Query 040757
Match_columns 295
No_of_seqs 190 out of 249
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 11:30:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040757.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040757hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3102 Uncharacterized conser 100.0 5.4E-65 1.2E-69 444.4 21.3 263 3-291 1-268 (269)
2 PF09749 HVSL: Uncharacterised 100.0 9.5E-62 2.1E-66 442.1 21.6 232 42-291 1-239 (239)
3 COG1514 LigT 2'-5' RNA ligase 99.7 6.7E-17 1.5E-21 141.7 15.1 129 90-243 4-132 (180)
4 PRK15124 2'-5' RNA ligase; Pro 99.7 2.5E-16 5.4E-21 137.2 11.8 128 88-243 5-133 (176)
5 TIGR02258 2_5_ligase 2'-5' RNA 99.6 2E-14 4.4E-19 124.5 16.3 131 90-245 4-134 (179)
6 PRK13679 hypothetical protein; 99.4 2.2E-11 4.7E-16 105.2 16.1 158 89-290 3-162 (168)
7 PHA02574 57B hypothetical prot 99.3 1.3E-11 2.8E-16 105.1 9.1 107 90-240 12-118 (149)
8 PF13563 2_5_RNA_ligase2: 2'-5 99.1 3.3E-10 7.2E-15 94.5 8.0 98 143-246 24-122 (153)
9 PF10469 AKAP7_NLS: AKAP7 2'5' 99.1 1.8E-09 4E-14 96.2 12.0 139 87-243 1-152 (209)
10 PF02834 LigT_PEase: LigT like 98.9 5.9E-09 1.3E-13 80.0 7.0 84 94-197 2-87 (87)
11 PLN00108 unknown protein; Prov 97.8 0.00021 4.4E-09 66.1 11.6 151 85-241 34-197 (257)
12 PF07823 CPDase: Cyclic phosph 96.4 0.028 6E-07 50.0 10.0 115 98-241 14-139 (196)
13 TIGR03223 Phn_opern_protn puta 96.2 0.023 4.9E-07 51.9 8.2 92 144-242 57-177 (228)
14 PF05213 Corona_NS2A: Coronavi 94.3 0.64 1.4E-05 42.1 10.8 87 143-241 42-131 (248)
15 PF02834 LigT_PEase: LigT like 93.2 0.14 3E-06 38.8 4.2 68 206-280 8-76 (87)
16 TIGR02258 2_5_ligase 2'-5' RNA 88.1 2.8 6.1E-05 35.8 8.0 76 193-280 1-78 (179)
17 PF08302 tRNA_lig_CPD: Fungal 86.3 17 0.00037 33.7 12.5 124 142-285 113-253 (257)
18 COG1514 LigT 2'-5' RNA ligase 85.1 5.4 0.00012 35.0 8.2 54 193-251 1-54 (180)
19 KOG2814 Transcription coactiva 84.8 7.1 0.00015 37.6 9.3 103 138-241 171-283 (345)
20 PF06299 DUF1045: Protein of u 83.9 9.9 0.00021 32.9 9.1 88 148-242 1-117 (160)
21 PHA02977 hypothetical protein; 83.8 17 0.00036 31.2 10.1 133 83-251 35-182 (201)
22 PF10469 AKAP7_NLS: AKAP7 2'5' 78.3 5.6 0.00012 35.2 5.9 85 194-281 2-92 (209)
23 PRK15124 2'-5' RNA ligase; Pro 74.8 16 0.00035 31.5 7.7 55 192-251 4-58 (176)
24 PF06299 DUF1045: Protein of u 60.6 9 0.0002 33.2 3.1 59 136-196 95-158 (160)
25 PF15559 DUF4660: Domain of un 60.4 7.3 0.00016 31.5 2.3 13 38-50 31-43 (108)
26 cd00580 CHMI 5-carboxymethyl-2 54.1 1.1E+02 0.0024 24.3 8.8 93 146-239 2-105 (113)
27 TIGR03223 Phn_opern_protn puta 52.4 25 0.00054 32.2 4.7 55 144-200 168-222 (228)
28 COG4316 Uncharacterized protei 50.8 33 0.00072 28.3 4.6 77 142-241 3-81 (138)
29 PLN00108 unknown protein; Prov 49.3 1.1E+02 0.0025 28.4 8.6 89 191-281 34-140 (257)
30 PRK13679 hypothetical protein; 45.9 1.1E+02 0.0024 25.9 7.6 52 196-257 4-56 (168)
31 PF09749 HVSL: Uncharacterised 45.4 1.5E+02 0.0033 26.8 8.8 83 195-280 42-133 (239)
32 KOG4786 Ubinuclein, nuclear pr 40.3 28 0.0006 37.0 3.3 45 3-47 125-173 (1136)
33 COG5255 Uncharacterized protei 35.5 1.5E+02 0.0033 27.0 6.8 94 160-259 110-208 (239)
34 PHA02574 57B hypothetical prot 34.3 23 0.0005 30.2 1.5 42 192-240 8-49 (149)
35 cd01785 PDZ_GEF_RA Ubiquitin-l 34.2 1.3E+02 0.0027 23.3 5.2 48 184-239 5-53 (85)
36 PF13563 2_5_RNA_ligase2: 2'-5 33.2 47 0.001 26.9 3.1 51 222-281 15-67 (153)
37 COG5011 Uncharacterized protei 32.8 50 0.0011 29.8 3.4 31 211-241 20-53 (228)
38 PF07823 CPDase: Cyclic phosph 32.8 2.4E+02 0.0052 24.8 7.8 45 210-256 17-62 (196)
39 PF08394 Arc_trans_TRASH: Arch 31.4 58 0.0013 21.3 2.6 18 273-290 8-25 (37)
40 PRK04173 glycyl-tRNA synthetas 28.8 86 0.0019 31.5 4.7 77 151-228 158-249 (456)
41 PF05213 Corona_NS2A: Coronavi 26.5 2.3E+02 0.005 26.0 6.5 66 190-261 3-70 (248)
42 PF03927 NapD: NapD protein; 26.0 1.3E+02 0.0028 22.6 4.2 60 144-217 2-61 (79)
43 PF14026 DUF4242: Protein of u 24.2 3E+02 0.0066 20.5 5.9 64 151-227 8-71 (77)
44 PF02962 CHMI: 5-carboxymethyl 21.7 4.6E+02 0.01 21.6 9.9 92 146-238 2-104 (124)
45 COG4466 Veg Uncharacterized pr 21.0 41 0.00089 25.7 0.6 25 63-95 25-54 (80)
46 PF14480 DNA_pol3_a_NI: DNA po 20.9 1.6E+02 0.0034 21.4 3.7 37 143-179 36-72 (76)
47 PF07491 PPI_Ypi1: Protein pho 20.4 58 0.0013 23.6 1.2 13 7-19 47-59 (60)
No 1
>KOG3102 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=5.4e-65 Score=444.41 Aligned_cols=263 Identities=46% Similarity=0.736 Sum_probs=222.1
Q ss_pred ccccccCCCCCCCcccCCCCCCCCCCCCC---CCCCCCCCCCCCCCCcccCCCCCCCccccCCCCCCCceEEeeeecccc
Q 040757 3 ALLASYGDSYSDSDTERGNPSNSGINSSS---SQPETTNLPLPPPPLSLVNPPNSLGKYNISSINGSLSILIYAHQLFAV 79 (295)
Q Consensus 3 ~~l~~Y~~s~sdsd~e~~~~~~~~~~~~~---~~~~~~~~~LPp~p~~~~~~~~~~d~~~~~p~~h~gR~R~~pHv~~~~ 79 (295)
|++|+||+|||++++|+..+ .++..++. +....+..+||.+.+.+.+.|.+.+-..|+|+.||||+|+|||+
T Consensus 1 m~~a~yggsSSs~seDe~~~-e~~v~t~pg~~~~~rlP~~~lp~~dsil~pkpg~eef~eDvptehGgRvR~FpHe---- 75 (269)
T KOG3102|consen 1 MLRASYGGSSSSSSEDELSP-ESPVTTNPGEKDSIRLPPPPLPLLDSILSPKPGSEEFFEDVPTEHGGRVRNFPHE---- 75 (269)
T ss_pred CcccccCCCCCCccccccCc-cCCcccCCcccccccCCCCCCCchhhhcCCCCCcccccccCccccCceeccCccc----
Confidence 67999999888776665333 22221110 00112233444444445567888888889999999999999999
Q ss_pred CCCCCccccc-cccccCCchhHHHHHHHHHHHhhhCCCceeecccccccccccCchhhhhhhcCCCceEEeccccccccc
Q 040757 80 LPTKGSIDHH-LPTVLIPLAPKKELAQFLKRVSSILPGIYVVDVDVPFTSLRKDDSELEQVAFGREFHISLGRTVPIRVH 158 (295)
Q Consensus 80 ~~~~Gnw~th-YI~~~~~~~~~~~L~~li~~~~~~~~~l~~v~~~~~~~~~~~~~~~~~~~~~~~~lHISLSr~~~lr~~ 158 (295)
+|||||| |+++..+...++.+. ++++....|.++.+..|+ +..+.|||||||+++||+|
T Consensus 76 ---rGNwAthVYVP~~a~~~~~eEf~--l~~va~l~PHl~l~~p~~---------------~~~~~fHlSLsr~VvLr~H 135 (269)
T KOG3102|consen 76 ---RGNWATHVYVPVCAPPLPKEEFV--LKKVASLVPHLHLVEPDV---------------ALGREFHLSLSRNVVLRVH 135 (269)
T ss_pred ---cCceeEEEEEeeccCCChHHHHH--HHHHHhhcccceeeccch---------------hccceEEEeeccceEEEee
Confidence 9999999 999999877666664 677777888888875333 3368999999999999999
Q ss_pred cHHHHHHHHHHHHhcCccEEEEeCCeeeecCCCCceEEEEEEeccCChhhHHHHHHHHHHHHHHCCCCCCCCCCCCeeEe
Q 040757 159 QIDSIVAMLRQRLQSQRRYWIDFSKWEAFVNDDRTRTFLSLEVITGGLLEITKQIQVVNEVYRLHNLPEFYKDPRPHISL 238 (295)
Q Consensus 159 qid~f~~~L~~~l~~~~~F~l~~~~l~vf~N~e~tR~Fl~l~V~~~~~~~L~~L~~~vd~~l~~fg~p~~Y~~~~fHiSI 238 (295)
||++|+++|++++..+++|.+++++|++|+|+|+||+|+++++..++..++..+++.||++|+.|++|.||++|+||+||
T Consensus 136 qI~~fi~~L~~~l~s~~rf~~t~n~~~iytN~e~TRtFi~leitt~~~~~~~~~i~~vd~Vm~~~nL~~FY~DPsfHiSL 215 (269)
T KOG3102|consen 136 QINSFISMLRQKLQSQKRFLITFNKWEIYTNDEHTRTFISLEITTSGLSEISKQIDAVDEVMKLHNLPEFYKDPSFHISL 215 (269)
T ss_pred hhhHHHHHHHHHHhhhhhheEeecceEEEeccccceeEEEEEechhhHHHHHHHHHHHHHHHHHcCchhhhcCCCCCceE
Confidence 99999999999999999999999999999999999999999999888899999999999999999999999999999999
Q ss_pred eeccCCCchHHH-HHHHHHHhhhcccccccceeeEEEeceEEEeeCCeeEEEec
Q 040757 239 AWLLGDVSSSLK-RVVVEEMKRLSVESSLHKHFFSCKFGGIHCKIGKKTYKICK 291 (295)
Q Consensus 239 AW~lgd~~~~l~-~~~~~l~~~~~~~~~~~~~~~~~~v~~v~ckiGNk~~~i~~ 291 (295)
+||+||....|+ +++.||++..+.+ +.+++.+.+++.+|+||||||.|+|||
T Consensus 216 ~WcvGD~rt~L~g~~l~EL~~l~dg~-~~~~~~l~v~~~~i~Ck~GNK~f~~~l 268 (269)
T KOG3102|consen 216 VWCVGDIRTSLKGAVLVELRKLRDGG-CVQNRILTVKFCGIECKIGNKTFKICL 268 (269)
T ss_pred EEEeccHHHhhhhHHHHHHHHHHhcc-chhheeEEEeeeeEEEecCCeeeeeec
Confidence 999999999999 6789999888766 677899999999999999999999997
No 2
>PF09749 HVSL: Uncharacterised conserved protein; InterPro: IPR019146 This entry is of proteins of approximately 300 residues conserved from plants to humans. It contains two conserved motifs, HxSL and FHVSL. The function is unknown.
Probab=100.00 E-value=9.5e-62 Score=442.10 Aligned_cols=232 Identities=32% Similarity=0.473 Sum_probs=203.5
Q ss_pred CCCCCcccCCCCC--CCccccCCCCCCCceEEeeeeccccCCCCCccccc-cccccCCchhHHHHHHHHHHHhhhCCCce
Q 040757 42 PPPPLSLVNPPNS--LGKYNISSINGSLSILIYAHQLFAVLPTKGSIDHH-LPTVLIPLAPKKELAQFLKRVSSILPGIY 118 (295)
Q Consensus 42 Pp~p~~~~~~~~~--~d~~~~~p~~h~gR~R~~pHv~~~~~~~~Gnw~th-YI~~~~~~~~~~~L~~li~~~~~~~~~l~ 118 (295)
||+|++|+++|++ ..++.|||++|+||+|+|||| +|||||| ||+|.++.++++.|..+++++++..+...
T Consensus 1 pplP~~~~~ly~~~~~~~~~d~~~~h~gR~R~~pHv-------~Gnw~t~vYi~~~~~~~~~~~l~~~i~~~~~~~~~~~ 73 (239)
T PF09749_consen 1 PPLPSSFLDLYASTVRTSVQDDPSLHGGRIRSFPHV-------EGNWPTHVYIEWPPSEDQRELLEKLISKANSICPKLH 73 (239)
T ss_pred CCCChHHHhccccccccccccCcccccCceeccccc-------CCccceEEEEEecCcHHHHHHHHHHHHHHHhhhhhhh
Confidence 8999999999996 456788999999999999999 9999999 99999999999999999999998876432
Q ss_pred eecccccccccccCchhhhhhhcCCCceEEeccccccccccHHHHHHHHHHHH--hcCccEEEEeCCeeeecCCCCceEE
Q 040757 119 VVDVDVPFTSLRKDDSELEQVAFGREFHISLGRTVPIRVHQIDSIVAMLRQRL--QSQRRYWIDFSKWEAFVNDDRTRTF 196 (295)
Q Consensus 119 ~v~~~~~~~~~~~~~~~~~~~~~~~~lHISLSr~~~lr~~qid~f~~~L~~~l--~~~~~F~l~~~~l~vf~N~e~tR~F 196 (295)
. .++++..++++ .+.+||||||||+.|++|||++|+++|+++| +++++|.++|+++.||+|+|+||+|
T Consensus 74 ~-----~~~~~~~s~lg-----~~~~lHISLSr~~~lr~~~id~f~~~lr~~l~~~~~~~F~v~f~~~~~~~N~e~TR~F 143 (239)
T PF09749_consen 74 S-----EFEPLLYSDLG-----SPDPLHISLSRTFPLRTHQIDPFVDSLRQALRSSNIRPFYVSFSGLDVYTNDEKTRSF 143 (239)
T ss_pred h-----hcccccccccC-----CCCCeEEEeCCCccccHHHHHHHHHHHHHHHhhcCCceEEEEeCceEEEecCCCCeEE
Confidence 2 26677776765 4799999999999999999999999999999 8899999999999999999999999
Q ss_pred EEEEeccCChhhHHHHHHHHHHHHHHCCCCCCC-CCCCCeeEeeeccCCCchHHHHHH-HHHHhhhcccccccceeeEEE
Q 040757 197 LSLEVITGGLLEITKQIQVVNEVYRLHNLPEFY-KDPRPHISLAWLLGDVSSSLKRVV-VEEMKRLSVESSLHKHFFSCK 274 (295)
Q Consensus 197 l~l~V~~~~~~~L~~L~~~vd~~l~~fg~p~~Y-~~~~fHiSIAW~lgd~~~~l~~~~-~~l~~~~~~~~~~~~~~~~~~ 274 (295)
|+++|..+...+|+.|+++||++|++||+|+|| ++++||||||||+|++.+.+++.. ..++...+.. .......++.
T Consensus 144 L~l~V~~~~~~~l~~l~~~i~~~l~~~~lp~~Y~~~~~fHvSIAw~~~~~~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~ 222 (239)
T PF09749_consen 144 LALRVSEGSNNELKRLLDRINEVLKEFGLPPFYDEDPSFHVSIAWTLGDPSEELKESSLKILQEPLDEL-EEIENDNSFK 222 (239)
T ss_pred EEEEecccccHHHHHHHHHHHHHHHHhCCCcccCCCCCCEEEEEEECCCchHHHHHHHHHHHHHHHhhh-hhccceeEEE
Confidence 999999886556999999999999999999999 999999999999999999999864 3343333322 1111223899
Q ss_pred eceEEEeeCCeeEEEec
Q 040757 275 FGGIHCKIGKKTYKICK 291 (295)
Q Consensus 275 v~~v~ckiGNk~~~i~~ 291 (295)
|++|+|||||++|+|+|
T Consensus 223 v~~Ik~kiGn~v~~ipL 239 (239)
T PF09749_consen 223 VNSIKCKIGNKVFSIPL 239 (239)
T ss_pred eeEEEEEECCEEEEecC
Confidence 99999999999999986
No 3
>COG1514 LigT 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]
Probab=99.73 E-value=6.7e-17 Score=141.71 Aligned_cols=129 Identities=18% Similarity=0.185 Sum_probs=118.4
Q ss_pred cccccCCchhHHHHHHHHHHHhhhCCCceeecccccccccccCchhhhhhhcCCCceEEeccccccccccHHHHHHHHHH
Q 040757 90 LPTVLIPLAPKKELAQFLKRVSSILPGIYVVDVDVPFTSLRKDDSELEQVAFGREFHISLGRTVPIRVHQIDSIVAMLRQ 169 (295)
Q Consensus 90 YI~~~~~~~~~~~L~~li~~~~~~~~~l~~v~~~~~~~~~~~~~~~~~~~~~~~~lHISLSr~~~lr~~qid~f~~~L~~ 169 (295)
||++.+|.++.+.|..+.+.+.... ..+||+ ++++||||.++|.+....++.+.++|++
T Consensus 4 FiAl~~p~~i~~~i~~~~~~~~~~~-~~k~v~--------------------~en~HiTL~flGev~e~~~~~l~~~l~~ 62 (180)
T COG1514 4 FIALDPPAEIAERLARIRARLKGAR-AIKWVE--------------------PENLHITLKFLGEVDEDKADELIEALAR 62 (180)
T ss_pred EEEecCCHHHHHHHHHHHHhcCccc-cccccc--------------------ccCceEEEEccCCcCchHHHHHHHHHHH
Confidence 8999999999999998888887776 677875 7899999999999999999999999998
Q ss_pred HHhcCccEEEEeCCeeeecCCCCceEEEEEEeccCChhhHHHHHHHHHHHHHHCCCCCCCCCCCCeeEeeeccC
Q 040757 170 RLQSQRRYWIDFSKWEAFVNDDRTRTFLSLEVITGGLLEITKQIQVVNEVYRLHNLPEFYKDPRPHISLAWLLG 243 (295)
Q Consensus 170 ~l~~~~~F~l~~~~l~vf~N~e~tR~Fl~l~V~~~~~~~L~~L~~~vd~~l~~fg~p~~Y~~~~fHiSIAW~lg 243 (295)
..+.+ +|.|++++++.|+|..++|++|+ +|.. .++|.+|.+.|++.+...|++..-+++.||||||+..+
T Consensus 63 i~~~~-~f~i~l~g~g~F~~~~~~rvi~~-~v~~--~~~L~~L~~~l~~~~~~~g~~~~~r~F~PHvTl~r~k~ 132 (180)
T COG1514 63 IAAPE-PFPITLDGAGSFPNPRRPRVIWV-GVEE--TEELRALAEELERALARLGLRPEERPFVPHVTLARVKS 132 (180)
T ss_pred hhcCC-ceEEEEeeEcccCCCCCCcEEEE-cCCC--cHHHHHHHHHHHHHHHhcCCCCCCCCcCCCEEEEeecc
Confidence 88777 99999999999999999999999 7763 57899999999999999999988999999999998766
No 4
>PRK15124 2'-5' RNA ligase; Provisional
Probab=99.68 E-value=2.5e-16 Score=137.17 Aligned_cols=128 Identities=9% Similarity=0.067 Sum_probs=109.1
Q ss_pred cc-cccccCCchhHHHHHHHHHHHhhhCCCceeecccccccccccCchhhhhhhcCCCceEEeccccccccccHHHHHHH
Q 040757 88 HH-LPTVLIPLAPKKELAQFLKRVSSILPGIYVVDVDVPFTSLRKDDSELEQVAFGREFHISLGRTVPIRVHQIDSIVAM 166 (295)
Q Consensus 88 th-YI~~~~~~~~~~~L~~li~~~~~~~~~l~~v~~~~~~~~~~~~~~~~~~~~~~~~lHISLSr~~~lr~~qid~f~~~ 166 (295)
-. ||++.++++.++.|.++++.+.. ....+|+. ++++||||.|.|.+..++++.+.+.
T Consensus 5 ~RlFiAl~~p~~~~~~l~~~~~~~~~-~~~~rwv~--------------------~~nlHiTL~FlG~v~~~~~~~l~~~ 63 (176)
T PRK15124 5 KRLFFAIDLPDEIRQQIIHWRATHFP-PEAGRPVA--------------------AANLHLTLAFLGEVSAEKQQALSQL 63 (176)
T ss_pred eEEEEEeCCCHHHHHHHHHHHHHhcc-ccCccccc--------------------ccccEEEEEecCCCCHHHHHHHHHH
Confidence 36 99999999999999988877654 23356764 7899999999999999999999988
Q ss_pred HHHHHhcCccEEEEeCCeeeecCCCCceEEEEEEeccCChhhHHHHHHHHHHHHHHCCCCCCCCCCCCeeEeeeccC
Q 040757 167 LRQRLQSQRRYWIDFSKWEAFVNDDRTRTFLSLEVITGGLLEITKQIQVVNEVYRLHNLPEFYKDPRPHISLAWLLG 243 (295)
Q Consensus 167 L~~~l~~~~~F~l~~~~l~vf~N~e~tR~Fl~l~V~~~~~~~L~~L~~~vd~~l~~fg~p~~Y~~~~fHiSIAW~lg 243 (295)
+.+. ..++|.++++++++|+ ++|++|+ +|..+ .+.|..|.+.++++++..|++..-+++.||||||+...
T Consensus 64 l~~~--~~~pF~l~l~~~g~Fp---~prvlwl-g~~~~-~~~L~~L~~~l~~~l~~~G~~~e~r~f~PHiTLaR~~~ 133 (176)
T PRK15124 64 AGRI--RQPGFTLTLDDAGQWP---RSRVVWL-GMRQP-PRGLLQLANMLRSQAARSGCYQSPQPFHPHITLLRDAS 133 (176)
T ss_pred HHhc--ccCCeEEEECcccCcC---CCCEEEE-EcCCC-CHHHHHHHHHHHHHHHHcCCCCCCCCCCCCEeeccCCC
Confidence 8654 4589999999999997 4999988 78643 57899999999999999999999999999999998543
No 5
>TIGR02258 2_5_ligase 2'-5' RNA ligase. This protein family consists of bacterial and archaeal proteins with two tandem copies of Pfam domain pfam02834. Members for which activity has been measured perform a reversible, ATP-independent 2'-5'-ligation of what is presumably a non-phyiological substrate: half-tRNA splice intermediates from an intron-containing yeast tRNA. The physiological substrate(s) in prokaryotes may include small 2'-5'-link-containing oligonucleotides, perhaps with regulatory or biosynthetic roles.
Probab=99.62 E-value=2e-14 Score=124.49 Aligned_cols=131 Identities=18% Similarity=0.220 Sum_probs=111.7
Q ss_pred cccccCCchhHHHHHHHHHHHhhhCCCceeecccccccccccCchhhhhhhcCCCceEEeccccccccccHHHHHHHHHH
Q 040757 90 LPTVLIPLAPKKELAQFLKRVSSILPGIYVVDVDVPFTSLRKDDSELEQVAFGREFHISLGRTVPIRVHQIDSIVAMLRQ 169 (295)
Q Consensus 90 YI~~~~~~~~~~~L~~li~~~~~~~~~l~~v~~~~~~~~~~~~~~~~~~~~~~~~lHISLSr~~~lr~~qid~f~~~L~~ 169 (295)
||++.++++..+.|.++.+.+....+..+|+. ++++||||.+.+.+..++++.+.+.|++
T Consensus 4 FiAl~~p~~~~~~l~~~~~~l~~~~~~~r~~~--------------------~~~~HiTL~flg~~~~~~~~~l~~~l~~ 63 (179)
T TIGR02258 4 FIAIDLPPEIREQLSRIQRKLKSPLDGIKWVP--------------------PENLHITLKFLGEVDEEQVEELEDALAK 63 (179)
T ss_pred EEEecCCHHHHHHHHHHHHHhhccCCCcEECC--------------------hHHCEEEEEEccCCCHHHHHHHHHHHHH
Confidence 89999999999999999888875556667764 6889999999999999999999999887
Q ss_pred HHhcCccEEEEeCCeeeecCCCCceEEEEEEeccCChhhHHHHHHHHHHHHHHCCCCCCCCCCCCeeEeeeccCCC
Q 040757 170 RLQSQRRYWIDFSKWEAFVNDDRTRTFLSLEVITGGLLEITKQIQVVNEVYRLHNLPEFYKDPRPHISLAWLLGDV 245 (295)
Q Consensus 170 ~l~~~~~F~l~~~~l~vf~N~e~tR~Fl~l~V~~~~~~~L~~L~~~vd~~l~~fg~p~~Y~~~~fHiSIAW~lgd~ 245 (295)
... .+|.+.+++++.|++..++|++|. ++.. .+.|.+|.+.+.+++...|++..-+++.||||||......
T Consensus 64 ~~~--~~f~l~l~~~~~F~~~~~~~vl~l-~~~~--~~~L~~L~~~l~~~~~~~g~~~~~~~f~PHiTlar~~~~~ 134 (179)
T TIGR02258 64 IAE--PPFTLKLEGIGVFGNPKRPRVLWA-GVEQ--SEELTQLHADLERELAKLGFSKEERPFTPHITLARKKSGK 134 (179)
T ss_pred hcC--CCeEEEEeeeeeCCCCCCCeEEEE-eeCC--CHHHHHHHHHHHHHHHHcCCCCCCCCcCCCEEEEEecCCc
Confidence 653 569999999999999888999987 7763 2589999999999999999986666899999999876543
No 6
>PRK13679 hypothetical protein; Provisional
Probab=99.38 E-value=2.2e-11 Score=105.25 Aligned_cols=158 Identities=16% Similarity=0.126 Sum_probs=111.1
Q ss_pred ccccccCCchhHHHHHHHHHHHhhhCCCceeecccccccccccCchhhhhhhcCCCceEEeccccccccccHHHHHHHHH
Q 040757 89 HLPTVLIPLAPKKELAQFLKRVSSILPGIYVVDVDVPFTSLRKDDSELEQVAFGREFHISLGRTVPIRVHQIDSIVAMLR 168 (295)
Q Consensus 89 hYI~~~~~~~~~~~L~~li~~~~~~~~~l~~v~~~~~~~~~~~~~~~~~~~~~~~~lHISLSr~~~lr~~qid~f~~~L~ 168 (295)
|+|++.++.++++.+.++.+++.. ...++ +-||||.+++.+..++++.+.+.|+
T Consensus 3 ~~iai~~p~~~~~~l~~~~~~~~~---~~~~v-----------------------~pHITL~f~g~~~~~~~~~l~~~l~ 56 (168)
T PRK13679 3 YGIVLFPSKKIQDFANSYRKRYDP---HYALI-----------------------PPHITLKEPFEISDEQLDSIVEELR 56 (168)
T ss_pred eEEEEcCCHHHHHHHHHHHHhhCc---ccccC-----------------------CCceEEecCCCCCHHHHHHHHHHHH
Confidence 478888887777777666544421 12221 2399999999999999999999999
Q ss_pred HHHhcCccEEEEeCCeeeecCCCCceEEEEEEeccCChhhHHHHHHHHHHHHHHCCCCCCCCCCCCeeEeeeccCCCchH
Q 040757 169 QRLQSQRRYWIDFSKWEAFVNDDRTRTFLSLEVITGGLLEITKQIQVVNEVYRLHNLPEFYKDPRPHISLAWLLGDVSSS 248 (295)
Q Consensus 169 ~~l~~~~~F~l~~~~l~vf~N~e~tR~Fl~l~V~~~~~~~L~~L~~~vd~~l~~fg~p~~Y~~~~fHiSIAW~lgd~~~~ 248 (295)
+..+..++|.+++++++.|+.. ++++|. .+.. ..+|.+|.+++...+. .+...+++.||||||..... ++
T Consensus 57 ~~~~~~~pf~l~l~~~~~F~~~--~~vl~l-~~~~--~~~L~~L~~~l~~~~~---~~~~~~~f~PHiTlar~~~~--~~ 126 (168)
T PRK13679 57 AIASETKPFTLHVTKVSSFAPT--NNVIYF-KVEK--TEELEELHERLHSGDF---YGEAEYAFVPHITIGQGLSD--DE 126 (168)
T ss_pred HHHhcCCCEEEEEeccccCCCC--CCEEEE-EccC--CHHHHHHHHHHHhccc---ccccCCCCCCeEEeeCCCCc--HH
Confidence 9888889999999999999874 588877 6663 4789999988876553 23344679999999965433 33
Q ss_pred HHHHHHHHHhhhcccccccceeeEEEeceEEE--eeCCeeEEEe
Q 040757 249 LKRVVVEEMKRLSVESSLHKHFFSCKFGGIHC--KIGKKTYKIC 290 (295)
Q Consensus 249 l~~~~~~l~~~~~~~~~~~~~~~~~~v~~v~c--kiGNk~~~i~ 290 (295)
..+..+.++. ....+.+.|++|.+ +.||..+.+.
T Consensus 127 ~~~~~~~l~~--------~~~~~~~~v~~i~L~~~~~~~~w~~~ 162 (168)
T PRK13679 127 HEDVLGQLKM--------ADVDHEETIDRFHLLYQLENGSWTVY 162 (168)
T ss_pred HHHHHHHHhc--------CCcceeEEECeEEEEEECCCCeEEEE
Confidence 3333333321 11233678888888 4477666654
No 7
>PHA02574 57B hypothetical protein; Provisional
Probab=99.29 E-value=1.3e-11 Score=105.11 Aligned_cols=107 Identities=14% Similarity=0.130 Sum_probs=86.0
Q ss_pred cccccCCchhHHHHHHHHHHHhhhCCCceeecccccccccccCchhhhhhhcCCCceEEeccccccccccHHHHHHHHHH
Q 040757 90 LPTVLIPLAPKKELAQFLKRVSSILPGIYVVDVDVPFTSLRKDDSELEQVAFGREFHISLGRTVPIRVHQIDSIVAMLRQ 169 (295)
Q Consensus 90 YI~~~~~~~~~~~L~~li~~~~~~~~~l~~v~~~~~~~~~~~~~~~~~~~~~~~~lHISLSr~~~lr~~qid~f~~~L~~ 169 (295)
||++.+++++++.|.++.+++.. .+||+ +++|||||.| ..++++.+..
T Consensus 12 F~Al~~~~~~r~~L~~lq~~l~~----~r~V~--------------------~enLHlTL~F----~~~~v~~l~~---- 59 (149)
T PHA02574 12 YVAAKFSEATLDALERLQRTLRI----PNPVP--------------------RDKLHSTIVY----SRVYVPFIPA---- 59 (149)
T ss_pred EEEEcCCHHHHHHHHHHHHhccC----CcccC--------------------HHHCEEEEec----CHHHhHHHhc----
Confidence 99999998889999888777422 67765 7899999999 3555555532
Q ss_pred HHhcCccEEEEeCCeeeecCCCCceEEEEEEeccCChhhHHHHHHHHHHHHHHCCCCCCCCCCCCeeEeee
Q 040757 170 RLQSQRRYWIDFSKWEAFVNDDRTRTFLSLEVITGGLLEITKQIQVVNEVYRLHNLPEFYKDPRPHISLAW 240 (295)
Q Consensus 170 ~l~~~~~F~l~~~~l~vf~N~e~tR~Fl~l~V~~~~~~~L~~L~~~vd~~l~~fg~p~~Y~~~~fHiSIAW 240 (295)
...+|.+.++++++|++.. +|+.|+ ++. .++|..|.+.+.++++.++ +++++||||||+
T Consensus 60 ---~~~~F~l~l~glG~F~~~~-~rvlWl-g~~---~~~L~~L~~~l~~~l~~~~----~r~F~PHITLaR 118 (149)
T PHA02574 60 ---SGSTEVASSGHLEVWETQD-KNALVL-VLE---SEYLQCRHKYARALGATHD----FDDYTPHITLSY 118 (149)
T ss_pred ---cCCCeEEEeccccccCCCC-CCEEEE-EeC---CHHHHHHHHHHHHHhhcCC----CCCcCCcEEEee
Confidence 4589999999999997633 799888 675 4889999999999998855 457899999999
No 8
>PF13563 2_5_RNA_ligase2: 2'-5' RNA ligase superfamily; PDB: 1IUH_A.
Probab=99.09 E-value=3.3e-10 Score=94.52 Aligned_cols=98 Identities=19% Similarity=0.227 Sum_probs=71.3
Q ss_pred CCceEEeccccccccccHHHHHHHHHHHHhcCccEEEEeCCeeeecCCCCceEEEEEEeccCChhhHHHHHHHHHHHHHH
Q 040757 143 REFHISLGRTVPIRVHQIDSIVAMLRQRLQSQRRYWIDFSKWEAFVNDDRTRTFLSLEVITGGLLEITKQIQVVNEVYRL 222 (295)
Q Consensus 143 ~~lHISLSr~~~lr~~qid~f~~~L~~~l~~~~~F~l~~~~l~vf~N~e~tR~Fl~l~V~~~~~~~L~~L~~~vd~~l~~ 222 (295)
.++||||.+++.+.... +.+.+.|+..++...+|.++|+++++|++ ++++++. .+.. ...|.+|.+.+.+.+..
T Consensus 24 ~~pHITL~~~~~~~~~~-~~~~~~l~~~~~~~~~f~l~l~~~~~F~~--~~~vi~l-~~~~--~~~L~~L~~~l~~~~~~ 97 (153)
T PF13563_consen 24 WPPHITLAFPFDIDDSL-DELVEALARLAAGFPPFELRLDGFGSFPG--KGRVIFL-NVEP--SPELEALHRALREALRP 97 (153)
T ss_dssp GG-EEEEEEEEE--GGG-HHHHHHHHHHHHHS--EEEEEEEEEEESS--SSSSEEE-EEEE---HHHHHHHHHHHHHHHH
T ss_pred CCCEeEEEecCcccccH-HHHHHHHHHHHccCCCeEEEEccEEEcCC--CCCEEEE-EcCC--CHHHHHHHHHHHHHHHH
Confidence 56999999999998766 88899999998888999999999999999 4444444 4532 48899999999999999
Q ss_pred CCCCCCC-CCCCCeeEeeeccCCCc
Q 040757 223 HNLPEFY-KDPRPHISLAWLLGDVS 246 (295)
Q Consensus 223 fg~p~~Y-~~~~fHiSIAW~lgd~~ 246 (295)
++.+... .++.||||||.......
T Consensus 98 ~~~~~~~~~~~~PHiTia~~~~~~~ 122 (153)
T PF13563_consen 98 FGFKQDSYRPFRPHITIARRLSPKQ 122 (153)
T ss_dssp HHGGGGGGS----EEEEEEESS---
T ss_pred cCCccccCCCcceEEEEeccCCcch
Confidence 9887776 88999999998755444
No 9
>PF10469 AKAP7_NLS: AKAP7 2'5' RNA ligase-like domain; InterPro: IPR019510 This entry represents the N-terminal nuclear localisation signal-containing domain found in the cyclic AMP-dependent protein kinase A (PKA) anchor protein, AKAP7. This protein anchors PKA for its role in regulating PKA-mediated gene transcription in both somatic cells and oocytes []. This domain carries the nuclear localisation signal (NLS) KKRKK, that indicates the cellular destiny of this anchor protein []. Binding to the regulatory subunits RI and RII of PKA is mediated via the RI-RII subunit-binding domain at the C terminus.
Probab=99.06 E-value=1.8e-09 Score=96.18 Aligned_cols=139 Identities=15% Similarity=0.165 Sum_probs=105.6
Q ss_pred ccccccccC-CchhHHHHHHHHHHHhhhCCCceeecccccccccccCchhhhhhhcCCCceEEeccccccccccHHHHHH
Q 040757 87 DHHLPTVLI-PLAPKKELAQFLKRVSSILPGIYVVDVDVPFTSLRKDDSELEQVAFGREFHISLGRTVPIRVHQIDSIVA 165 (295)
Q Consensus 87 ~thYI~~~~-~~~~~~~L~~li~~~~~~~~~l~~v~~~~~~~~~~~~~~~~~~~~~~~~lHISLSr~~~lr~~qid~f~~ 165 (295)
|||||++++ .+++.+.+..+.+.+....+++. -+-+..+..|||||.-..-...++++.-.+
T Consensus 1 pthFl~ipl~~~~i~~~~~~fq~~v~~~~~~~~-----------------~~~~i~~~~lHlTL~vl~L~~~~~i~~a~~ 63 (209)
T PF10469_consen 1 PTHFLCIPLNSPEIQEKFKEFQNEVLSKDPGLD-----------------ESAFIPPEKLHLTLGVLSLDTDEEIEKAKE 63 (209)
T ss_pred CCeEEEEECCCHHHHHHHHHHHHHHHhhcCCCC-----------------HHHcCCcccceEEEEEeeCCCHHHHHHHHH
Confidence 689888887 44678888888888876665430 012233688999999777777778887777
Q ss_pred HHHHH---Hhc----CccEEEEeCCeeeecC-CCCceEEEEEEeccC-ChhhHHHHHHHHHHHHHHCCCCC--CCCC-CC
Q 040757 166 MLRQR---LQS----QRRYWIDFSKWEAFVN-DDRTRTFLSLEVITG-GLLEITKQIQVVNEVYRLHNLPE--FYKD-PR 233 (295)
Q Consensus 166 ~L~~~---l~~----~~~F~l~~~~l~vf~N-~e~tR~Fl~l~V~~~-~~~~L~~L~~~vd~~l~~fg~p~--~Y~~-~~ 233 (295)
.|+.. +.. ..++.|++.|+++|.+ ++++|+.|+ +|... +...|.++.+.+.+.+.+.|+.. ..+. ..
T Consensus 64 ~L~~~~~~i~~~~~~~~~~~i~l~Gl~~f~~d~~~~~VLya-~v~~~~~~~~L~~l~~~l~~~f~~~Gl~~~~~~~~~~~ 142 (209)
T PF10469_consen 64 ALKSLKQEIKDQLQNPPPLKITLKGLGYFNDDPSKARVLYA-KVSEDSNSERLQELANKLRERFQEAGLLVTDDRRFSFK 142 (209)
T ss_pred HHHHHHHHHhhhccCCCCceEEeeechhhCCCCCcceEEEE-cccccchHHHHHHHHHHHHHHHHHcCCccccccCCCcc
Confidence 77655 333 3889999999999999 799999999 77643 24789999999999999999887 3332 58
Q ss_pred CeeEeeeccC
Q 040757 234 PHISLAWLLG 243 (295)
Q Consensus 234 fHiSIAW~lg 243 (295)
||+||+-+.-
T Consensus 143 ~H~Tl~n~~~ 152 (209)
T PF10469_consen 143 PHITLMNTSY 152 (209)
T ss_pred eEEEEEeccc
Confidence 9999996543
No 10
>PF02834 LigT_PEase: LigT like Phosphoesterase; InterPro: IPR014051 This entry represents a domain found in a number of known and predicted phosphoesterases. These include bacterial and archaeal 2',5' RNA ligases, and a family of predicted phosphoesterases known as the YjcG family. The 2',5' RNA ligases perform a reversible, ATP-independent 2'-5'-ligation of what is presumably a non-phyiological substrate: half-tRNA splice intermediates from an intron-containing yeast tRNA []. The physiological substrate(s) in prokaryotes may include small 2',5'-link-containing oligonucleotides, perhaps with regulatory or biosynthetic roles. This domain contains a conserved HXTX motif which is thought to be important for catalytic activity, as it is in the related enzyme cyclic nucleotide phosphodiesterase (CPDase) []. In 2',5' RNA ligase this domain is duplicated, with the two conserved motifs forming the proposed active site, which is analogous to that of CPDase [].; PDB: 1VGJ_A 1VDX_A 2FYH_A 2D4G_A.
Probab=98.87 E-value=5.9e-09 Score=79.97 Aligned_cols=84 Identities=20% Similarity=0.224 Sum_probs=72.3
Q ss_pred cCCchhHHHHHHHHHHHhhhC--CCceeecccccccccccCchhhhhhhcCCCceEEeccccccccccHHHHHHHHHHHH
Q 040757 94 LIPLAPKKELAQFLKRVSSIL--PGIYVVDVDVPFTSLRKDDSELEQVAFGREFHISLGRTVPIRVHQIDSIVAMLRQRL 171 (295)
Q Consensus 94 ~~~~~~~~~L~~li~~~~~~~--~~l~~v~~~~~~~~~~~~~~~~~~~~~~~~lHISLSr~~~lr~~qid~f~~~L~~~l 171 (295)
.++++.++.|.++.+.++... .+++|+. +.++||||.|.+.+...+++.+++.+.+..
T Consensus 2 ~~p~~~~~~L~~l~~~l~~~~~~~~~r~~~--------------------~~~~HiTL~flg~~~~~~~~~l~~~l~~~~ 61 (87)
T PF02834_consen 2 DLPEEIKEQLNQLQERLRQALPPLGIRWVR--------------------PFNPHITLAFLGEVPPDQLPELIEALANIA 61 (87)
T ss_dssp E-THHHHHHHHHHHHHHHHHCCSCTEEEGS--------------------CGGSEEEEEEEEEESHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHhhhccccCCcccC--------------------CCCCeEEEEeCCCCCHHHHHHHHHHHHhhh
Confidence 467788999999999998655 3456643 789999999999999999999999999888
Q ss_pred hcCccEEEEeCCeeeecCCCCceEEE
Q 040757 172 QSQRRYWIDFSKWEAFVNDDRTRTFL 197 (295)
Q Consensus 172 ~~~~~F~l~~~~l~vf~N~e~tR~Fl 197 (295)
....+|.+.++++++|++..++|++|
T Consensus 62 ~~~~~f~~~~~~~~~f~s~~~~rvi~ 87 (87)
T PF02834_consen 62 SRFPPFTLTVDGFGLFPSRLRPRVIW 87 (87)
T ss_dssp CCCB-EEEEEEEEEEEEEEETCEEEE
T ss_pred ccCCCeEEEEeEEEEeCCCCCCCCcC
Confidence 88899999999999999999999987
No 11
>PLN00108 unknown protein; Provisional
Probab=97.84 E-value=0.00021 Score=66.08 Aligned_cols=151 Identities=13% Similarity=0.119 Sum_probs=96.6
Q ss_pred ccccccccccCC--chhHHHHHHHHHHHhhhCCCceeecccccccccccC-chhhhhhhcCCCceEEeccccccccccHH
Q 040757 85 SIDHHLPTVLIP--LAPKKELAQFLKRVSSILPGIYVVDVDVPFTSLRKD-DSELEQVAFGREFHISLGRTVPIRVHQID 161 (295)
Q Consensus 85 nw~thYI~~~~~--~~~~~~L~~li~~~~~~~~~l~~v~~~~~~~~~~~~-~~~~~~~~~~~~lHISLSr~~~lr~~qid 161 (295)
.=+||||++++. +++++.+..+.+.+-...+. .. ..+.+-|.+ ...-+-+..+.-|||||.-..-...++++
T Consensus 34 ~~~THFlavPL~~~p~i~~~~~~Fk~~Vl~~~~~-~~----~~f~~~l~~~gid~siF~~p~~LHLTLgmL~L~~~eev~ 108 (257)
T PLN00108 34 EVFTHFVSLPLAIYPDLKKNIEAFQNSVLGNNDK-DP----LKFQSTLAEMGIEKSIFVSPKTFHLTVVMLKLENNESVV 108 (257)
T ss_pred CCCCeEEEEEcCCCHHHHHHHHHHHHHHHhcccc-cc----ccccccccccCCCHHHcCCCCceEEEEEEEEcCCHHHHH
Confidence 357889999993 78888888887776543210 00 000000000 00011224468899999988877778888
Q ss_pred HHHHHHHHH---Hhc---CccEEEEeCCeeeecC-CCCceEEEEEEeccC-ChhhHHHHHHHHHHHHHHCCCCC-CC-CC
Q 040757 162 SIVAMLRQR---LQS---QRRYWIDFSKWEAFVN-DDRTRTFLSLEVITG-GLLEITKQIQVVNEVYRLHNLPE-FY-KD 231 (295)
Q Consensus 162 ~f~~~L~~~---l~~---~~~F~l~~~~l~vf~N-~e~tR~Fl~l~V~~~-~~~~L~~L~~~vd~~l~~fg~p~-~Y-~~ 231 (295)
.-++.|++. ++. -+|+.|.+.|++.+.. +.++|+..+ .|.+. +...|.++.+.|-+...+.|+-. .+ +.
T Consensus 109 kA~~~L~s~~~~i~~~l~~~pl~I~lkGL~~Mnddps~~~VLYA-~Ve~~~~~~rLq~~ad~i~~~F~~aGL~~~d~~~~ 187 (257)
T PLN00108 109 KAQNILKSICSNVRQALKDRPVFIRLRGLDCMNGSLDKTRVLYA-PVEEVGHEGRLLNACHVIIDAFENAGFAGKDAKSR 187 (257)
T ss_pred HHHHHHHHHHHHHHHhhCCCCeEEEEEeehhcCCCcccceEEEE-eccccCchhHHHHHHHHHHHHHHHcCCcccccCcc
Confidence 766666544 322 3789999999999975 466999999 88753 23456666666666666678653 33 35
Q ss_pred CCCeeEeeec
Q 040757 232 PRPHISLAWL 241 (295)
Q Consensus 232 ~~fHiSIAW~ 241 (295)
-.+|+||.=+
T Consensus 188 vKLH~TlmNt 197 (257)
T PLN00108 188 LKLHATLMNA 197 (257)
T ss_pred eeeEeEEech
Confidence 7899999944
No 12
>PF07823 CPDase: Cyclic phosphodiesterase-like protein; InterPro: IPR012386 2',3' Cyclic nucleotide phosphodiesterases (CPDases) are enzymes that catalyse at least two distinct steps in the splicing of tRNA introns in eukaryotes. The active site is characterised by two conserved histidine residues []. The enzyme has six cysteine residues, four of which are involved in forming two intra-molecular disulphide bridges. One of these bridges is involved in the catalytic activity of the enzyme as it opens when CPDase is semi-reduced []. Proteins in this entryand belong to 3.1.4.37 from EC and catalyse the reaction Nucleoside 2',3'-cyclic phosphate + H2O = nucleoside 2'-phosphate. ; GO: 0004112 cyclic-nucleotide phosphodiesterase activity; PDB: 1JH7_A 1JH6_B 1FSI_B.
Probab=96.43 E-value=0.028 Score=49.96 Aligned_cols=115 Identities=18% Similarity=0.185 Sum_probs=58.4
Q ss_pred hhHHHHHHHHHHHhhhCCCceeecccccccccccCchhhhhhhcCCCceEEeccccccccccHHHHHHHHHHHHhcCccE
Q 040757 98 APKKELAQFLKRVSSILPGIYVVDVDVPFTSLRKDDSELEQVAFGREFHISLGRTVPIRVHQIDSIVAMLRQRLQSQRRY 177 (295)
Q Consensus 98 ~~~~~L~~li~~~~~~~~~l~~v~~~~~~~~~~~~~~~~~~~~~~~~lHISLSr~~~lr~~qid~f~~~L~~~l~~~~~F 177 (295)
...+.|..+|..++..+++... .=.-||||.-.+.+. ..+.+.+.|+....+.+++
T Consensus 14 ~~~~~L~~lI~~L~~~~~~~~p----------------------~F~PHiTL~s~i~~~--~~~~~~~~L~~~~~~~~~~ 69 (196)
T PF07823_consen 14 PLYERLKTLISSLASLFPGSPP----------------------PFEPHITLTSGISLD--SSDDVQKVLDSAAAALKPL 69 (196)
T ss_dssp TTHHHHHHHHHHHHHHST-------------------------------EEEEEEEEE----HHHHHHHHHHHHHH-B-E
T ss_pred cHHHHHHHHHHHHHHHCCCCCC----------------------CcCCeEEEeCCCccC--CHHHHHHHHHHHHHhccCc
Confidence 5788999999999998874200 113599998876664 4555555566655566777
Q ss_pred -----EEEeCCeeeecCCCCceEEEEEEeccCChhhHHHHHHHHHHHHHHCCC------CCCCCCCCCeeEeeec
Q 040757 178 -----WIDFSKWEAFVNDDRTRTFLSLEVITGGLLEITKQIQVVNEVYRLHNL------PEFYKDPRPHISLAWL 241 (295)
Q Consensus 178 -----~l~~~~l~vf~N~e~tR~Fl~l~V~~~~~~~L~~L~~~vd~~l~~fg~------p~~Y~~~~fHiSIAW~ 241 (295)
.+.|+++..=. .=--++|+. |.. .++|..|.+.+.+++....- ..--+++.|||||.+.
T Consensus 70 ~~~~~~v~~~~v~~g~-~yfq~vyl~--v~~--t~~L~~l~~~~r~~~~~~~~~~~~~~~~~~~~y~PHlSLlY~ 139 (196)
T PF07823_consen 70 PKNHFTVRFDKVASGD-KYFQCVYLE--VEK--TPELMSLAQIARELFVEGPPDEVKAAEWPREPYMPHLSLLYG 139 (196)
T ss_dssp -----EEEEEEEEEEE-ETTEEEEEE--E-----HHHHHHHCHHHHCT----------T----S----EEEEE--
T ss_pred ccceeEEEeeeEeeCC-eEEEEEEEE--ecC--ChhHHHHHHHHHHHhhhccccccccccccCCCCCCeEEEEEc
Confidence 89998874321 111234444 543 47788777666555432211 1122468999999996
No 13
>TIGR03223 Phn_opern_protn putative phosphonate metabolism protein. This family of proteins is observed in the vicinity of other caharacterized genes involved in the catabolism of phosphonates via the3 C-P lyase system (GenProp0232), its function is unknown. These proteins are members of the somewhat broader pfam06299 model "Protein of unknown function (DUF1045)" which contains proteins found in a different genomic context as well.
Probab=96.20 E-value=0.023 Score=51.87 Aligned_cols=92 Identities=13% Similarity=0.104 Sum_probs=65.9
Q ss_pred CceEEecccccccccc-HHHHHHHHHHHHhcCccEEEEeCCeeeecCCCCceEEEEEEeccCChhhHHHHHHHHHHHHHH
Q 040757 144 EFHISLGRTVPIRVHQ-IDSIVAMLRQRLQSQRRYWIDFSKWEAFVNDDRTRTFLSLEVITGGLLEITKQIQVVNEVYRL 222 (295)
Q Consensus 144 ~lHISLSr~~~lr~~q-id~f~~~L~~~l~~~~~F~l~~~~l~vf~N~e~tR~Fl~l~V~~~~~~~L~~L~~~vd~~l~~ 222 (295)
.||+||+-|+.|.... ...+.+.++...+.+.+|.+.-=.+.-.. -|+++.-. +...+|..|...|-+.+..
T Consensus 57 GfHaTLKaPFrLa~g~~~a~L~~al~~fA~~~~pf~i~~L~l~~Lg------~FlAL~P~-~~~~~L~~LAa~~V~~~d~ 129 (228)
T TIGR03223 57 GFHATLKAPFRLAPGVTEAELLAAVAAFAATRAPFALPPLRVALLG------GFLALRPA-APCPALQALAAACVRELDP 129 (228)
T ss_pred ccceeecCCcccCCCCCHHHHHHHHHHHHhcCCCccCCcceeeeeC------CEEEEeeC-CCCHHHHHHHHHHHHhhhh
Confidence 5999999999998766 88999999988888899987622222221 17776544 3457888887766655544
Q ss_pred ----------------------------CCCCCCCCCCCCeeEeeecc
Q 040757 223 ----------------------------HNLPEFYKDPRPHISLAWLL 242 (295)
Q Consensus 223 ----------------------------fg~p~~Y~~~~fHiSIAW~l 242 (295)
.|.|-=.++++|||||-=-+
T Consensus 130 fRAPls~aelaRRr~~~Ls~~Q~~~L~~WGYPYV~deFrFHmTLTg~l 177 (228)
T TIGR03223 130 FRAPLTEAELARRRPDQLTPRQRALLERWGYPYVLEEFRFHMTLTGRL 177 (228)
T ss_pred ccCCCCHHHHhhcCccCCCHHHHHHHHHcCCCceecceEEEEEecCCC
Confidence 45554456789999998555
No 14
>PF05213 Corona_NS2A: Coronavirus NS2A protein; InterPro: IPR007878 This entry is represented by Coronavirus non-structural protein 2A (32kDa); it is a family of uncharacterised viral proteins. Members have a phosphoesterase module (2H) [] and are predicted to be involved in RNA modification. The viral group of 2H phosphoesterases contains proteins from two unrelated virus types: the type C rotaviruses (VP3 protein, IPR011181 from INTERPRO) that are double stranded multipartite RNA viruses and the coronaviruses (NS2 protein, this group) that are positive strand RNA viruses. Given that these viruses have vertebrate hosts, it is likely that the 2H phosphoesterase domain was derived from the host by one of virus groups followed by rapid sequence divergence []. Subsequently, it may have been exchanged between the viral families. Although the direction of the exchange is not clear, it is possible that a double stranded replicative form of a subgenomic RNA transcript of the coronavirus NS2 was stabilised by a rotavirus and incorporated into its multiple double stranded RNA genome []. These proteins can be utilised as novel drug targets because of their predicted RNA modification role.
Probab=94.29 E-value=0.64 Score=42.08 Aligned_cols=87 Identities=21% Similarity=0.233 Sum_probs=61.7
Q ss_pred CCceEEeccccccccccHHHHHHHHHHHHhcC--ccEEEEeCCeeeecCCCCceEEEEEEeccCChhhHHHHHHHHHHHH
Q 040757 143 REFHISLGRTVPIRVHQIDSIVAMLRQRLQSQ--RRYWIDFSKWEAFVNDDRTRTFLSLEVITGGLLEITKQIQVVNEVY 220 (295)
Q Consensus 143 ~~lHISLSr~~~lr~~qid~f~~~L~~~l~~~--~~F~l~~~~l~vf~N~e~tR~Fl~l~V~~~~~~~L~~L~~~vd~~l 220 (295)
.--||||.- +.|+.++|......|++.+..+ .-.+++++..-... | -+++.|. | +.+|...+-.++
T Consensus 42 kaPHlSl~m-L~Isd~~i~~V~~~iq~ViddM~~~~~~it~tnp~MLg-----~-~yV~nV~-G----v~slh~ki~n~~ 109 (248)
T PF05213_consen 42 KAPHLSLGM-LDISDEDIPDVETAIQKVIDDMVWFEGDITFTNPHMLG-----R-CYVANVK-G----VLSLHDKIVNVF 109 (248)
T ss_pred ccCeeEEEE-EEcChhhhhhHHHHHHHHHHHhhcccceEEecCceeec-----c-EEEEecc-c----HHHHHHHHHHHH
Confidence 457999974 5678889999888888888764 33467777655553 4 5566876 4 667788888888
Q ss_pred HHCCCCCCC-CCCCCeeEeeec
Q 040757 221 RLHNLPEFY-KDPRPHISLAWL 241 (295)
Q Consensus 221 ~~fg~p~~Y-~~~~fHiSIAW~ 241 (295)
.+.|.---- +...||+|||-.
T Consensus 110 ~~kgit~gQSRmwIPHiTia~~ 131 (248)
T PF05213_consen 110 RKKGITFGQSRMWIPHITIAQL 131 (248)
T ss_pred HHhCcCcCcccccccceehhhh
Confidence 776654332 356899999964
No 15
>PF02834 LigT_PEase: LigT like Phosphoesterase; InterPro: IPR014051 This entry represents a domain found in a number of known and predicted phosphoesterases. These include bacterial and archaeal 2',5' RNA ligases, and a family of predicted phosphoesterases known as the YjcG family. The 2',5' RNA ligases perform a reversible, ATP-independent 2'-5'-ligation of what is presumably a non-phyiological substrate: half-tRNA splice intermediates from an intron-containing yeast tRNA []. The physiological substrate(s) in prokaryotes may include small 2',5'-link-containing oligonucleotides, perhaps with regulatory or biosynthetic roles. This domain contains a conserved HXTX motif which is thought to be important for catalytic activity, as it is in the related enzyme cyclic nucleotide phosphodiesterase (CPDase) []. In 2',5' RNA ligase this domain is duplicated, with the two conserved motifs forming the proposed active site, which is analogous to that of CPDase [].; PDB: 1VGJ_A 1VDX_A 2FYH_A 2D4G_A.
Probab=93.23 E-value=0.14 Score=38.77 Aligned_cols=68 Identities=18% Similarity=0.220 Sum_probs=43.4
Q ss_pred hhhHHHHHHHHHHHHHHCCCCCCCCCCCCeeEeeeccCCCch-HHHHHHHHHHhhhcccccccceeeEEEeceEEE
Q 040757 206 LLEITKQIQVVNEVYRLHNLPEFYKDPRPHISLAWLLGDVSS-SLKRVVVEEMKRLSVESSLHKHFFSCKFGGIHC 280 (295)
Q Consensus 206 ~~~L~~L~~~vd~~l~~fg~p~~Y~~~~fHiSIAW~lgd~~~-~l~~~~~~l~~~~~~~~~~~~~~~~~~v~~v~c 280 (295)
..+|.++.+.+.+.+..+|+..- +++.+||||+. +|+..+ .+.+....+...... ...+.+.++++.+
T Consensus 8 ~~~L~~l~~~l~~~~~~~~~r~~-~~~~~HiTL~f-lg~~~~~~~~~l~~~l~~~~~~-----~~~f~~~~~~~~~ 76 (87)
T PF02834_consen 8 KEQLNQLQERLRQALPPLGIRWV-RPFNPHITLAF-LGEVPPDQLPELIEALANIASR-----FPPFTLTVDGFGL 76 (87)
T ss_dssp HHHHHHHHHHHHHHCCSCTEEEG-SCGGSEEEEEE-EEEESHHHHHHHHHHHHHHHCC-----CB-EEEEEEEEEE
T ss_pred HHHHHHHHHHHhhhccccCCccc-CCCCCeEEEEe-CCCCCHHHHHHHHHHHHhhhcc-----CCCeEEEEeEEEE
Confidence 36788888888888778888777 88999999996 477653 333333434332211 2345667777654
No 16
>TIGR02258 2_5_ligase 2'-5' RNA ligase. This protein family consists of bacterial and archaeal proteins with two tandem copies of Pfam domain pfam02834. Members for which activity has been measured perform a reversible, ATP-independent 2'-5'-ligation of what is presumably a non-phyiological substrate: half-tRNA splice intermediates from an intron-containing yeast tRNA. The physiological substrate(s) in prokaryotes may include small 2'-5'-link-containing oligonucleotides, perhaps with regulatory or biosynthetic roles.
Probab=88.15 E-value=2.8 Score=35.81 Aligned_cols=76 Identities=21% Similarity=0.338 Sum_probs=40.0
Q ss_pred ceEEEEEEeccCChhhHHHHHHHHHHHHHH-CCCCCCCCCCCCeeEeeeccCCCchH-HHHHHHHHHhhhccccccccee
Q 040757 193 TRTFLSLEVITGGLLEITKQIQVVNEVYRL-HNLPEFYKDPRPHISLAWLLGDVSSS-LKRVVVEEMKRLSVESSLHKHF 270 (295)
Q Consensus 193 tR~Fl~l~V~~~~~~~L~~L~~~vd~~l~~-fg~p~~Y~~~~fHiSIAW~lgd~~~~-l~~~~~~l~~~~~~~~~~~~~~ 270 (295)
.|.|+++.+.+ ++.+.+..+-+.+.. ...-.......+||||+. +|+..+. +....+.+.+.. ...
T Consensus 1 ~R~FiAl~~p~----~~~~~l~~~~~~l~~~~~~~r~~~~~~~HiTL~f-lg~~~~~~~~~l~~~l~~~~-------~~~ 68 (179)
T TIGR02258 1 MRLFIAIDLPP----EIREQLSRIQRKLKSPLDGIKWVPPENLHITLKF-LGEVDEEQVEELEDALAKIA-------EPP 68 (179)
T ss_pred CeEEEEecCCH----HHHHHHHHHHHHhhccCCCcEECChHHCEEEEEE-ccCCCHHHHHHHHHHHHHhc-------CCC
Confidence 38999988753 344444444443331 221122334578999995 5776643 223333333211 123
Q ss_pred eEEEeceEEE
Q 040757 271 FSCKFGGIHC 280 (295)
Q Consensus 271 ~~~~v~~v~c 280 (295)
+.+.++++.+
T Consensus 69 f~l~l~~~~~ 78 (179)
T TIGR02258 69 FTLKLEGIGV 78 (179)
T ss_pred eEEEEeeeee
Confidence 6677777766
No 17
>PF08302 tRNA_lig_CPD: Fungal tRNA ligase phosphodiesterase domain; InterPro: IPR015965 This entry represents a phosphodiesterase domain found in fungal tRNA ligases []. Please see the following relevant references: [, ].; GO: 0003972 RNA ligase (ATP) activity, 0005524 ATP binding, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation
Probab=86.27 E-value=17 Score=33.70 Aligned_cols=124 Identities=15% Similarity=0.204 Sum_probs=68.1
Q ss_pred CCCceEEecccccccccc----HHHHHHHHHHHHhcC-----------ccEEEEeCCeeeecCCCCceEEEEEEeccCCh
Q 040757 142 GREFHISLGRTVPIRVHQ----IDSIVAMLRQRLQSQ-----------RRYWIDFSKWEAFVNDDRTRTFLSLEVITGGL 206 (295)
Q Consensus 142 ~~~lHISLSr~~~lr~~q----id~f~~~L~~~l~~~-----------~~F~l~~~~l~vf~N~e~tR~Fl~l~V~~~~~ 206 (295)
+..|||||...-..+.+. ++.+.+.....+... ..+.|++.++- .+++-=+|.+ ++.....
T Consensus 113 Q~~FHVTL~H~as~k~~~~k~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~v~L~rlv---wd~rimai~V-~~~~~~~ 188 (257)
T PF08302_consen 113 QPEFHVTLIHRASSKEQPAKELWKRYTKLYKSALKKNPKQEPTQTPTLGSCDVRLERLV---WDDRIMAIVV-RIVPPED 188 (257)
T ss_pred CCCCeEEEEecccCCcCcchHHHHHHHHHHHhhcccccccccccccccceEEEEEEEEE---ECCcEEEEEE-EccCccc
Confidence 578999998888877644 666666666555431 23666666553 5666555555 4432211
Q ss_pred hhHHHHHHHHHHHHHHCCCCCC-CCCCCCeeEeeeccCCCchHHH-HHHHHHHhhhcccccccceeeEEEeceEEEeeCC
Q 040757 207 LEITKQIQVVNEVYRLHNLPEF-YKDPRPHISLAWLLGDVSSSLK-RVVVEEMKRLSVESSLHKHFFSCKFGGIHCKIGK 284 (295)
Q Consensus 207 ~~L~~L~~~vd~~l~~fg~p~~-Y~~~~fHiSIAW~lgd~~~~l~-~~~~~l~~~~~~~~~~~~~~~~~~v~~v~ckiGN 284 (295)
..-. .+.+ -.+..+|||||=.-.+.++... ..++.+.+. .+.......+++.+.+.++=.|.
T Consensus 189 ~~~~--------------~~~~~c~N~~~HITVGT~~~~VkP~eSN~Ll~~~~~~--~g~~~~~gI~e~~i~~~~~~~g~ 252 (257)
T PF08302_consen 189 EEDE--------------VPEWECTNKIPHITVGTRDPGVKPKESNDLLERWLEN--EGSGEETGIWEVEIPGVKVLEGT 252 (257)
T ss_pred cccc--------------cCCcccCCCCCEEEEEcCCCCCCcchHHHHHHHHHhh--ccCCCCCceEEEEeCCceEEEEE
Confidence 1000 2222 1367999999955344444333 334444321 22222345667777777766554
Q ss_pred e
Q 040757 285 K 285 (295)
Q Consensus 285 k 285 (295)
.
T Consensus 253 V 253 (257)
T PF08302_consen 253 V 253 (257)
T ss_pred E
Confidence 3
No 18
>COG1514 LigT 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]
Probab=85.08 E-value=5.4 Score=34.99 Aligned_cols=54 Identities=20% Similarity=0.345 Sum_probs=34.4
Q ss_pred ceEEEEEEeccCChhhHHHHHHHHHHHHHHCCCCCCCCCCCCeeEeeeccCCCchHHHH
Q 040757 193 TRTFLSLEVITGGLLEITKQIQVVNEVYRLHNLPEFYKDPRPHISLAWLLGDVSSSLKR 251 (295)
Q Consensus 193 tR~Fl~l~V~~~~~~~L~~L~~~vd~~l~~fg~p~~Y~~~~fHiSIAW~lgd~~~~l~~ 251 (295)
.|.|+++.+. +++...+..+-+-+...+.-+.++...+||||. ++|+..+.--.
T Consensus 1 ~RlFiAl~~p----~~i~~~i~~~~~~~~~~~~~k~v~~en~HiTL~-flGev~e~~~~ 54 (180)
T COG1514 1 MRLFIALDPP----AEIAERLARIRARLKGARAIKWVEPENLHITLK-FLGEVDEDKAD 54 (180)
T ss_pred CeeEEEecCC----HHHHHHHHHHHHhcCcccccccccccCceEEEE-ccCCcCchHHH
Confidence 4899998875 344444333333332222345788889999999 57988875444
No 19
>KOG2814 consensus Transcription coactivator complex, P50 component (LigT RNA ligase/phosphodiesterase family) [Transcription]
Probab=84.78 E-value=7.1 Score=37.58 Aligned_cols=103 Identities=13% Similarity=0.193 Sum_probs=69.8
Q ss_pred hhhcCCCceEEeccccccccccHHHHHHHHHHHHhc------CccEEEEeCCeeeecCC-CCceEEEEEEeccCChh-hH
Q 040757 138 QVAFGREFHISLGRTVPIRVHQIDSIVAMLRQRLQS------QRRYWIDFSKWEAFVND-DRTRTFLSLEVITGGLL-EI 209 (295)
Q Consensus 138 ~~~~~~~lHISLSr~~~lr~~qid~f~~~L~~~l~~------~~~F~l~~~~l~vf~N~-e~tR~Fl~l~V~~~~~~-~L 209 (295)
.+.-|.-+|+|++....+....++.-++.|+..... -+|+.+.+.++..+.-+ ..+|+..+ .|...+.. -|
T Consensus 171 ~F~~p~~~HLTvgm~~L~~dd~vq~a~e~les~~~e~~~~~~~kp~~i~lkG~~~mnddP~~~kVLYA-kv~~~~~e~~l 249 (345)
T KOG2814|consen 171 LFQGPGTFHLTVGMLKLLNDDDVQKALEILESTFQEIRIDVGEKPLFIDLKGLDKMNDDPSLTKVLYA-KVEPDDYEKFL 249 (345)
T ss_pred cccCCceeeEEEEEEEecChHHHHHHHHHHHHHHHHHHhccCCCceeeeccchhhhcCCHhHheeeee-eccCcchHHHH
Confidence 334478899999999999999999999998874432 47999999999888766 67888888 77643322 23
Q ss_pred HHHH-HHHHHHHHHCCCCC-CCCCCCCeeEeeec
Q 040757 210 TKQI-QVVNEVYRLHNLPE-FYKDPRPHISLAWL 241 (295)
Q Consensus 210 ~~L~-~~vd~~l~~fg~p~-~Y~~~~fHiSIAW~ 241 (295)
.... +.+-....+.|+-. .-++-..|+|+.=+
T Consensus 250 ~~~~~~~i~~~f~~~~li~k~~~~~kLH~TvmNs 283 (345)
T KOG2814|consen 250 QHRCGERILERFVASGLIKKESSSLKLHCTVMNS 283 (345)
T ss_pred HHHHHHHHHHHHHHhcchhccccccEEEEEEehh
Confidence 3333 33333333444333 22344689999833
No 20
>PF06299 DUF1045: Protein of unknown function (DUF1045); InterPro: IPR009389 This family consists of several hypothetical proteins from Agrobacterium, Rhizobium and Brucella species. The function of this family is unknown.
Probab=83.86 E-value=9.9 Score=32.94 Aligned_cols=88 Identities=14% Similarity=0.092 Sum_probs=57.4
Q ss_pred Eeccccccccc-cHHHHHHHHHHHHhcCccEEEEeCCeeeecCCCCceEEEEEEeccCChhhHHHHHHHHHHHHHHCCCC
Q 040757 148 SLGRTVPIRVH-QIDSIVAMLRQRLQSQRRYWIDFSKWEAFVNDDRTRTFLSLEVITGGLLEITKQIQVVNEVYRLHNLP 226 (295)
Q Consensus 148 SLSr~~~lr~~-qid~f~~~L~~~l~~~~~F~l~~~~l~vf~N~e~tR~Fl~l~V~~~~~~~L~~L~~~vd~~l~~fg~p 226 (295)
||+-|+.|... .-+.+.+.++...+...+|.+.-=.+.-. .-|++|.-. +....|..|-..|-+.+..|+-|
T Consensus 1 TLKaPF~La~g~~~~~L~~a~~~~a~~~~pf~l~~L~v~~l------g~FlALvp~-~~~~~L~~LAa~cV~~~d~fRAP 73 (160)
T PF06299_consen 1 TLKAPFRLAEGASEADLLAALAAFAARFAPFELPGLEVARL------GGFLALVPA-GPCPALQALAAACVRAFDPFRAP 73 (160)
T ss_pred CCCCCcccCCCCCHHHHHHHHHHHhccCCCccCCceeEeeE------CCEEEEeeC-CCCHHHHHHHHHHHHhhhhccCC
Confidence 45667777643 46678888887777788887652222222 248887655 33577887777766665555544
Q ss_pred C----------------------------CCCCCCCeeEeeecc
Q 040757 227 E----------------------------FYKDPRPHISLAWLL 242 (295)
Q Consensus 227 ~----------------------------~Y~~~~fHiSIAW~l 242 (295)
. =.++++|||||---+
T Consensus 74 ls~aelaRR~~~~Ls~~Q~~~L~rWGYPYV~deFRFHmTLTg~l 117 (160)
T PF06299_consen 74 LSEAELARRRPAGLSPRQRANLERWGYPYVMDEFRFHMTLTGRL 117 (160)
T ss_pred CChHHHhhcCcccCCHHHHHHHHHhCCCceeCcCEeeEEeCCCC
Confidence 3 334689999998555
No 21
>PHA02977 hypothetical protein; Provisional
Probab=83.75 E-value=17 Score=31.22 Aligned_cols=133 Identities=14% Similarity=0.140 Sum_probs=67.9
Q ss_pred CCccccc-cccccCCchhHHHHHHHHHHHhhhCCCceeecccccccccccCchhhhhhhcCCCceEEeccccccccccHH
Q 040757 83 KGSIDHH-LPTVLIPLAPKKELAQFLKRVSSILPGIYVVDVDVPFTSLRKDDSELEQVAFGREFHISLGRTVPIRVHQID 161 (295)
Q Consensus 83 ~Gnw~th-YI~~~~~~~~~~~L~~li~~~~~~~~~l~~v~~~~~~~~~~~~~~~~~~~~~~~~lHISLSr~~~lr~~qid 161 (295)
--|||+- |-.+.+..++.+ ++.+--+ ..-+. .-+-||+|.-. ...|-+
T Consensus 35 y~nwasinfydirld~~isd-~~niaik---ymtgc------------------------di~phitlgia---n~dq~~ 83 (201)
T PHA02977 35 YCNWASINFYDIRLDKDISD-LENIAIK---YMTGC------------------------DIFPHITLGIA---NKDQCD 83 (201)
T ss_pred ccccceeeeEEEEecCCcch-hhhhhhh---hhccC------------------------CCCcceeeecc---CccHhH
Confidence 7899999 999988765432 2211111 01110 12469998543 445555
Q ss_pred HHHHHHHHHHhc--CccEEEEeCCeeeecCCCCce--------EEEEEEeccCChhhHHHHHHHHHHHH----HHCCCCC
Q 040757 162 SIVAMLRQRLQS--QRRYWIDFSKWEAFVNDDRTR--------TFLSLEVITGGLLEITKQIQVVNEVY----RLHNLPE 227 (295)
Q Consensus 162 ~f~~~L~~~l~~--~~~F~l~~~~l~vf~N~e~tR--------~Fl~l~V~~~~~~~L~~L~~~vd~~l----~~fg~p~ 227 (295)
.|-+ .++.++. .+..++.....-.|+-...+. +-+-|+++ +.|..|...+-.++ .-||--.
T Consensus 84 ~f~~-fk~~~~d~dl~sis~~cke~icfpqs~askelga~g~avvmkle~s----ddlkalrnvl~n~vp~pkdifg~i~ 158 (201)
T PHA02977 84 NFEN-FKELIKDIDLQSISFTCKEEICFPQSNASKELGAKGCAVVMKLEAS----DDLKALRNVLFNAVPCPKDIFGDIL 158 (201)
T ss_pred HHHH-HHHHhhcccceeEEEEeeeeEeccccchhhhhCcCccEEEEEEEec----hHHHHHHHHhhcccCCcHHhhcccc
Confidence 5543 3334433 344444555555666544332 22333433 45555544332222 2344322
Q ss_pred CCCCCCCeeEeeeccCCCchHHHH
Q 040757 228 FYKDPRPHISLAWLLGDVSSSLKR 251 (295)
Q Consensus 228 ~Y~~~~fHiSIAW~lgd~~~~l~~ 251 (295)
--.+-.|||+|++...|-.+.-++
T Consensus 159 ~d~~w~phitigyv~~dd~dnk~r 182 (201)
T PHA02977 159 SDNPWCPHITIGYVKADDEDNKKR 182 (201)
T ss_pred cCCCCCCceEEEeecccchhhHHH
Confidence 223458999999987766654444
No 22
>PF10469 AKAP7_NLS: AKAP7 2'5' RNA ligase-like domain; InterPro: IPR019510 This entry represents the N-terminal nuclear localisation signal-containing domain found in the cyclic AMP-dependent protein kinase A (PKA) anchor protein, AKAP7. This protein anchors PKA for its role in regulating PKA-mediated gene transcription in both somatic cells and oocytes []. This domain carries the nuclear localisation signal (NLS) KKRKK, that indicates the cellular destiny of this anchor protein []. Binding to the regulatory subunits RI and RII of PKA is mediated via the RI-RII subunit-binding domain at the C terminus.
Probab=78.26 E-value=5.6 Score=35.16 Aligned_cols=85 Identities=15% Similarity=0.178 Sum_probs=43.9
Q ss_pred eEEEEEEeccCChhhHHHHHHHHHH-HHHH-CCC-CC-CCCCCCCeeEeeeccCCCchHHHHHHHHHHhhhccccc-c-c
Q 040757 194 RTFLSLEVITGGLLEITKQIQVVNE-VYRL-HNL-PE-FYKDPRPHISLAWLLGDVSSSLKRVVVEEMKRLSVESS-L-H 267 (295)
Q Consensus 194 R~Fl~l~V~~~~~~~L~~L~~~vd~-~l~~-fg~-p~-~Y~~~~fHiSIAW~lgd~~~~l~~~~~~l~~~~~~~~~-~-~ 267 (295)
-.|+++++.. ++|..-+..+-+ ++.. -++ +. +..+.++||||+-.--...++++++...|....+.... . .
T Consensus 2 thFl~ipl~~---~~i~~~~~~fq~~v~~~~~~~~~~~~i~~~~lHlTL~vl~L~~~~~i~~a~~~L~~~~~~i~~~~~~ 78 (209)
T PF10469_consen 2 THFLCIPLNS---PEIQEKFKEFQNEVLSKDPGLDESAFIPPEKLHLTLGVLSLDTDEEIEKAKEALKSLKQEIKDQLQN 78 (209)
T ss_pred CeEEEEECCC---HHHHHHHHHHHHHHHhhcCCCCHHHcCCcccceEEEEEeeCCCHHHHHHHHHHHHHHHHHHhhhccC
Confidence 4699999953 555555555543 3333 245 33 34567899999955444444555543333322111100 0 0
Q ss_pred ceeeEEEeceEEEe
Q 040757 268 KHFFSCKFGGIHCK 281 (295)
Q Consensus 268 ~~~~~~~v~~v~ck 281 (295)
...+.+.+.++.+=
T Consensus 79 ~~~~~i~l~Gl~~f 92 (209)
T PF10469_consen 79 PPPLKITLKGLGYF 92 (209)
T ss_pred CCCceEEeeechhh
Confidence 24456666666553
No 23
>PRK15124 2'-5' RNA ligase; Provisional
Probab=74.79 E-value=16 Score=31.46 Aligned_cols=55 Identities=18% Similarity=0.200 Sum_probs=30.1
Q ss_pred CceEEEEEEeccCChhhHHHHHHHHHHHHHHCCCCCCCCCCCCeeEeeeccCCCchHHHH
Q 040757 192 RTRTFLSLEVITGGLLEITKQIQVVNEVYRLHNLPEFYKDPRPHISLAWLLGDVSSSLKR 251 (295)
Q Consensus 192 ~tR~Fl~l~V~~~~~~~L~~L~~~vd~~l~~fg~p~~Y~~~~fHiSIAW~lgd~~~~l~~ 251 (295)
.-|.|+++.+.+.-.++|..+. +.+.....-..-.+..+||||+. +|+.+++.-.
T Consensus 4 ~~RlFiAl~~p~~~~~~l~~~~----~~~~~~~~~rwv~~~nlHiTL~F-lG~v~~~~~~ 58 (176)
T PRK15124 4 PKRLFFAIDLPDEIRQQIIHWR----ATHFPPEAGRPVAAANLHLTLAF-LGEVSAEKQQ 58 (176)
T ss_pred ceEEEEEeCCCHHHHHHHHHHH----HHhccccCcccccccccEEEEEe-cCCCCHHHHH
Confidence 3699999887632222333322 22211111122235688999996 5888876544
No 24
>PF06299 DUF1045: Protein of unknown function (DUF1045); InterPro: IPR009389 This family consists of several hypothetical proteins from Agrobacterium, Rhizobium and Brucella species. The function of this family is unknown.
Probab=60.62 E-value=9 Score=33.19 Aligned_cols=59 Identities=15% Similarity=0.215 Sum_probs=44.5
Q ss_pred hhhhhcC---C--CceEEeccccccccccHHHHHHHHHHHHhcCccEEEEeCCeeeecCCCCceEE
Q 040757 136 LEQVAFG---R--EFHISLGRTVPIRVHQIDSIVAMLRQRLQSQRRYWIDFSKWEAFVNDDRTRTF 196 (295)
Q Consensus 136 ~~~~~~~---~--~lHISLSr~~~lr~~qid~f~~~L~~~l~~~~~F~l~~~~l~vf~N~e~tR~F 196 (295)
+..|+-| + .||+|||-.+ ....++.+...|+..+...-.=.+.++++.+|.-++...-|
T Consensus 95 L~rWGYPYV~deFRFHmTLTg~l--~~~~~~~~~~~l~~~f~~~l~~p~~id~laLf~e~~~gapF 158 (160)
T PF06299_consen 95 LERWGYPYVMDEFRFHMTLTGRL--DPAERARVEAALEAHFAPLLPEPLRIDSLALFGEPEPGAPF 158 (160)
T ss_pred HHHhCCCceeCcCEeeEEeCCCC--CHHHHHHHHHHHHHHHHhhcCCCeeecceEEEeccCCCCCC
Confidence 5666544 2 5899998776 88899999999998887764555678899999888765434
No 25
>PF15559 DUF4660: Domain of unknown function (DUF4660)
Probab=60.39 E-value=7.3 Score=31.47 Aligned_cols=13 Identities=23% Similarity=0.230 Sum_probs=9.2
Q ss_pred CCCCCCCCCcccC
Q 040757 38 NLPLPPPPLSLVN 50 (295)
Q Consensus 38 ~~~LPp~p~~~~~ 50 (295)
..+||.|..-|..
T Consensus 31 ~~~LP~PDeLFrs 43 (108)
T PF15559_consen 31 AERLPGPDELFRS 43 (108)
T ss_pred cCcCCCHHHHHhh
Confidence 3488888877664
No 26
>cd00580 CHMI 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the homoprotocatechuate pathway, one of the microbial meta-fission pathways that degrade aromatic carbon sources to citric acid cycle intermediates. Despite the structural similarity of CHMI with 4-oxalocrotonate tautomerase (4-OT) and macrophage migration inhibitory factor (MIF), there is no significant sequence similarity among these protein families, and therefore, they are not combined in one hierarchy.
Probab=54.06 E-value=1.1e+02 Score=24.29 Aligned_cols=93 Identities=13% Similarity=0.179 Sum_probs=53.2
Q ss_pred eEEecccccc-ccccHHHHHHHHHHHHhcCcc-----EEEEeCCeeeecCCCC--ceEEEEEEec--cC-ChhhHHHHHH
Q 040757 146 HISLGRTVPI-RVHQIDSIVAMLRQRLQSQRR-----YWIDFSKWEAFVNDDR--TRTFLSLEVI--TG-GLLEITKQIQ 214 (295)
Q Consensus 146 HISLSr~~~l-r~~qid~f~~~L~~~l~~~~~-----F~l~~~~l~vf~N~e~--tR~Fl~l~V~--~~-~~~~L~~L~~ 214 (295)
||.+.-+-.+ ...+++.+++.+.+++-...- ...++-....|..-++ +..|+-+.+. .| ..++-..|.+
T Consensus 2 H~~Ieys~~l~~~~~~~~l~~~v~~al~~~~~~p~~dik~r~~~~~~y~~~~~~~~~~fi~i~i~l~~GRs~eqK~~l~~ 81 (113)
T cd00580 2 HLIIEYSANLEGRADIPELLRALHDALVASGLFPLGGIKVRAIRADHYRVGDGDEDDAFIHVTLRILAGRSEEQKQELSE 81 (113)
T ss_pred eEEEEeCCCccccCCHHHHHHHHHHHHHhcCCCChhccEEeeEEcceEEECCCCCCCcEEEEEEEEcCCCCHHHHHHHHH
Confidence 5555555556 468999999999999865221 1222333344444444 5677665554 23 2355667777
Q ss_pred HHHHHHHHCCCCCCCCCCCCeeEee
Q 040757 215 VVNEVYRLHNLPEFYKDPRPHISLA 239 (295)
Q Consensus 215 ~vd~~l~~fg~p~~Y~~~~fHiSIA 239 (295)
.|-++|.+.-.+.+- .....||+.
T Consensus 82 ~i~~~l~~~~~~~~~-~~~~~~sve 105 (113)
T cd00580 82 ALLAALRAHLAPVFA-KRYLSLSVE 105 (113)
T ss_pred HHHHHHHHhhhhhhh-ccceEEEEE
Confidence 777777665444332 234555554
No 27
>TIGR03223 Phn_opern_protn putative phosphonate metabolism protein. This family of proteins is observed in the vicinity of other caharacterized genes involved in the catabolism of phosphonates via the3 C-P lyase system (GenProp0232), its function is unknown. These proteins are members of the somewhat broader pfam06299 model "Protein of unknown function (DUF1045)" which contains proteins found in a different genomic context as well.
Probab=52.40 E-value=25 Score=32.20 Aligned_cols=55 Identities=16% Similarity=0.245 Sum_probs=42.6
Q ss_pred CceEEeccccccccccHHHHHHHHHHHHhcCccEEEEeCCeeeecCCCCceEEEEEE
Q 040757 144 EFHISLGRTVPIRVHQIDSIVAMLRQRLQSQRRYWIDFSKWEAFVNDDRTRTFLSLE 200 (295)
Q Consensus 144 ~lHISLSr~~~lr~~qid~f~~~L~~~l~~~~~F~l~~~~l~vf~N~e~tR~Fl~l~ 200 (295)
.||+|||-.+ ...+.+...+.|+..+...-+=.+.++++.+|+-++...-|-++.
T Consensus 168 rFHmTLTg~l--~~~~~~~~~~~l~~~~~~~l~~p~~id~laLf~e~~~g~pF~~~~ 222 (228)
T TIGR03223 168 RFHMTLTGRL--DEEERAAVLARLEARFAPLLADPLAVDGLALFVEPEPGAPFRLIA 222 (228)
T ss_pred EEEEEecCCC--ChHHHHHHHHHHHHHhhhccCCCeeeeeEEEEeccCCCCCcEEEE
Confidence 5899997665 777888888888887766444457788999999998877787654
No 28
>COG4316 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=50.85 E-value=33 Score=28.33 Aligned_cols=77 Identities=14% Similarity=0.276 Sum_probs=43.6
Q ss_pred CCCceEEeccccccccccHHHHHHHHHHHHhcCccEEEEeCCe-eeecCCCCceEEEEEEeccCChhhHHHHHHHHHHHH
Q 040757 142 GREFHISLGRTVPIRVHQIDSIVAMLRQRLQSQRRYWIDFSKW-EAFVNDDRTRTFLSLEVITGGLLEITKQIQVVNEVY 220 (295)
Q Consensus 142 ~~~lHISLSr~~~lr~~qid~f~~~L~~~l~~~~~F~l~~~~l-~vf~N~e~tR~Fl~l~V~~~~~~~L~~L~~~vd~~l 220 (295)
..+||+++ +++.|+...+.. ..|+=.+.++ -+|-.++.|-.|.+|...+ +.+.+.+
T Consensus 3 ~~~l~lt~---------e~~~f~gtpkv~----es~s~~~~rFgvvFEddgETgYFYaLDMRQ---~gi~d~l------- 59 (138)
T COG4316 3 QLPLYLTS---------EIKDFVGTPKVL----ESFSKHIPRFGVVFEDDGETGYFYALDMRQ---DGILDAL------- 59 (138)
T ss_pred ccceeeeh---------hhHHhcCChHHH----HhhhhhccceeEEEeeCCcceEEEeecchh---hhHHHHH-------
Confidence 35788876 455565544422 1222223333 3677888999999988764 2344443
Q ss_pred HHCCCCCCCCCC-CCeeEeeec
Q 040757 221 RLHNLPEFYKDP-RPHISLAWL 241 (295)
Q Consensus 221 ~~fg~p~~Y~~~-~fHiSIAW~ 241 (295)
-.|+-..--.-+ .=|++|.|.
T Consensus 60 h~yNv~~vsd~h~~~~v~I~Wd 81 (138)
T COG4316 60 HIYNVEDVSDKHIPNHVLILWD 81 (138)
T ss_pred HhccccccccCCCCCceEEEEc
Confidence 334333332223 349999996
No 29
>PLN00108 unknown protein; Provisional
Probab=49.27 E-value=1.1e+02 Score=28.45 Aligned_cols=89 Identities=17% Similarity=0.192 Sum_probs=46.3
Q ss_pred CCceEEEEEEeccCChhhHHHHHHHH-HHHHHH--------------CCCC--CCCCCCCCeeEeeeccCCCchHHHHHH
Q 040757 191 DRTRTFLSLEVITGGLLEITKQIQVV-NEVYRL--------------HNLP--EFYKDPRPHISLAWLLGDVSSSLKRVV 253 (295)
Q Consensus 191 e~tR~Fl~l~V~~~~~~~L~~L~~~v-d~~l~~--------------fg~p--~~Y~~~~fHiSIAW~lgd~~~~l~~~~ 253 (295)
.....|+++++.. .++|.+=+... +.+++. +|++ -|-++..+|+||+=..-.-.+++++++
T Consensus 34 ~~~THFlavPL~~--~p~i~~~~~~Fk~~Vl~~~~~~~~~f~~~l~~~gid~siF~~p~~LHLTLgmL~L~~~eev~kA~ 111 (257)
T PLN00108 34 EVFTHFVSLPLAI--YPDLKKNIEAFQNSVLGNNDKDPLKFQSTLAEMGIEKSIFVSPKTFHLTVVMLKLENNESVVKAQ 111 (257)
T ss_pred CCCCeEEEEEcCC--CHHHHHHHHHHHHHHHhccccccccccccccccCCCHHHcCCCCceEEEEEEEEcCCHHHHHHHH
Confidence 4466899999952 25565544444 334442 2332 234567899999933222234555544
Q ss_pred HHHHhhhccc-ccccceeeEEEeceEEEe
Q 040757 254 VEEMKRLSVE-SSLHKHFFSCKFGGIHCK 281 (295)
Q Consensus 254 ~~l~~~~~~~-~~~~~~~~~~~v~~v~ck 281 (295)
+.|+...... .......+.+.+.+|.|=
T Consensus 112 ~~L~s~~~~i~~~l~~~pl~I~lkGL~~M 140 (257)
T PLN00108 112 NILKSICSNVRQALKDRPVFIRLRGLDCM 140 (257)
T ss_pred HHHHHHHHHHHHhhCCCCeEEEEEeehhc
Confidence 4443321100 011134566777777664
No 30
>PRK13679 hypothetical protein; Provisional
Probab=45.87 E-value=1.1e+02 Score=25.89 Aligned_cols=52 Identities=21% Similarity=0.118 Sum_probs=27.1
Q ss_pred EEEEEeccCChhhHHHHHHHHHHHHHHCCCCCCCCCCCCeeEeeeccCCCch-HHHHHHHHHH
Q 040757 196 FLSLEVITGGLLEITKQIQVVNEVYRLHNLPEFYKDPRPHISLAWLLGDVSS-SLKRVVVEEM 257 (295)
Q Consensus 196 Fl~l~V~~~~~~~L~~L~~~vd~~l~~fg~p~~Y~~~~fHiSIAW~lgd~~~-~l~~~~~~l~ 257 (295)
|+++.+. +++...++.+.+ .|+ ..++...+||||+. +|+.++ .+.+..+.+.
T Consensus 4 ~iai~~p----~~~~~~l~~~~~---~~~--~~~~~v~pHITL~f-~g~~~~~~~~~l~~~l~ 56 (168)
T PRK13679 4 GIVLFPS----KKIQDFANSYRK---RYD--PHYALIPPHITLKE-PFEISDEQLDSIVEELR 56 (168)
T ss_pred EEEEcCC----HHHHHHHHHHHH---hhC--cccccCCCceEEec-CCCCCHHHHHHHHHHHH
Confidence 5554443 345555555543 333 22454567999996 465553 3344334343
No 31
>PF09749 HVSL: Uncharacterised conserved protein; InterPro: IPR019146 This entry is of proteins of approximately 300 residues conserved from plants to humans. It contains two conserved motifs, HxSL and FHVSL. The function is unknown.
Probab=45.44 E-value=1.5e+02 Score=26.76 Aligned_cols=83 Identities=17% Similarity=0.123 Sum_probs=44.8
Q ss_pred EEEEEEeccC--ChhhHHHHHHHHHHHHHHCC--CCCCCC-----CCCCeeEeeeccCCCchHHHHHHHHHHhhhccccc
Q 040757 195 TFLSLEVITG--GLLEITKQIQVVNEVYRLHN--LPEFYK-----DPRPHISLAWLLGDVSSSLKRVVVEEMKRLSVESS 265 (295)
Q Consensus 195 ~Fl~l~V~~~--~~~~L~~L~~~vd~~l~~fg--~p~~Y~-----~~~fHiSIAW~lgd~~~~l~~~~~~l~~~~~~~~~ 265 (295)
+|+-+++... ....|..++..+++.+.... +.+++. ...+||||...+.-........+..+...+..
T Consensus 42 t~vYi~~~~~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~s~lg~~~~lHISLSr~~~lr~~~id~f~~~lr~~l~~--- 118 (239)
T PF09749_consen 42 THVYIEWPPSEDQRELLEKLISKANSICPKLHSEFEPLLYSDLGSPDPLHISLSRTFPLRTHQIDPFVDSLRQALRS--- 118 (239)
T ss_pred eEEEEEecCcHHHHHHHHHHHHHHHhhhhhhhhhcccccccccCCCCCeEEEeCCCccccHHHHHHHHHHHHHHHhh---
Confidence 4555566532 12345555566555544322 222221 35689999999877776666666666654421
Q ss_pred ccceeeEEEeceEEE
Q 040757 266 LHKHFFSCKFGGIHC 280 (295)
Q Consensus 266 ~~~~~~~~~v~~v~c 280 (295)
.....+.+.++++.+
T Consensus 119 ~~~~~F~v~f~~~~~ 133 (239)
T PF09749_consen 119 SNIRPFYVSFSGLDV 133 (239)
T ss_pred cCCceEEEEeCceEE
Confidence 112345555555444
No 32
>KOG4786 consensus Ubinuclein, nuclear protein interacting with cellular and viral transcription factors [Transcription; Signal transduction mechanisms]
Probab=40.33 E-value=28 Score=37.03 Aligned_cols=45 Identities=33% Similarity=0.452 Sum_probs=27.0
Q ss_pred ccccccCCCCCCCcccCCCCCCCCCCCCCC----CCCCCCCCCCCCCCc
Q 040757 3 ALLASYGDSYSDSDTERGNPSNSGINSSSS----QPETTNLPLPPPPLS 47 (295)
Q Consensus 3 ~~l~~Y~~s~sdsd~e~~~~~~~~~~~~~~----~~~~~~~~LPp~p~~ 47 (295)
.+-.+||+++|||+++.+++-..+.|.+.+ .-..++..+|++-.+
T Consensus 125 ~~~~~~~~~~SDS~~~~~~~~~~~~P~S~ss~~~~~~~~~~~~~~~~~~ 173 (1136)
T KOG4786|consen 125 SSKSSDSSSSSDSEDAAGPPRMTGAPVSSSSSLKKLPAPRKPSPPPAVE 173 (1136)
T ss_pred hhhccCCccccccccccCCcccccCccccccccccccCCCCCCCCCccC
Confidence 345689999999988888775555553332 122344555555443
No 33
>COG5255 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.48 E-value=1.5e+02 Score=26.95 Aligned_cols=94 Identities=16% Similarity=0.129 Sum_probs=49.2
Q ss_pred HHHHHHHHHHHHhcCccEEEEeCCeeeecCCCCceEEEEEEeccCChhhHHHHHHHHHHHHHHCCCC-CCCCCCCCeeEe
Q 040757 160 IDSIVAMLRQRLQSQRRYWIDFSKWEAFVNDDRTRTFLSLEVITGGLLEITKQIQVVNEVYRLHNLP-EFYKDPRPHISL 238 (295)
Q Consensus 160 id~f~~~L~~~l~~~~~F~l~~~~l~vf~N~e~tR~Fl~l~V~~~~~~~L~~L~~~vd~~l~~fg~p-~~Y~~~~fHiSI 238 (295)
|+..-+-+.+.|+.+.-+ -..+..=..+.++-..++.++...+...|.++.+ .+...||.- +..+...|||||
T Consensus 110 i~~~~~~~~erLk~F~l~---~~~~~mrvte~rp~~i~v~paddad~~~l~~~Rd---~ls~~~g~r~P~HDaY~FHITl 183 (239)
T COG5255 110 IDAITDYYAERLKIFPLL---DEEFNMRVTEMRPQGILVEPADDADAKILEEWRD---YLSEKFGYRHPDHDAYQFHITL 183 (239)
T ss_pred HHHHHHHHHHHHhcccCC---chhhcchhhcccccceEeccCCHHHHHHHHHHHH---HHhhhhcccCCCCcceEEEEEe
Confidence 566666667777654322 2222233345566677776766433223333332 233445521 223456899999
Q ss_pred e----eccCCCchHHHHHHHHHHhh
Q 040757 239 A----WLLGDVSSSLKRVVVEEMKR 259 (295)
Q Consensus 239 A----W~lgd~~~~l~~~~~~l~~~ 259 (295)
+ |.-.+..++.++.++++.+.
T Consensus 184 gYl~~wltpee~a~~q~~l~e~~e~ 208 (239)
T COG5255 184 GYLRIWLTPEEEAEWQAVLDELLEI 208 (239)
T ss_pred eeEeeecChhhhHHHHHHHHHHHHH
Confidence 9 54444445555556665543
No 34
>PHA02574 57B hypothetical protein; Provisional
Probab=34.33 E-value=23 Score=30.25 Aligned_cols=42 Identities=12% Similarity=0.230 Sum_probs=25.2
Q ss_pred CceEEEEEEeccCChhhHHHHHHHHHHHHHHCCCCCCCCCCCCeeEeee
Q 040757 192 RTRTFLSLEVITGGLLEITKQIQVVNEVYRLHNLPEFYKDPRPHISLAW 240 (295)
Q Consensus 192 ~tR~Fl~l~V~~~~~~~L~~L~~~vd~~l~~fg~p~~Y~~~~fHiSIAW 240 (295)
..|.|+++.+.....+.|.++ .+..+....-....+|+||+.
T Consensus 8 ~~RlF~Al~~~~~~r~~L~~l-------q~~l~~~r~V~~enLHlTL~F 49 (149)
T PHA02574 8 SQGTYVAAKFSEATLDALERL-------QRTLRIPNPVPRDKLHSTIVY 49 (149)
T ss_pred cceEEEEEcCCHHHHHHHHHH-------HHhccCCcccCHHHCEEEEec
Confidence 689999988753222223333 333333444455689999998
No 35
>cd01785 PDZ_GEF_RA Ubiquitin-like domain of PDZ_GEF_RA. PDZ_GEF_RA PDZ-GEF is a guanine nucleotide exchange factor (GEF) characterised by the presence of a PSD-95/DlgA/ZO-1 (PDZ) domain, a Ras-association (RA) domain and a region related to a cyclic nucleotide binding domain (RCBD). RA-GEF exchanges nucleotides of both Rap1 and Rap2, but is also thought to mediate cAMP-induced Ras activation. The RA domain interacts with Rap1 and also contributes to the membrane localization of RA-GEF. This domain may function in a positive feedback loop.
Probab=34.17 E-value=1.3e+02 Score=23.25 Aligned_cols=48 Identities=10% Similarity=0.093 Sum_probs=34.4
Q ss_pred eeeecCCCCceEEEEEEeccCChhhHHHHHHHHHHHHHHCCCCCCCCCCC-CeeEee
Q 040757 184 WEAFVNDDRTRTFLSLEVITGGLLEITKQIQVVNEVYRLHNLPEFYKDPR-PHISLA 239 (295)
Q Consensus 184 l~vf~N~e~tR~Fl~l~V~~~~~~~L~~L~~~vd~~l~~fg~p~~Y~~~~-fHiSIA 239 (295)
+++|.++...+.++...-+ .-.+.|.-+|++||++.--.+++ +|+|++
T Consensus 5 lkvykaDQt~kyili~K~T--------ta~evv~lal~eFgi~~~s~~~sLceVtV~ 53 (85)
T cd01785 5 LKVYKADQTCKYLLIYKET--------TAHEVVMLALQEFGITAPSSNFSLCEVSVT 53 (85)
T ss_pred EEEEecCcceeEEEEeccc--------cHHHHHHHHHHHhCCCCCccceEEEEEEec
Confidence 6899999888888764422 12344666999999998755554 588877
No 36
>PF13563 2_5_RNA_ligase2: 2'-5' RNA ligase superfamily; PDB: 1IUH_A.
Probab=33.16 E-value=47 Score=26.87 Aligned_cols=51 Identities=16% Similarity=0.137 Sum_probs=23.8
Q ss_pred HCCCCCCCCCCCCeeEeeeccCCCc--hHHHHHHHHHHhhhcccccccceeeEEEeceEEEe
Q 040757 222 LHNLPEFYKDPRPHISLAWLLGDVS--SSLKRVVVEEMKRLSVESSLHKHFFSCKFGGIHCK 281 (295)
Q Consensus 222 ~fg~p~~Y~~~~fHiSIAW~lgd~~--~~l~~~~~~l~~~~~~~~~~~~~~~~~~v~~v~ck 281 (295)
.++.+.++. -.|||||+....... +.+.+.+..+-. . ...+.+.++++.+=
T Consensus 15 ~~~~~~~~~-~~pHITL~~~~~~~~~~~~~~~~l~~~~~---~-----~~~f~l~l~~~~~F 67 (153)
T PF13563_consen 15 QKGDKRYPR-WPPHITLAFPFDIDDSLDELVEALARLAA---G-----FPPFELRLDGFGSF 67 (153)
T ss_dssp -TTEEE--G-GG-EEEEEEEEE--GGGHHHHHHHHHHHH---H-----S--EEEEEEEEEEE
T ss_pred ccCCCCCCC-CCCEeEEEecCcccccHHHHHHHHHHHHc---c-----CCCeEEEEccEEEc
Confidence 444444333 349999997633333 344444443322 1 13466777887775
No 37
>COG5011 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.80 E-value=50 Score=29.79 Aligned_cols=31 Identities=26% Similarity=0.529 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHCCCCCCCC---CCCCeeEeeec
Q 040757 211 KQIQVVNEVYRLHNLPEFYK---DPRPHISLAWL 241 (295)
Q Consensus 211 ~L~~~vd~~l~~fg~p~~Y~---~~~fHiSIAW~ 241 (295)
.+++.+++++++-|+|.-|. .|.|-||||-+
T Consensus 20 dlmRlidR~iRRAglpiayT~GFhP~prmsia~a 53 (228)
T COG5011 20 DLMRLIDRTIRRAGLPIAYTGGFHPHPRMSIAQA 53 (228)
T ss_pred HHHHHHHHHHHhcCCceeecCCCCCCCceeeccc
Confidence 57788999999999999886 35566788754
No 38
>PF07823 CPDase: Cyclic phosphodiesterase-like protein; InterPro: IPR012386 2',3' Cyclic nucleotide phosphodiesterases (CPDases) are enzymes that catalyse at least two distinct steps in the splicing of tRNA introns in eukaryotes. The active site is characterised by two conserved histidine residues []. The enzyme has six cysteine residues, four of which are involved in forming two intra-molecular disulphide bridges. One of these bridges is involved in the catalytic activity of the enzyme as it opens when CPDase is semi-reduced []. Proteins in this entryand belong to 3.1.4.37 from EC and catalyse the reaction Nucleoside 2',3'-cyclic phosphate + H2O = nucleoside 2'-phosphate. ; GO: 0004112 cyclic-nucleotide phosphodiesterase activity; PDB: 1JH7_A 1JH6_B 1FSI_B.
Probab=32.79 E-value=2.4e+02 Score=24.81 Aligned_cols=45 Identities=16% Similarity=0.160 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHCCCCCCCCCCCCeeEeeeccCC-CchHHHHHHHHH
Q 040757 210 TKQIQVVNEVYRLHNLPEFYKDPRPHISLAWLLGD-VSSSLKRVVVEE 256 (295)
Q Consensus 210 ~~L~~~vd~~l~~fg~p~~Y~~~~fHiSIAW~lgd-~~~~l~~~~~~l 256 (295)
..|...|+..-..|+-. +-.|.|||||+-.+.. ..+...+.+.+.
T Consensus 17 ~~L~~lI~~L~~~~~~~--~p~F~PHiTL~s~i~~~~~~~~~~~L~~~ 62 (196)
T PF07823_consen 17 ERLKTLISSLASLFPGS--PPPFEPHITLTSGISLDSSDDVQKVLDSA 62 (196)
T ss_dssp HHHHHHHHHHHHHST-----------EEEEEEEEE--HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCCC--CCCcCCeEEEeCCCccCCHHHHHHHHHHH
Confidence 34444456666677631 2245899999964433 455555555544
No 39
>PF08394 Arc_trans_TRASH: Archaeal TRASH domain; InterPro: IPR013603 This region is found in the C terminus of a number of archaeal transcriptional regulators. It is thought to function as a metal-sensing regulatory module [].
Probab=31.41 E-value=58 Score=21.33 Aligned_cols=18 Identities=39% Similarity=0.545 Sum_probs=14.6
Q ss_pred EEeceEEEeeCCeeEEEe
Q 040757 273 CKFGGIHCKIGKKTYKIC 290 (295)
Q Consensus 273 ~~v~~v~ckiGNk~~~i~ 290 (295)
|.=+.+..|+||++|-++
T Consensus 8 I~~eP~~~k~~~~~y~fC 25 (37)
T PF08394_consen 8 ITGEPIVVKIGNKVYYFC 25 (37)
T ss_pred ccCCEEEEEECCeEEEEE
Confidence 344678899999999987
No 40
>PRK04173 glycyl-tRNA synthetase; Provisional
Probab=28.78 E-value=86 Score=31.47 Aligned_cols=77 Identities=12% Similarity=0.072 Sum_probs=55.9
Q ss_pred cccccccccHHHHHHHHHHHHhcCc-cEEEEeCCe-eeecCCCCceEEEEEEecc-----------C--ChhhHHHHHHH
Q 040757 151 RTVPIRVHQIDSIVAMLRQRLQSQR-RYWIDFSKW-EAFVNDDRTRTFLSLEVIT-----------G--GLLEITKQIQV 215 (295)
Q Consensus 151 r~~~lr~~qid~f~~~L~~~l~~~~-~F~l~~~~l-~vf~N~e~tR~Fl~l~V~~-----------~--~~~~L~~L~~~ 215 (295)
.++.||.+--+...-..+..+++.+ ...+.+..+ .+|.|+-++|.+|. +|.. + ..+++...++.
T Consensus 158 ~~~~lRpetaqg~~~~f~~~~~syr~dLPlr~aq~g~~~RnE~s~~~gL~-RvReF~q~e~hiF~~peq~~~e~~~~l~~ 236 (456)
T PRK04173 158 SLGYLRPETAQGIFVNFKNVLRTARKKLPFGIAQIGKSFRNEITPRNFIF-RTREFEQMELEFFVKPGTDNEWFAYWIEL 236 (456)
T ss_pred cceeeccccchhHHHHHHHHHHhccccCCeeeeEEchhHhCccCCCCCce-eeceeeeeEEEEEECcChHHHHHHHHHHH
Confidence 4677787666666666777777766 566677766 48999988877664 4432 1 24678889999
Q ss_pred HHHHHHHCCCCCC
Q 040757 216 VNEVYRLHNLPEF 228 (295)
Q Consensus 216 vd~~l~~fg~p~~ 228 (295)
+..++..||++.+
T Consensus 237 ~~~~l~~lG~~~~ 249 (456)
T PRK04173 237 RKNWLLDLGIDPE 249 (456)
T ss_pred HHHHHHHcCCCcc
Confidence 9999999999865
No 41
>PF05213 Corona_NS2A: Coronavirus NS2A protein; InterPro: IPR007878 This entry is represented by Coronavirus non-structural protein 2A (32kDa); it is a family of uncharacterised viral proteins. Members have a phosphoesterase module (2H) [] and are predicted to be involved in RNA modification. The viral group of 2H phosphoesterases contains proteins from two unrelated virus types: the type C rotaviruses (VP3 protein, IPR011181 from INTERPRO) that are double stranded multipartite RNA viruses and the coronaviruses (NS2 protein, this group) that are positive strand RNA viruses. Given that these viruses have vertebrate hosts, it is likely that the 2H phosphoesterase domain was derived from the host by one of virus groups followed by rapid sequence divergence []. Subsequently, it may have been exchanged between the viral families. Although the direction of the exchange is not clear, it is possible that a double stranded replicative form of a subgenomic RNA transcript of the coronavirus NS2 was stabilised by a rotavirus and incorporated into its multiple double stranded RNA genome []. These proteins can be utilised as novel drug targets because of their predicted RNA modification role.
Probab=26.53 E-value=2.3e+02 Score=26.00 Aligned_cols=66 Identities=17% Similarity=0.217 Sum_probs=35.9
Q ss_pred CCCceEEEEEEecc--CChhhHHHHHHHHHHHHHHCCCCCCCCCCCCeeEeeeccCCCchHHHHHHHHHHhhhc
Q 040757 190 DDRTRTFLSLEVIT--GGLLEITKQIQVVNEVYRLHNLPEFYKDPRPHISLAWLLGDVSSSLKRVVVEEMKRLS 261 (295)
Q Consensus 190 ~e~tR~Fl~l~V~~--~~~~~L~~L~~~vd~~l~~fg~p~~Y~~~~fHiSIAW~lgd~~~~l~~~~~~l~~~~~ 261 (295)
.|+|-.|+.++|.+ |-......|. --+-+-|++--- .-.||||++- |--..+..+.....||+.++
T Consensus 3 AD~P~HFin~Pl~~f~~f~~~~~~LQ----~~~~~eG~d~k~-QkaPHlSl~m-L~Isd~~i~~V~~~iq~Vid 70 (248)
T PF05213_consen 3 ADKPTHFINFPLVQFEGFMLNFKDLQ----FQLLEEGVDCKL-QKAPHLSLGM-LDISDEDIPDVETAIQKVID 70 (248)
T ss_pred CCCCCceeeccchhhhhHHHHHHHHH----HHHHHcCCCccc-cccCeeEEEE-EEcChhhhhhHHHHHHHHHH
Confidence 47888999999875 1112233333 223344665432 2589999993 33333444444434554444
No 42
>PF03927 NapD: NapD protein; InterPro: IPR005623 This entry represents NapD, the twin-arginine signal-peptide-binding chaperone for NapA, functioning as an assembly protein for the periplasmic nitrate reductase NapABC. The periplasmic NapABC enzyme likely functions during growth in nitrate-limited environments [].; PDB: 2JSX_A 2PQ4_A.
Probab=25.98 E-value=1.3e+02 Score=22.60 Aligned_cols=60 Identities=22% Similarity=0.317 Sum_probs=38.0
Q ss_pred CceEEeccccccccccHHHHHHHHHHHHhcCccEEEEeCCeeeecCCCCceEEEEEEeccCChhhHHHHHHHHH
Q 040757 144 EFHISLGRTVPIRVHQIDSIVAMLRQRLQSQRRYWIDFSKWEAFVNDDRTRTFLSLEVITGGLLEITKQIQVVN 217 (295)
Q Consensus 144 ~lHISLSr~~~lr~~qid~f~~~L~~~l~~~~~F~l~~~~l~vf~N~e~tR~Fl~l~V~~~~~~~L~~L~~~vd 217 (295)
++||| |..+..+.+.++...+.| .. +.+++++..++..|.-.+++-. ....+.++++.++
T Consensus 2 e~hIs-s~vV~~~p~~~~~v~~~l----~~-------~~gvEVh~~~~~GKiVVtiE~~--~~~~~~~~~~~i~ 61 (79)
T PF03927_consen 2 EMHIS-SLVVHARPERLEEVAEAL----AA-------IPGVEVHAVDEDGKIVVTIEAE--SSEEEVDLIDAIN 61 (79)
T ss_dssp -SCEE-EEEEEE-CCCHHHHHHHH----CC-------STTEEEEEEETTTEEEEEEEES--SHHHHHHHHHHHC
T ss_pred ceeEE-EEEEEECchhHHHHHHHH----Hc-------CCCcEEEeeCCCCeEEEEEEeC--ChHHHHHHHHHHH
Confidence 46777 666667777766655554 33 4678999888888987776644 2455655555543
No 43
>PF14026 DUF4242: Protein of unknown function (DUF4242)
Probab=24.19 E-value=3e+02 Score=20.51 Aligned_cols=64 Identities=17% Similarity=0.121 Sum_probs=41.2
Q ss_pred cccccccccHHHHHHHHHHHHhcCccEEEEeCCeeeecCCCCceEEEEEEeccCChhhHHHHHHHHHHHHHHCCCCC
Q 040757 151 RTVPIRVHQIDSIVAMLRQRLQSQRRYWIDFSKWEAFVNDDRTRTFLSLEVITGGLLEITKQIQVVNEVYRLHNLPE 227 (295)
Q Consensus 151 r~~~lr~~qid~f~~~L~~~l~~~~~F~l~~~~l~vf~N~e~tR~Fl~l~V~~~~~~~L~~L~~~vd~~l~~fg~p~ 227 (295)
+++.++.++.....+.....+... -...=+..|.+++..++|+...-.+ + +.|.++.++-|+|.
T Consensus 8 ~p~~it~e~l~~~~~~~~~~~~~~----~~V~w~~s~v~~d~~k~~Cly~Ap~---~------eaV~~~~~~aG~p~ 71 (77)
T PF14026_consen 8 FPGGITAEDLAAAHAKSCAVQAEM----PGVQWLRSYVSEDDGKIFCLYEAPD---E------EAVREHARRAGLPA 71 (77)
T ss_pred CCCCCCHHHHHHHHHHhHHHHhhc----CCeEEEEEEEecCCCeEEEEEECCC---H------HHHHHHHHHcCCCc
Confidence 344477778777777776666554 1122257899999999999976432 2 33555566667774
No 44
>PF02962 CHMI: 5-carboxymethyl-2-hydroxymuconate isomerase; InterPro: IPR004220 5-carboxymethyl-2-hydroxymuconate isomerase transforms 5-carboxymethyl-2-hydroxy-muconic acid into 5-oxo-pent-3-ene-1,2,5-tricarboxylic acid during the third step of the homoprotocatechuate catabolic pathway []. Homoprotocatechuate (HPC; 3,4-dihydroxyphenylacetate) is catabolized to Krebs cycle intermediates via extradiol (meta-) cleavage and the necessary enzymes are chromosomally encoded in a variety of bacteria []. 5-carboxymethyl-2-hydroxymuconate isomerase is probably a dimer of two identical subunits []. A comparison of the N-terminal half of the isomerase/decarboxylase sequence from the pathway (both encoded by the gene hpcE), with the second half showed significant similarity. This suggests that a duplication may have occurred to produce a bifunctional gene [].; PDB: 3E6Q_H 1OTG_B.
Probab=21.67 E-value=4.6e+02 Score=21.58 Aligned_cols=92 Identities=11% Similarity=0.263 Sum_probs=54.6
Q ss_pred eEEeccccccccc-cHHHHHHHHHHHHhcCccE-----EEEeCCeeeec--CCCCceEEEEE--EeccCC-hhhHHHHHH
Q 040757 146 HISLGRTVPIRVH-QIDSIVAMLRQRLQSQRRY-----WIDFSKWEAFV--NDDRTRTFLSL--EVITGG-LLEITKQIQ 214 (295)
Q Consensus 146 HISLSr~~~lr~~-qid~f~~~L~~~l~~~~~F-----~l~~~~l~vf~--N~e~tR~Fl~l--~V~~~~-~~~L~~L~~ 214 (295)
|+.+--+-.|... .++.+++.|..++-+..-| .+.+-+.+-|. .....+.|+-+ .+.+|- .+.-..|-+
T Consensus 2 H~viEYS~nL~~~~d~~~ll~~l~~~~~~sglF~~~~IK~Ra~~~~~y~vgdg~~~~~FvHv~l~il~GRs~e~k~~l~~ 81 (124)
T PF02962_consen 2 HLVIEYSANLEDDVDIPALLRALHDALLASGLFPEGGIKVRAIRCDHYRVGDGQPDDAFVHVTLRILAGRSEEQKKALSE 81 (124)
T ss_dssp EEEEEEECCGCCTTTHHHHHHHHHHHHHCTTSS-GGG-EEEEEEESSEEETTSSS-EEEEEEEEEEETT--HHHHHHHHH
T ss_pred eEEEEeCCCccccCCHHHHHHHHHHHHHHcCCcChhceeeeeEecccEEEccCCCCCcEEEEEeeecCCCCHHHHHHHHH
Confidence 6666666677655 8999999999988653333 34444444342 22346788554 444553 234556667
Q ss_pred HHHHHHHHCCCCCCCCCCCCeeEe
Q 040757 215 VVNEVYRLHNLPEFYKDPRPHISL 238 (295)
Q Consensus 215 ~vd~~l~~fg~p~~Y~~~~fHiSI 238 (295)
+|-++++++ +++.+....+.+|+
T Consensus 82 ~l~~~l~~~-~~~~~~~~~~~Lsv 104 (124)
T PF02962_consen 82 ALLAVLKAH-LAPLFAQRYLQLSV 104 (124)
T ss_dssp HHHHHHHHH-CCCHCCHSEEEEEE
T ss_pred HHHHHHHHH-hhHhhcCCeeEEEE
Confidence 788888776 45544444445544
No 45
>COG4466 Veg Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.99 E-value=41 Score=25.69 Aligned_cols=25 Identities=4% Similarity=-0.180 Sum_probs=18.4
Q ss_pred CCCCCceEEeeeeccccCCCCCc----cccc-cccccC
Q 040757 63 INGSLSILIYAHQLFAVLPTKGS----IDHH-LPTVLI 95 (295)
Q Consensus 63 ~~h~gR~R~~pHv~~~~~~~~Gn----w~th-YI~~~~ 95 (295)
...+||+|+..|- |+ ||++ -|+...
T Consensus 25 k~ngGRKk~~~r~--------G~L~EtYpSvFIiel~~ 54 (80)
T COG4466 25 KANGGRKKTIERS--------GILIETYPSVFIIELDQ 54 (80)
T ss_pred EecCCceeeehhc--------eEEeeecCcEEEEEecc
Confidence 3568999999887 65 8888 555543
No 46
>PF14480 DNA_pol3_a_NI: DNA polymerase III polC-type N-terminus I
Probab=20.86 E-value=1.6e+02 Score=21.36 Aligned_cols=37 Identities=8% Similarity=0.171 Sum_probs=30.9
Q ss_pred CCceEEeccccccccccHHHHHHHHHHHHhcCccEEE
Q 040757 143 REFHISLGRTVPIRVHQIDSIVAMLRQRLQSQRRYWI 179 (295)
Q Consensus 143 ~~lHISLSr~~~lr~~qid~f~~~L~~~l~~~~~F~l 179 (295)
..+|+.|+.+-.|+.+.+..|.+.|+...+.+....+
T Consensus 36 ~~w~f~l~~~~~l~~~~~~~~~~~l~~~F~~ia~v~~ 72 (76)
T PF14480_consen 36 RKWRFHLSSPHILPFEVYQKFEEKLKKQFSHIAKVEL 72 (76)
T ss_pred CEEEEEEEeCCcCCHHHHHHHHHHHHHHhCCcCeEEE
Confidence 5699999999999999999999999998776554433
No 47
>PF07491 PPI_Ypi1: Protein phosphatase inhibitor ; InterPro: IPR011107 These proteins include Ypi1, a novel Saccharomyces cerevisiae type 1 protein phosphatase inhibitor [] and ppp1r11/hcgv (O60927 from SWISSPROT), annotated as having protein phosphatase inhibitor activity [].
Probab=20.41 E-value=58 Score=23.64 Aligned_cols=13 Identities=23% Similarity=0.537 Sum_probs=7.1
Q ss_pred ccCCCCCCCcccC
Q 040757 7 SYGDSYSDSDTER 19 (295)
Q Consensus 7 ~Y~~s~sdsd~e~ 19 (295)
.++.|||+|++|+
T Consensus 47 ~~~esSs~s~s~~ 59 (60)
T PF07491_consen 47 AFDESSSESSSDS 59 (60)
T ss_pred CCCCCcccccccC
Confidence 3555666555544
Done!