVV--P-LTNTTNQKTELQAIYLALQDS-----GLEVN-IVTDSQYA 504 (557)
T ss_dssp TTSCEEEEEEEECTTTCC---EEEEEEETTSCEEEE--E-ECSCCHHHHHHHHHHHHHHHS-----CSEEE-EEECCHHH
T ss_pred CCCEEEEEccCCCCCCCc---eEEEEEEECCcEEEe--c-CCCCCHHHHHHHHHHHHHHhC-----CCcEE-EEeChHHH
Confidence 456999999999999987 499998765554433 2 247899999999999999998 24899 99999999
Q ss_pred Hccccc
Q psy874 84 KKVRNV 89 (191)
Q Consensus 84 v~~~~~ 89 (191)
++.++.
T Consensus 505 i~~i~~ 510 (557)
T 2zd1_A 505 LGIIQA 510 (557)
T ss_dssp HHHHTT
T ss_pred HHHHhc
Confidence 997653
No 17
>3crv_A XPD/RAD3 related DNA helicase; XPD helicase DNA repair cancer aging, hydrolase; HET: FLC; 2.00A {Sulfolobus acidocaldarius} PDB: 3crw_1*
Probab=89.65 E-value=0.029 Score=51.20 Aligned_cols=72 Identities=18% Similarity=0.213 Sum_probs=54.0
Q ss_pred ccccccccc---cc---ceeecCCCcchhHHHHHHHHHHHHHHhhhhcCCCCCCc-ceEEEeccccccchHhhhhhhccc
Q psy874 95 RIAQKVDYI---SH---DVISVGIPFPSIQDENVKLKRSYNDTHAQKKGIPFPSI-QDEKVKLKRSYNDTHAQKKVRNVS 167 (191)
Q Consensus 95 ~w~~~edW~---~n---g~~s~G~PV~dL~~~~v~l~~~~~d~~~~~~g~~~~~~-~~~~v~a~r~~n~~~~~~~~~~~~ 167 (191)
++++|.|++ .+ .++-.|.|+|.. +..++.+.+|-+.- .|. +++ .+|..++.+.+||
T Consensus 448 ~~~EGiD~~d~~g~~l~~viI~~lPfp~~-dp~~~ar~~~~~~~---~g~--~~~~~~y~~pa~~~l~Q----------- 510 (551)
T 3crv_A 448 KLAEGIELRNNDRSLISDVVIVGIPYPPP-DDYLKILAQRVSLK---MNR--ENEEFLFKIPALVTIKQ----------- 510 (551)
T ss_dssp CSCCSSCCEETTEESEEEEEEESCCCCCC-SHHHHHHHHHTTCC---SST--TTHHHHTHHHHHHHHHH-----------
T ss_pred eecccccccccCCcceeEEEEEcCCCCCC-CHHHHHHHHHHHHh---hCC--chhHHHHHHHHHHHHHH-----------
Confidence 688999998 32 356789999877 87777776664421 132 233 4477888999999
Q ss_pred hhhHHHHhhcccceee
Q psy874 168 SVAMRIAQKVDYKLLV 183 (191)
Q Consensus 168 ~~~~~~~~~~~~~~~~ 183 (191)
+++|.|+++=||+.++
T Consensus 511 a~GRlIR~~~D~G~v~ 526 (551)
T 3crv_A 511 AIGRAIRDVNDKCNVW 526 (551)
T ss_dssp HHHTTCCSTTCEEEEE
T ss_pred HhccCccCCCccEEEE
Confidence 9999999999999886
No 18
>1rw3_A POL polyprotein; RNA and DNA dependent DNA polymerase, reverse transcriptase, transferase, replication; 3.00A {Moloney murine leukemia virus} SCOP: e.8.1.2
Probab=83.60 E-value=0.68 Score=41.11 Aligned_cols=75 Identities=12% Similarity=0.018 Sum_probs=44.8
Q ss_pred CCCcEEEEEeeccCCCCCCCCceEEEEEEcC----Ccee-EEEeccCC---CCChHHHHHHHHHHHHHHhHhcCCcceeE
Q psy874 3 PDNHVVVFTDGACPRNGKVGASAGYGVYFGE----NNPL-NVAGKVTG---RVTNNNAEIQGAIHALKQAKSANEKVKLK 74 (191)
Q Consensus 3 ~~~~i~IYtDGac~~N~~~~~~AG~Gv~~~~----~~~~-~~s~~l~g---~~TNnrAEL~Avi~AL~~~~~~~~~~~v~ 74 (191)
....+.+|||.|... . | ||.... .++. -+|..+.+ +-+....|+.|++.|++.....=...+++
T Consensus 343 ~~~~~~l~~DAS~~~---~----g-avL~q~~~~~~~~i~y~Sk~l~~~e~~ys~~ekEllAi~~a~~~~~~yl~g~~~~ 414 (455)
T 1rw3_A 343 LTKPFELFVDEKQGY---A----K-GVLTQKLGPWRRPVAYLSKKLDPVAAGWPPCLRMVAAIAVLTKDAGKLTMGQPLV 414 (455)
T ss_dssp SCCTTSCEEEEEECS---S----S-BEECCBCTTTTCCCCCCCBCSCSSCSSSCCSSHHHHHHHHHHHHHHGGGCSSCEE
T ss_pred CCCcEEEEEeccCCc---c----e-eEEEEecCCcEEEEEEEcccCCccccccchHHHHHHHHHHHHHHHHHHcCCCcEE
Confidence 345678999986432 1 1 344332 1222 22444433 33456789999999999887531123799
Q ss_pred EEEcChHHHHccc
Q psy874 75 RSYNDTHAQKKVR 87 (191)
Q Consensus 75 ~I~TDS~Yvv~~~ 87 (191)
|+||+. +...+
T Consensus 415 -v~tDh~-~~~~l 425 (455)
T 1rw3_A 415 -IKAPHA-VEALV 425 (455)
T ss_dssp -EECSSC-TTTTS
T ss_pred -EEecCh-HHHHh
Confidence 999997 55533
No 19
>2zd1_B P51 RT; P51/P66, hetero dimer, NNRTI, nonnucleoside inhibitor, AIDS, HIV, rilpivirine, diarylpyrimidine, DAPY, DNA recombination; HET: T27; 1.80A {Human immunodeficiency virus 1} SCOP: e.8.1.2 PDB: 2ykm_B* 2ykn_B* 2ze2_B* 3bgr_B* 3ig1_B* 3irx_B* 3is9_B* 3qo9_B* 3v4i_B* 3v6d_B* 3v81_B* 3klf_B* 3kk1_B* 3kjv_B* 3kk2_B* 3kk3_B* 2be2_B* 1n5y_B* 1bqm_B* 1n6q_B* ...
Probab=81.16 E-value=3.8 Score=36.23 Aligned_cols=74 Identities=11% Similarity=0.021 Sum_probs=44.3
Q ss_pred CCCCcEEEEEeeccCCCCCCCCceEEEEEE-cCCceeEEEeccCC---CCChHHHHHHH-HHHHHHHhHh--cC-Cccee
Q psy874 2 DPDNHVVVFTDGACPRNGKVGASAGYGVYF-GENNPLNVAGKVTG---RVTNNNAEIQG-AIHALKQAKS--AN-EKVKL 73 (191)
Q Consensus 2 ~~~~~i~IYtDGac~~N~~~~~~AG~Gv~~-~~~~~~~~s~~l~g---~~TNnrAEL~A-vi~AL~~~~~--~~-~~~~v 73 (191)
|++..+.++||++-. +.||.+. .++...-.|+.+.. -.|+. -|+.| ++.||+.... .| .+..+
T Consensus 320 d~~~~~~l~~das~~--------g~~g~vl~q~~~~~~~s~~~~~~~~y~~~~-~e~la~vv~al~~~r~yl~G~~~~~~ 390 (428)
T 2zd1_B 320 DPSKDLIAEIQKQGQ--------GQWTYQIYQEPFKNLKTGKYARMRGAHTND-VKQLTEAVQKITTESIVIWGKTPKFK 390 (428)
T ss_dssp CTTSCCEEEEEEEET--------TEEEEEEESSTTCEEEEEEEECCSSCTTCH-HHHHHHHHHHHHHHHHHHHSSCCEEE
T ss_pred CCCCCEEEEEecCCC--------CcEEEEEecCCCceeeecccchhhhcccch-HHHHHHHHHHhhccceEEECCCCcEE
Confidence 556779999999832 1567654 43322223444332 33444 45555 9999987653 13 23356
Q ss_pred EEEEcChHHHHc
Q psy874 74 KRSYNDTHAQKK 85 (191)
Q Consensus 74 ~~I~TDS~Yvv~ 85 (191)
+ ++||.+...-
T Consensus 391 i-~~td~~~~~~ 401 (428)
T 2zd1_B 391 L-PIQKETWETW 401 (428)
T ss_dssp E-SSCHHHHHHH
T ss_pred C-CccHHHHHHH
Confidence 7 8899988654
No 20
>4a15_A XPD helicase, ATP-dependent DNA helicase TA0057; hydrolase, nucleotide excision repair,; 2.20A {Thermoplasma acidophilum} PDB: 2vsf_A*
Probab=76.46 E-value=0.26 Score=45.95 Aligned_cols=72 Identities=17% Similarity=0.228 Sum_probs=41.3
Q ss_pred ccccccccccc---ceeecCCCcchhHHHHHHHHHHHHHHhhhhcCCCCCCcce-EEEeccccccchHhhhhhhccchhh
Q psy874 95 RIAQKVDYISH---DVISVGIPFPSIQDENVKLKRSYNDTHAQKKGIPFPSIQD-EKVKLKRSYNDTHAQKKVRNVSSVA 170 (191)
Q Consensus 95 ~w~~~edW~~n---g~~s~G~PV~dL~~~~v~l~~~~~d~~~~~~g~~~~~~~~-~~v~a~r~~n~~~~~~~~~~~~~~~ 170 (191)
+.++|.|++.. .++-.|.|+|.. +..++.+..|-+..- | +++.+ |..++.+.+|| +++
T Consensus 505 sf~EGiD~~g~~l~~viI~~lPfp~~-~p~~~ar~~~~~~~~---g---~~~~~~y~~pa~~~l~Q-----------a~G 566 (620)
T 4a15_A 505 RLSEGINFPGNELEMIILAGLPFPRP-DAINRSLFDYYERKY---G---KGWEYSVVYPTAIKIRQ-----------EIG 566 (620)
T ss_dssp CC--------CCCCEEEESSCCCCCC-CHHHHHHHHHHHHHH---S---CHHHHHTHHHHHHHHHH-----------HHH
T ss_pred ceeccccCCCCceEEEEEEcCCCCCC-CHHHHHHHHHHHHhh---C---CCchHHhHHHHHHHHHH-----------HhC
Confidence 46777777765 356778999443 234444444333211 2 23433 55678888999 999
Q ss_pred HHHHhhcccceeee
Q psy874 171 MRIAQKVDYKLLVS 184 (191)
Q Consensus 171 ~~~~~~~~~~~~~~ 184 (191)
|.|+++-||+.++-
T Consensus 567 RlIR~~~D~G~v~l 580 (620)
T 4a15_A 567 RLIRSAEDTGACVI 580 (620)
T ss_dssp TTCCSTTCCEEEEE
T ss_pred ccccCCCceEEEEE
Confidence 99999999998863
No 21
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus}
Probab=76.37 E-value=0.61 Score=36.42 Aligned_cols=21 Identities=19% Similarity=0.063 Sum_probs=18.9
Q ss_pred CCChHHHHHHHHHHHHHHhHh
Q psy874 46 RVTNNNAEIQGAIHALKQAKS 66 (191)
Q Consensus 46 ~~TNnrAEL~Avi~AL~~~~~ 66 (191)
.+|||++|++|.|.||+.+.+
T Consensus 49 ~~tnn~te~~Aei~Al~~al~ 69 (165)
T 2lsn_A 49 IPLGNHTAQMAEIAAVEFACK 69 (165)
T ss_dssp EEESSCCHHHHHHHHHHHHHH
T ss_pred CCchHHHHHHHHHHHHHHHHH
Confidence 368999999999999998876
No 22
>2vl7_A XPD; helicase, unknown function; 2.25A {Sulfolobus tokodaii}
Probab=56.54 E-value=1.5 Score=39.71 Aligned_cols=73 Identities=12% Similarity=0.217 Sum_probs=37.5
Q ss_pred ccccccccccc---c--eeecCCCcchhHHHHHHHHHHHHHHhhhhcCCCCCCcc-eEEEeccccccchHhhhhhhccch
Q psy874 95 RIAQKVDYISH---D--VISVGIPFPSIQDENVKLKRSYNDTHAQKKGIPFPSIQ-DEKVKLKRSYNDTHAQKKVRNVSS 168 (191)
Q Consensus 95 ~w~~~edW~~n---g--~~s~G~PV~dL~~~~v~l~~~~~d~~~~~~g~~~~~~~-~~~v~a~r~~n~~~~~~~~~~~~~ 168 (191)
+.++|.|.+.. . ++-.|.|++..-+..++.+..|-+... + +++. .....+.+.+|| +
T Consensus 439 ~~~EGiD~~~~~~~~~~Vii~~lPf~~~~d~~~~~r~~~~~~~~---~---~~~~~~~~~~~~~~~~Q-----------~ 501 (540)
T 2vl7_A 439 KESEGVEFREKENLFESLVLAGLPYPNVSDDMVRKRIERLSKLT---G---KDEDSIIHDLTAIVIKQ-----------T 501 (540)
T ss_dssp -------------CEEEEEEESCCCCCTTSHHHHHHHHHHHHHH---T---CCHHHHHHHHHHHHHHH-----------H
T ss_pred ceecceecCCCcccccEEEEECCCCCCCCCHHHHHHHHHHHHhh---C---CChhHHHHHHHHHHHHH-----------H
Confidence 46777777764 2 456799985544555555544433211 2 1221 222233677788 9
Q ss_pred hhHHHHhhcccceeee
Q psy874 169 VAMRIAQKVDYKLLVS 184 (191)
Q Consensus 169 ~~~~~~~~~~~~~~~~ 184 (191)
++|.|+++-||+.++-
T Consensus 502 ~GR~iR~~~D~g~v~l 517 (540)
T 2vl7_A 502 IGRAFRDPNDYVKIYL 517 (540)
T ss_dssp HHHHCCSTTCCCEEEE
T ss_pred hCCcccCCCccEEEEE
Confidence 9999999999999863
No 23
>2zd1_A Reverse transcriptase/ribonuclease H; P51/P66, hetero dimer, NNRTI, nonnucleoside inhibitor, AIDS, HIV, rilpivirine, diarylpyrimidine, DAPY, DNA recombination; HET: T27; 1.80A {Human immunodeficiency virus 1} PDB: 3is9_A* 3irx_A* 2ze2_A* 3bgr_A* 3qlh_A* 3klf_A* 3qo9_A* 1dlo_A 1bqm_A 2be2_A* 1s6q_A* 1s6p_A* 1s9g_A* 1suq_A* 2b5j_A* 2b6a_A* 2ban_A* 1s9e_A* 1hni_A* 1hnv_A* ...
Probab=45.41 E-value=55 Score=29.55 Aligned_cols=74 Identities=12% Similarity=0.102 Sum_probs=41.4
Q ss_pred CCCCcEEEEEeeccCCCCCCCCceEEEEEE-cCCceeEEEeccC--CCCChHHHHHHH-HHHHHHHhHh--cCCcceeEE
Q psy874 2 DPDNHVVVFTDGACPRNGKVGASAGYGVYF-GENNPLNVAGKVT--GRVTNNNAEIQG-AIHALKQAKS--ANEKVKLKR 75 (191)
Q Consensus 2 ~~~~~i~IYtDGac~~N~~~~~~AG~Gv~~-~~~~~~~~s~~l~--g~~TNnrAEL~A-vi~AL~~~~~--~~~~~~v~~ 75 (191)
|....+.+|||.+-. +.||+++ .+++..-.++.+. -..+.+.-|+.| ++.+|+.... .|...++.
T Consensus 322 d~~~~~~l~~das~~--------g~~g~vl~q~~~~~~~~~~~~~~~~y~~~e~e~la~vv~~l~~~~~~l~g~~p~~~- 392 (557)
T 2zd1_A 322 DPSKDLIAEIQKQGQ--------GQWTYQIYQEPFKNLKTGKYARMRGAHTNDVKQLTEAVQKITTESIVIWGKTPKFK- 392 (557)
T ss_dssp CTTSCCEEEEEEEET--------TEEEEEEEEETTEEEEEEEEECCSCSEECHHHHHHHHHHHHHHHHHHHHSSCCEEE-
T ss_pred CCCCCEEEEEecCCC--------CcEEEEEecCCCceeeeeecccccccCCChHHHHHHHHHHhhhhheEEeCCCCCEE-
Confidence 456678999998732 2567654 3332221122211 123334468888 9999987543 13211566
Q ss_pred E-EcChHHHH
Q psy874 76 S-YNDTHAQK 84 (191)
Q Consensus 76 I-~TDS~Yvv 84 (191)
| +||++...
T Consensus 393 vp~~~~~~~~ 402 (557)
T 2zd1_A 393 LPIQKETWET 402 (557)
T ss_dssp ESBCHHHHHH
T ss_pred CCCcHHHHHH
Confidence 6 79988654
No 24
>2p22_B Vacuolar protein sorting-associated protein 28; endosome, trafficking complex, VPS23, VPS28, VPS37, MVB12; 2.70A {Saccharomyces cerevisiae}
Probab=23.40 E-value=32 Score=25.52 Aligned_cols=34 Identities=21% Similarity=0.198 Sum_probs=24.4
Q ss_pred ChHHHHHHHHHHHHHHhHhcCCcceeEEEEcChHHHHc
Q psy874 48 TNNNAEIQGAIHALKQAKSANEKVKLKRSYNDTHAQKK 85 (191)
Q Consensus 48 TNnrAEL~Avi~AL~~~~~~~~~~~v~~I~TDS~Yvv~ 85 (191)
..+.|||.|||.+|+.+...-.+ ..+ |+++|.--
T Consensus 37 ye~LAeLYSII~tle~LEKAyik-D~I---t~~eYt~~ 70 (118)
T 2p22_B 37 IETLSEIYSIVITLDHVEKAYLK-DSI---DDTQYTNT 70 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTT-TSS---CHHHHHHH
T ss_pred HHhHHHHHHHHHHHHHHHHHHhh-cCC---CHHHHHHH
Confidence 45779999999999998763222 333 88888753
No 25
>2kqv_A Non-structural protein 3; severe acute respiratory syndrome (SARS), nonstructural PROT macrodomains, RNA-binding proteins, structural genomics; NMR {Sars coronavirus} PDB: 2kqw_A
Probab=21.59 E-value=1.4e+02 Score=23.80 Aligned_cols=60 Identities=15% Similarity=0.112 Sum_probs=43.4
Q ss_pred HHHHHhHhcCCcceeEEEEcChHHHHccccccccccccccccccccccee----ecCCCcchhHHHHHH
Q psy874 59 HALKQAKSANEKVKLKRSYNDTHAQKKVRNVSSVAMRIAQKVDYISHDVI----SVGIPFPSIQDENVK 123 (191)
Q Consensus 59 ~AL~~~~~~~~~~~v~~I~TDS~Yvv~~~~~~~~~~~w~~~edW~~ng~~----s~G~PV~dL~~~~v~ 123 (191)
.-|+.+++.|.. .- |.+|-.-.++.+...++|....++ -+.+|+. |+..|+.|++.++-.
T Consensus 13 ~ml~~ak~~g~~--~~-ic~D~~A~~k~lk~~~kgv~~~eg--l~~~Gv~fY~Ys~k~Pl~~vi~~lNs 76 (198)
T 2kqv_A 13 EMLAHAEETRKL--MP-ICMDVRAIMATIQRKYKGIKIQEG--IVDYGVRFFFYTSKEPVASIITKLNS 76 (198)
T ss_dssp HHHHHHHHSCCB--CE-EETTCHHHHHHHHHHCCSCCCCSS--BCCSSSCCEEECTTSCHHHHHHHHHH
T ss_pred HHHHHhhhcCeE--EE-EEeccHHHHHHHhhhccCcccccc--ceeCCEEEEEEecCChHHHHHHHhhc
Confidence 346667776653 44 779999998888777777777777 6777743 778899888876433
No 26
>2f6m_B Vacuolar protein sorting-associated protein VPS28; endosomes, trafficking complex, vacuole protei sorting, ESCRT protein complexes; HET: DDQ; 2.10A {Saccharomyces cerevisiae} SCOP: a.2.17.2 PDB: 2f66_B
Probab=20.50 E-value=32 Score=25.19 Aligned_cols=34 Identities=21% Similarity=0.198 Sum_probs=24.4
Q ss_pred ChHHHHHHHHHHHHHHhHhcCCcceeEEEEcChHHHHc
Q psy874 48 TNNNAEIQGAIHALKQAKSANEKVKLKRSYNDTHAQKK 85 (191)
Q Consensus 48 TNnrAEL~Avi~AL~~~~~~~~~~~v~~I~TDS~Yvv~ 85 (191)
..+.|||.+||.+|+.+...-.+ ..+ |+++|.--
T Consensus 28 ye~LAelYSII~tle~LEkAyik-D~I---t~~eYt~~ 61 (109)
T 2f6m_B 28 IETLSEIYSIVITLDHVEKAYLK-DSI---DDTQYTNT 61 (109)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHT-TCS---CHHHHHHH
T ss_pred HHhHHHHHHHHHHHHHHHHHHhh-cCC---CHHHHHHH
Confidence 45789999999999998753111 233 88889853
No 27
>2caz_B Vacuolar protein sorting-associated protein VPS28; protein transport, ESCRT, MVB, multivesicular bodies, endosome, lysosome, PH domain, protein sorting; 3.6A {Saccharomyces cerevisiae} SCOP: a.2.17.2
Probab=20.04 E-value=41 Score=26.14 Aligned_cols=33 Identities=21% Similarity=0.203 Sum_probs=24.3
Q ss_pred ChHHHHHHHHHHHHHHhHhcCCcceeEEEEcChHHHH
Q psy874 48 TNNNAEIQGAIHALKQAKSANEKVKLKRSYNDTHAQK 84 (191)
Q Consensus 48 TNnrAEL~Avi~AL~~~~~~~~~~~v~~I~TDS~Yvv 84 (191)
..+.|||.|||.+|+.+...-.+ ..+ |+++|.-
T Consensus 45 yE~LAeLYSII~tLE~LEKAYik-D~I---t~~eYT~ 77 (155)
T 2caz_B 45 IETLSEIYSIVITLDHVEKAYLK-DSI---DDTQYTN 77 (155)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTT-TSS---CHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhh-cCC---CHHHHHH
Confidence 34779999999999998763222 334 8888985
Done!