Query 046720
Match_columns 455
No_of_seqs 213 out of 1821
Neff 9.8
Searched_HMMs 46136
Date Fri Mar 29 03:48:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046720.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046720hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03097 FHY3 Protein FAR-RED 100.0 5.6E-84 1.2E-88 659.7 39.1 422 9-453 68-508 (846)
2 PF00872 Transposase_mut: Tran 99.9 1.7E-25 3.8E-30 216.5 3.3 256 122-422 93-355 (381)
3 PF10551 MULE: MULE transposas 99.9 1E-22 2.2E-27 157.6 7.3 90 240-331 1-93 (93)
4 PF03101 FAR1: FAR1 DNA-bindin 99.8 2.9E-19 6.4E-24 137.3 9.0 87 29-115 1-91 (91)
5 COG3328 Transposase and inacti 99.7 7.8E-16 1.7E-20 145.9 11.7 265 125-437 82-351 (379)
6 PF08731 AFT: Transcription fa 99.5 1E-13 2.2E-18 104.8 9.6 87 21-113 1-111 (111)
7 PF03108 DBD_Tnp_Mut: MuDR fam 99.1 6.2E-10 1.3E-14 79.6 7.3 64 14-102 3-67 (67)
8 PF01610 DDE_Tnp_ISL3: Transpo 97.4 9E-05 1.9E-09 68.3 3.3 94 237-336 2-98 (249)
9 PF03106 WRKY: WRKY DNA -bindi 96.9 0.0044 9.6E-08 42.6 6.6 55 39-112 4-59 (60)
10 PF06782 UPF0236: Uncharacteri 96.5 0.13 2.8E-06 51.8 16.5 136 273-421 235-382 (470)
11 PF13610 DDE_Tnp_IS240: DDE do 96.2 0.0043 9.3E-08 51.4 3.2 81 233-317 1-81 (140)
12 PF04500 FLYWCH: FLYWCH zinc f 95.3 0.04 8.6E-07 38.2 4.9 49 38-111 14-62 (62)
13 smart00774 WRKY DNA binding do 95.3 0.038 8.1E-07 37.6 4.3 55 39-111 4-59 (59)
14 PF04684 BAF1_ABF1: BAF1 / ABF 93.8 0.15 3.2E-06 49.3 6.0 55 18-96 25-79 (496)
15 PF00665 rve: Integrase core d 92.0 0.54 1.2E-05 37.3 6.4 76 233-309 6-82 (120)
16 PF03050 DDE_Tnp_IS66: Transpo 89.3 0.43 9.2E-06 44.4 3.9 85 234-337 68-157 (271)
17 PF04937 DUF659: Protein of un 87.4 3.7 8E-05 34.4 7.9 109 226-336 26-138 (153)
18 COG3316 Transposase and inacti 86.8 1.3 2.9E-05 38.9 5.0 82 233-319 70-151 (215)
19 PHA02517 putative transposase 79.0 8.2 0.00018 35.9 7.6 73 233-307 110-182 (277)
20 PRK14702 insertion element IS2 64.0 29 0.00062 32.1 7.3 71 234-305 88-163 (262)
21 PRK09409 IS2 transposase TnpB; 63.2 30 0.00066 32.7 7.4 71 234-305 127-202 (301)
22 PRK13907 rnhA ribonuclease H; 59.7 88 0.0019 24.9 9.2 79 235-315 3-82 (128)
23 PF13936 HTH_38: Helix-turn-he 59.4 4.6 0.0001 25.7 0.8 30 125-154 2-31 (44)
24 PF14201 DUF4318: Domain of un 54.7 41 0.00088 24.2 5.0 42 19-60 12-57 (74)
25 PF08069 Ribosomal_S13_N: Ribo 51.6 10 0.00022 25.9 1.6 29 130-158 31-59 (60)
26 PF13082 DUF3931: Protein of u 51.2 15 0.00033 23.8 2.2 27 248-274 36-62 (66)
27 KOG3517 Transcription factor P 49.7 32 0.00069 30.7 4.6 69 125-203 18-97 (334)
28 PRK08561 rps15p 30S ribosomal 49.3 34 0.00073 28.3 4.4 32 130-161 31-62 (151)
29 PF15299 ALS2CR8: Amyotrophic 49.3 17 0.00037 32.6 3.1 19 77-95 71-89 (225)
30 PF04800 ETC_C1_NDUFA4: ETC co 45.9 16 0.00034 28.1 2.0 29 16-48 50-78 (101)
31 COG3464 Transposase and inacti 41.7 43 0.00094 33.1 4.8 70 252-328 169-238 (402)
32 PF08459 UvrC_HhH_N: UvrC Heli 41.0 92 0.002 26.1 6.0 43 276-318 55-103 (155)
33 PF11433 DUF3198: Protein of u 39.7 23 0.00049 22.6 1.6 44 345-389 6-49 (51)
34 smart00816 Amb_V_allergen Amb 35.1 27 0.00059 21.4 1.4 21 58-95 16-36 (45)
35 PRK00766 hypothetical protein; 33.7 2.1E+02 0.0045 25.0 7.2 27 294-320 99-128 (194)
36 PF03913 Amb_V_allergen: Amb V 33.0 30 0.00064 21.2 1.3 18 59-93 16-33 (44)
37 PF00292 PAX: 'Paired box' dom 32.6 30 0.00064 27.8 1.7 70 124-203 14-94 (125)
38 PTZ00072 40S ribosomal protein 31.5 51 0.0011 27.0 2.9 42 129-170 27-68 (148)
39 PF12762 DDE_Tnp_IS1595: ISXO2 30.4 1E+02 0.0022 25.4 4.8 33 269-306 54-86 (151)
40 PF12000 Glyco_trans_4_3: Gkyc 30.1 58 0.0013 27.8 3.2 45 278-324 52-97 (171)
41 PF07933 DUF1681: Protein of u 29.4 1.2E+02 0.0025 25.6 4.7 88 200-291 35-126 (160)
42 TIGR03147 cyt_nit_nrfF cytochr 26.8 54 0.0012 26.4 2.2 36 124-159 54-89 (126)
43 TIGR00334 5S_RNA_mat_M5 ribonu 25.0 99 0.0021 26.4 3.6 40 283-323 38-80 (174)
44 PF03462 PCRF: PCRF domain; I 24.4 2.1E+02 0.0045 22.5 5.2 38 24-61 65-102 (115)
45 PRK10144 formate-dependent nit 23.7 67 0.0015 25.8 2.3 36 124-159 54-89 (126)
46 PF09954 DUF2188: Uncharacteri 23.6 1.2E+02 0.0026 20.6 3.4 31 18-48 22-53 (62)
47 cd04659 Piwi_piwi-like_ProArk 23.6 1.8E+02 0.0039 28.8 5.8 95 235-329 192-298 (404)
48 PRK14669 uvrC excinuclease ABC 22.3 1.6E+02 0.0034 31.1 5.2 23 293-315 463-485 (624)
49 PRK12306 uvrC excinuclease ABC 21.4 1.6E+02 0.0034 30.3 4.9 26 293-318 433-458 (519)
50 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 21.4 89 0.0019 20.6 2.1 31 126-156 3-33 (50)
51 TIGR00194 uvrC excinuclease AB 21.0 1.6E+02 0.0034 30.7 5.0 43 274-316 426-472 (574)
52 PRK00558 uvrC excinuclease ABC 21.0 1.8E+02 0.0038 30.6 5.4 26 293-318 450-475 (598)
53 PF14398 ATPgrasp_YheCD: YheC/ 20.7 2.4E+02 0.0052 25.9 5.7 24 19-42 94-117 (262)
54 PF11460 DUF3007: Protein of u 20.5 2E+02 0.0044 22.2 4.1 39 413-451 53-91 (104)
55 KOG4027 Uncharacterized conser 20.2 2.9E+02 0.0063 23.1 5.2 36 238-273 70-108 (187)
No 1
>PLN03097 FHY3 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provisional
Probab=100.00 E-value=5.6e-84 Score=659.74 Aligned_cols=422 Identities=34% Similarity=0.654 Sum_probs=379.9
Q ss_pred CCcccCCCCCCccCCHHHHHHHHHHHhcccCeEEEEeceecCC-CCcEEEEEEEecCCCCcccccc----c---------
Q 046720 9 GESYEEARLGQEFVLLDDVHEFYNEYAKKVGFSVRINSSRKSH-RGEIVRKEYVCSKEGATTKEVV----E--------- 74 (455)
Q Consensus 9 ~~~~~~p~~g~~F~s~~e~~~~~~~ya~~~gf~i~~~~s~~~~-~~~~~~~~~~C~r~g~~~~~~~----~--------- 74 (455)
++...+|.+||+|+|.|||++||+.||...||+||+.+|++++ ++.++.++|+|+|+|+++...+ .
T Consensus 68 ~~~~~~P~vGMeF~S~eeA~~FYn~YA~~~GFsVRi~~srrsk~~~~ii~r~fvCsreG~~~~~~~~~~~~~~~~~k~~~ 147 (846)
T PLN03097 68 EDTNLEPLSGMEFESHGEAYSFYQEYARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKREYDKSFNRPRARQTKQDP 147 (846)
T ss_pred CCCCccCcCCCeECCHHHHHHHHHHHHhhcCceEEeeceeccCCCCcEEEEEEEEcCCCCCcccccccccccccccccCc
Confidence 4577899999999999999999999999999999999999887 7789999999999998643211 0
Q ss_pred --ccccccccccCCccEEEEEEccCCcEEEEEEecCCCCCCCCccccccccccCCCCHHHHHhHHHHhhcCCCcchhhHH
Q 046720 75 --KKRRCSKVREGCKAKLAVVKSKSGTYVVSVFEEDHNHPLTTPRRVHLLRSHRNVSEVKRSLTHQLAAANIPIHQQISV 152 (455)
Q Consensus 75 --~~r~~~s~~~gCpa~i~~~~~~~~~w~v~~~~~~HNH~~~~~~~~~~~~~~r~ls~~~~~~i~~l~~~g~~~~~I~~~ 152 (455)
.+++++.+|+||||+|.+++..+|+|.|+.+..+|||++.++... +. .++.++..
T Consensus 148 ~~~~~rR~~tRtGC~A~m~Vk~~~~gkW~V~~fv~eHNH~L~p~~~~---------~~--------------~~r~~~~~ 204 (846)
T PLN03097 148 ENGTGRRSCAKTDCKASMHVKRRPDGKWVIHSFVKEHNHELLPAQAV---------SE--------------QTRKMYAA 204 (846)
T ss_pred ccccccccccCCCCceEEEEEEcCCCeEEEEEEecCCCCCCCCcccc---------ch--------------hhhhhHHH
Confidence 012345689999999999987689999999999999999865321 11 12223333
Q ss_pred HhhccCCccccccccccccchhhhhccc-ccCCCHHHHHHHHHHhhhcCCCeEEEEeecCCCceeeeEecccccchhhhh
Q 046720 153 LELQGGGIQNIGCLGKDLYNDETKSKNK-VKGHDADMLLEHFQLEKEKNSAFTFTIESDNENRITHCFWADATSRRGYNS 231 (455)
Q Consensus 153 l~~~~g~~~~~~~t~~di~n~~~~~r~~-~~~~d~~~l~~~l~~~~~~~p~~~~~~~~d~~~~~~~i~~~~~~~~~~~~~ 231 (455)
+....++..++..+..|..|...+.|.. +..+|++.|++|+++++.+||+|+|.+++|+++++++|||+++.++..|..
T Consensus 205 ~~~~~~~~~~v~~~~~d~~~~~~~~r~~~~~~gD~~~ll~yf~~~q~~nP~Ffy~~qlDe~~~l~niFWaD~~sr~~Y~~ 284 (846)
T PLN03097 205 MARQFAEYKNVVGLKNDSKSSFDKGRNLGLEAGDTKILLDFFTQMQNMNSNFFYAVDLGEDQRLKNLFWVDAKSRHDYGN 284 (846)
T ss_pred HHhhhhccccccccchhhcchhhHHHhhhcccchHHHHHHHHHHHHhhCCCceEEEEEccCCCeeeEEeccHHHHHHHHh
Confidence 3344444556666667777776666644 788999999999999999999999999999999999999999999999999
Q ss_pred cCcEEEEeeeeccccCCceeeeEEEEeeCCcceeehhhhccCcchhhHHHHHHHHHHHCCCCCCceEecCcCHHHHHHHH
Q 046720 232 FGDVVVFDTTYNTNKYGMIFAPFIGVNNHGQTTVFACSFLSDETTESFVWLFEQFKKAMPGDLPKMIITDQDPAITKAIS 311 (455)
Q Consensus 232 ~~~v~~~D~t~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~p~~ii~D~~~~~~~ai~ 311 (455)
|||||.+|+||.+|+|++||+.|+|+|+||+++++|+||+.+|+.++|.|+|+.|++.|++..|.+||||++.++.+||.
T Consensus 285 FGDvV~fDTTY~tN~y~~Pfa~FvGvNhH~qtvlfGcaLl~dEt~eSf~WLf~tfl~aM~gk~P~tIiTDqd~am~~AI~ 364 (846)
T PLN03097 285 FSDVVSFDTTYVRNKYKMPLALFVGVNQHYQFMLLGCALISDESAATYSWLMQTWLRAMGGQAPKVIITDQDKAMKSVIS 364 (846)
T ss_pred cCCEEEEeceeeccccCcEEEEEEEecCCCCeEEEEEEEcccCchhhHHHHHHHHHHHhCCCCCceEEecCCHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhCCcCccchhhhHHHHHHHhhhcccCC--CCchhhHHhhhccCCCHHHHHHHHHHHHHHcCCCchHHHHHHHhhccccc
Q 046720 312 ETLPNTFHRYCIWHILNKFSDKIHAIKH--KDCYPDFQKCIWKSLSRDDFDRNWLEIIEKGKLRDNAWLKSVFEIRSKWV 389 (455)
Q Consensus 312 ~vfp~~~~~~C~~Hi~~~~~~~~~~~~~--~~~~~~~~~~~~~~~s~~~f~~~~~~~~~~~~~~~~~~l~~~~~~~~~W~ 389 (455)
+|||++.|++|.|||.+|+.+++..... +.+..+|.+||+.+.+++||+..|..|+++|++..++||..+|+.|++||
T Consensus 365 ~VfP~t~Hr~C~wHI~~~~~e~L~~~~~~~~~f~~~f~~cv~~s~t~eEFE~~W~~mi~ky~L~~n~WL~~LY~~RekWa 444 (846)
T PLN03097 365 EVFPNAHHCFFLWHILGKVSENLGQVIKQHENFMAKFEKCIYRSWTEEEFGKRWWKILDRFELKEDEWMQSLYEDRKQWV 444 (846)
T ss_pred HHCCCceehhhHHHHHHHHHHHhhHHhhhhhHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhcccccHHHHHHHHhHhhhh
Confidence 9999999999999999999999987643 78999999999999999999999999999999999999999999999999
Q ss_pred ccccccccccccccCCCcchhhhhhhcccCCCCCHHHHHHHHHHHHHHHHHHHHhchHhhhhhc
Q 046720 390 PACVNHVFSAGMSSSQRAESCHSFFKRYVSKKNSLLDFMIRFNRALNHQRHEELNANHADIMKN 453 (455)
Q Consensus 390 ~~~~~~~~~~~~~Ttn~~Es~n~~lk~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 453 (455)
++|+++.+++|+.||+++||+|+.||+++++.++|.+|+++|+.++..++++|++||++++++.
T Consensus 445 paY~k~~F~agm~sTqRSES~Ns~fk~yv~~~tsL~~Fv~qye~~l~~~~ekE~~aD~~s~~~~ 508 (846)
T PLN03097 445 PTYMRDAFLAGMSTVQRSESINAFFDKYVHKKTTVQEFVKQYETILQDRYEEEAKADSDTWNKQ 508 (846)
T ss_pred HHHhcccccCCcccccccccHHHHHHHHhCcCCCHHHHHHHHHHHHHHHHHHHHHhhhhcccCC
Confidence 9999999999999999999999999999999999999999999999999999999999998764
No 2
>PF00872 Transposase_mut: Transposase, Mutator family; InterPro: IPR001207 Autonomous mobile genetic elements such as transposon or insertion sequences (IS) encode an enzyme, transposase, that is required for excising and inserting the mobile element. Transposases have been grouped into various families [, , ]. The mutator family of transposases consists of a number of elements that include, mutator from maize, IsT2 from Thiobacillus ferrooxidans, Is256 from Staphylococcus aureus, Is1201 from Lactobacillus helveticus, Is1081 from Mycobacterium bovis, IsRm3 from Rhizobium meliloti and others. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated
Probab=99.91 E-value=1.7e-25 Score=216.46 Aligned_cols=256 Identities=15% Similarity=0.139 Sum_probs=201.2
Q ss_pred ccccCCCCHHHHHhHHHHhhcCCCcchhhHHHhhccCCccccccccccccchhhhhcccccCCCHHHHHHHHHHhhhcCC
Q 046720 122 LRSHRNVSEVKRSLTHQLAAANIPIHQQISVLELQGGGIQNIGCLGKDLYNDETKSKNKVKGHDADMLLEHFQLEKEKNS 201 (455)
Q Consensus 122 ~~~~r~ls~~~~~~i~~l~~~g~~~~~I~~~l~~~~g~~~~~~~t~~di~n~~~~~r~~~~~~d~~~l~~~l~~~~~~~p 201 (455)
++.+++.+....+.|..|...|++++.|.+.+...+|+ ..++...|.+.......+ +-++.
T Consensus 93 l~~y~r~~~~l~~~i~~ly~~G~Str~i~~~l~~l~g~---~~~S~s~vSri~~~~~~~--------~~~w~-------- 153 (381)
T PF00872_consen 93 LPKYQRREDSLEELIISLYLKGVSTRDIEEALEELYGE---VAVSKSTVSRITKQLDEE--------VEAWR-------- 153 (381)
T ss_pred cchhhhhhhhhhhhhhhhhccccccccccchhhhhhcc---cccCchhhhhhhhhhhhh--------HHHHh--------
Confidence 34455566777788899999999999999999888863 235555555544333322 11111
Q ss_pred CeEEEEeecCCCceeeeEecccccchhhhhc-CcEEEEeeeeccccC-----CceeeeEEEEeeCCcceeehhhhccCcc
Q 046720 202 AFTFTIESDNENRITHCFWADATSRRGYNSF-GDVVVFDTTYNTNKY-----GMIFAPFIGVNNHGQTTVFACSFLSDET 275 (455)
Q Consensus 202 ~~~~~~~~d~~~~~~~i~~~~~~~~~~~~~~-~~v~~~D~t~~~~~~-----~~~l~~~~~~~~~~~~~~~~~~~~~~e~ 275 (455)
..-+... -++|++||+|.+.+. +.++++++|+|.+|+..++|+.+...|+
T Consensus 154 ------------------------~R~L~~~~y~~l~iD~~~~kvr~~~~~~~~~~~v~iGi~~dG~r~vLg~~~~~~Es 209 (381)
T PF00872_consen 154 ------------------------NRPLESEPYPYLWIDGTYFKVREDGRVVKKAVYVAIGIDEDGRREVLGFWVGDRES 209 (381)
T ss_pred ------------------------hhccccccccceeeeeeecccccccccccchhhhhhhhhcccccceeeeecccCCc
Confidence 0111112 168999999997663 3578999999999999999999999999
Q ss_pred hhhHHHHHHHHHHHCCCCCCceEecCcCHHHHHHHHhhCCcCccchhhhHHHHHHHhhhcccCCCCchhhHHhhhccCCC
Q 046720 276 TESFVWLFEQFKKAMPGDLPKMIITDQDPAITKAISETLPNTFHRYCIWHILNKFSDKIHAIKHKDCYPDFQKCIWKSLS 355 (455)
Q Consensus 276 ~~~~~~~l~~~~~~~~~~~p~~ii~D~~~~~~~ai~~vfp~~~~~~C~~Hi~~~~~~~~~~~~~~~~~~~~~~~~~~~~s 355 (455)
..+|..+|+.|++. |...|..||+|+.+|+.+||.++||++.+|.|.+|+.+|+.+++.....+.+..+++. ++.+.+
T Consensus 210 ~~~W~~~l~~L~~R-Gl~~~~lvv~Dg~~gl~~ai~~~fp~a~~QrC~vH~~RNv~~~v~~k~~~~v~~~Lk~-I~~a~~ 287 (381)
T PF00872_consen 210 AASWREFLQDLKER-GLKDILLVVSDGHKGLKEAIREVFPGAKWQRCVVHLMRNVLRKVPKKDRKEVKADLKA-IYQAPD 287 (381)
T ss_pred cCEeeecchhhhhc-cccccceeeccccccccccccccccchhhhhheechhhhhccccccccchhhhhhccc-cccccc
Confidence 99999999999887 6667999999999999999999999999999999999999999988777888889987 789999
Q ss_pred HHHHHHHHHHHHHHcCCCchHHHHHHHhhc-ccccccccccccccccccCCCcchhhhhhhcccCCCC
Q 046720 356 RDDFDRNWLEIIEKGKLRDNAWLKSVFEIR-SKWVPACVNHVFSAGMSSSQRAESCHSFFKRYVSKKN 422 (455)
Q Consensus 356 ~~~f~~~~~~~~~~~~~~~~~~l~~~~~~~-~~W~~~~~~~~~~~~~~Ttn~~Es~n~~lk~~~~~~~ 422 (455)
.+++.+.++++.+++..+.++..+.|-... +.|+..-++...+..+.|||.+|++|+.+|+......
T Consensus 288 ~e~a~~~l~~f~~~~~~kyp~~~~~l~~~~~~~~tf~~fP~~~~~~i~TTN~iEsln~~irrr~~~~~ 355 (381)
T PF00872_consen 288 KEEAREALEEFAEKWEKKYPKAAKSLEENWDELLTFLDFPPEHRRSIRTTNAIESLNKEIRRRTKVVG 355 (381)
T ss_pred cchhhhhhhhcccccccccchhhhhhhhccccccceeeecchhccccchhhhccccccchhhhccccc
Confidence 999999999999988777666555543222 4444444677777778999999999999998665443
No 3
>PF10551 MULE: MULE transposase domain; InterPro: IPR018289 This entry represents a domain found in Mutator-like elements (MULE)-encoded tranposases, some of which also contain a zinc-finger motif [, ]. This domain is also found in a transposase for the insertion sequence element IS256 in transposon Tn4001 [].
Probab=99.88 E-value=1e-22 Score=157.64 Aligned_cols=90 Identities=39% Similarity=0.731 Sum_probs=86.2
Q ss_pred eeeccccCCceeee---EEEEeeCCcceeehhhhccCcchhhHHHHHHHHHHHCCCCCCceEecCcCHHHHHHHHhhCCc
Q 046720 240 TTYNTNKYGMIFAP---FIGVNNHGQTTVFACSFLSDETTESFVWLFEQFKKAMPGDLPKMIITDQDPAITKAISETLPN 316 (455)
Q Consensus 240 ~t~~~~~~~~~l~~---~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~p~~ii~D~~~~~~~ai~~vfp~ 316 (455)
|||++|+| ++++. ++|+|++|+++|+||+++.+|+.++|.|+|+.+++.++.. |.+||+|++.++++||+++||+
T Consensus 1 ~T~~tn~~-~~l~~~~~~~~~d~~~~~~~v~~~l~~~e~~~~~~~~l~~~~~~~~~~-p~~ii~D~~~~~~~Ai~~vfP~ 78 (93)
T PF10551_consen 1 GTYKTNKY-GPLLYLMIAVGIDGNGRGFPVAFALVSSESEESYEWFLEKLKEAMPQK-PKVIISDFDKALINAIKEVFPD 78 (93)
T ss_pred Cccccccc-cccceeceEEEEcCCCCEEEEEEEEEcCCChhhhHHHHHHhhhccccC-ceeeeccccHHHHHHHHHHCCC
Confidence 79999999 88875 9999999999999999999999999999999999998877 9999999999999999999999
Q ss_pred CccchhhhHHHHHHH
Q 046720 317 TFHRYCIWHILNKFS 331 (455)
Q Consensus 317 ~~~~~C~~Hi~~~~~ 331 (455)
+.|++|.||+.+|++
T Consensus 79 ~~~~~C~~H~~~n~k 93 (93)
T PF10551_consen 79 ARHQLCLFHILRNIK 93 (93)
T ss_pred ceEehhHHHHHHhhC
Confidence 999999999999984
No 4
>PF03101 FAR1: FAR1 DNA-binding domain; InterPro: IPR004330 Phytochrome A is the primary photoreceptor for mediating various far-red light-induced responses in higher plants. It has been found that the proteins governing this response, which include FAR-RED ELONGATED HYPOCOTYL3 (FHY3) and FAR-RED-IMPAIRED RESPONSE1 (FAR1), are a pair of homologous proteins sharing significant sequence homology to mutator-like transposases. These proteins appear to be novel transcription factors, which are essential for activating the expression of FHY1 and FHL (for FHY1-like) and related genes, whose products are required for light-induced phytochrome A nuclear accumulation and subsequent light responses in plants. The FRS (FAR1 Related Sequences) family of proteins share a similar domain structure to mutator-like transposases, including an N-terminal C2H2 zinc finger domain, a central putative core transposase domain, and a C-terminal SWIM motif (named after SWI2/SNF and MuDR transposases). It seems plausible that the FRS family represent transcription factors derived from mutator-like transposases [, ]. This entry represents a domain found in FAR1 and FRS proteins. It contains a WRKY like fold and is therefore most likely a zinc binding DNA-binding domain.
Probab=99.79 E-value=2.9e-19 Score=137.33 Aligned_cols=87 Identities=44% Similarity=0.793 Sum_probs=78.0
Q ss_pred HHHHHHhcccCeEEEEeceecCC-CCcEEEEEEEecCCCCccccccc---ccccccccccCCccEEEEEEccCCcEEEEE
Q 046720 29 EFYNEYAKKVGFSVRINSSRKSH-RGEIVRKEYVCSKEGATTKEVVE---KKRRCSKVREGCKAKLAVVKSKSGTYVVSV 104 (455)
Q Consensus 29 ~~~~~ya~~~gf~i~~~~s~~~~-~~~~~~~~~~C~r~g~~~~~~~~---~~r~~~s~~~gCpa~i~~~~~~~~~w~v~~ 104 (455)
+||+.||..+||+|++.+|++.+ +|.++++.|+|+++|.+...+.. +++++++.+|||||+|.+....+|.|.|..
T Consensus 1 ~fy~~yA~~~GF~vr~~~s~~~~~~~~~~~~~~~C~r~G~~~~~~~~~~~~~r~~~s~ktgC~a~i~v~~~~~~~w~v~~ 80 (91)
T PF03101_consen 1 DFYNSYARRHGFSVRKSSSRKSKKNGEIKRVTFVCSRGGKYKSKKKNEEKRRRNRPSKKTGCKARINVKRRKDGKWRVTS 80 (91)
T ss_pred CHHHHhcCcCCeEEEEeeeEeCCCCceEEEEEEEECCcccccccccccccccccccccccCCCEEEEEEEccCCEEEEEE
Confidence 48999999999999999999874 88899999999999999655554 458889999999999999998899999999
Q ss_pred EecCCCCCCCC
Q 046720 105 FEEDHNHPLTT 115 (455)
Q Consensus 105 ~~~~HNH~~~~ 115 (455)
+..+|||++.+
T Consensus 81 ~~~~HNH~L~P 91 (91)
T PF03101_consen 81 FVLEHNHPLCP 91 (91)
T ss_pred CcCCcCCCCCC
Confidence 99999999863
No 5
>COG3328 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=99.65 E-value=7.8e-16 Score=145.90 Aligned_cols=265 Identities=15% Similarity=0.087 Sum_probs=187.9
Q ss_pred cCCCCHHHHHhHHHHhhcCCCcchhhHHHhhccCCccccccccccccchhhhhcccccCCCHHHHHHHHHHhhhcCCCeE
Q 046720 125 HRNVSEVKRSLTHQLAAANIPIHQQISVLELQGGGIQNIGCLGKDLYNDETKSKNKVKGHDADMLLEHFQLEKEKNSAFT 204 (455)
Q Consensus 125 ~r~ls~~~~~~i~~l~~~g~~~~~I~~~l~~~~g~~~~~~~t~~di~n~~~~~r~~~~~~d~~~l~~~l~~~~~~~p~~~ 204 (455)
+++........|..+...|++++.+-..++..++. .+....+...- ..+.+.+...+.
T Consensus 82 ~~r~~~~~~~~v~~~y~~gv~Tr~i~~~~~~~~~~----~~s~~~iS~~~------------~~~~e~v~~~~~------ 139 (379)
T COG3328 82 YQRRERALDLPVLSMYAKGVTTREIEALLEELYGH----KVSPSVISVVT------------DRLDEKVKAWQN------ 139 (379)
T ss_pred hHhhhhhHHHHHHHHHHcCCcHHHHHHHHHHhhCc----ccCHHHhhhHH------------HHHHHHHHHHHh------
Confidence 34444555678889999999999999999887642 22222221111 112222222221
Q ss_pred EEEeecCCCceeeeEecccccchhhhhcCcEEEEeeeecccc--CCceeeeEEEEeeCCcceeehhhhccCcchhhHHHH
Q 046720 205 FTIESDNENRITHCFWADATSRRGYNSFGDVVVFDTTYNTNK--YGMIFAPFIGVNNHGQTTVFACSFLSDETTESFVWL 282 (455)
Q Consensus 205 ~~~~~d~~~~~~~i~~~~~~~~~~~~~~~~v~~~D~t~~~~~--~~~~l~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~ 282 (455)
+.+ .--+++++|++|.+-+ -+..+++++|++.+|+..++|+.+-..|+ ..|.-+
T Consensus 140 ---------------------r~l--~~~~~v~~D~~~~k~r~v~~~~~~ia~Gv~~eG~reilg~~~~~~e~-~~w~~~ 195 (379)
T COG3328 140 ---------------------RPL--GDYPYVYLDAKYVKVRSVRNKAVYIAIGVTEEGRREILGIWVGVRES-KFWLSF 195 (379)
T ss_pred ---------------------ccc--cCceEEEEecceeehhhhhhheeeeeeccCcccchhhhceeeecccc-hhHHHH
Confidence 111 1126899999999877 45699999999999999999999999999 889888
Q ss_pred HHHHHHHCCCCCCceEecCcCHHHHHHHHhhCCcCccchhhhHHHHHHHhhhcccCCCCchhhHHhhhccCCCHHHHHHH
Q 046720 283 FEQFKKAMPGDLPKMIITDQDPAITKAISETLPNTFHRYCIWHILNKFSDKIHAIKHKDCYPDFQKCIWKSLSRDDFDRN 362 (455)
Q Consensus 283 l~~~~~~~~~~~p~~ii~D~~~~~~~ai~~vfp~~~~~~C~~Hi~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~f~~~ 362 (455)
|..|+.. |......+++|+.+++.+||.++||.+.+++|..|+.+|+..+......+....++.. ++.+.+.++....
T Consensus 196 l~~l~~r-gl~~v~l~v~Dg~~gl~~aI~~v~p~a~~Q~C~vH~~Rnll~~v~~k~~d~i~~~~~~-I~~a~~~e~~~~~ 273 (379)
T COG3328 196 LLDLKNR-GLSDVLLVVVDGLKGLPEAISAVFPQAAVQRCIVHLVRNLLDKVPRKDQDAVLSDLRS-IYIAPDAEEALLA 273 (379)
T ss_pred HHHHHhc-cccceeEEecchhhhhHHHHHHhccHhhhhhhhhHHHhhhhhhhhhhhhHHHHhhhhh-hhccCCcHHHHHH
Confidence 8888776 4455667788999999999999999999999999999999999987666666666766 8889999999999
Q ss_pred HHHHHHHcCCCchHHHHHHHhh-cccccccccccccccccccCCCcchhhhhhhcccCC--CCCHHHHHHHHHHHHHH
Q 046720 363 WLEIIEKGKLRDNAWLKSVFEI-RSKWVPACVNHVFSAGMSSSQRAESCHSFFKRYVSK--KNSLLDFMIRFNRALNH 437 (455)
Q Consensus 363 ~~~~~~~~~~~~~~~l~~~~~~-~~~W~~~~~~~~~~~~~~Ttn~~Es~n~~lk~~~~~--~~~l~~~~~~~~~~~~~ 437 (455)
|..+.+.+....+.-+..+... .+.|...-++......+.|||.+|++|..++...+. ..|=.+.+..+...+-.
T Consensus 274 ~~~~~~~w~~~yP~i~~~~~~~~~~~~~F~~fp~~~r~~i~ttN~IE~~n~~ir~~~~~~~~fpn~~sv~k~~y~~~~ 351 (379)
T COG3328 274 LLAFSELWGKRYPAILKSWRNALEELLPFFAFPSEIRKIIYTTNAIESLNKLIRRRTKVVGIFPNEESVEKLVYLVLN 351 (379)
T ss_pred HHHHHHhhhhhcchHHHHHHHHHHHhcccccCcHHHHhHhhcchHHHHHHHHHHHHHhhhccCCCHHHHHHHHHHHHH
Confidence 9998887665544333322211 244544444444434578999999999998865544 34545555554444433
No 6
>PF08731 AFT: Transcription factor AFT; InterPro: IPR014842 AFT (activator of iron transcription) is an iron regulated transcriptional activator that regulates the expression of genes involved in iron homeostasis. This entry includes the paralogous pair of transcription factors AFT1 and AFT2.
Probab=99.51 E-value=1e-13 Score=104.76 Aligned_cols=87 Identities=22% Similarity=0.401 Sum_probs=74.8
Q ss_pred cCCHHHHHHHHHHHhcccCeEEEEeceecCCCCcEEEEEEEecCCCCccccccc-----------------------ccc
Q 046720 21 FVLLDDVHEFYNEYAKKVGFSVRINSSRKSHRGEIVRKEYVCSKEGATTKEVVE-----------------------KKR 77 (455)
Q Consensus 21 F~s~~e~~~~~~~ya~~~gf~i~~~~s~~~~~~~~~~~~~~C~r~g~~~~~~~~-----------------------~~r 77 (455)
|.+.+|++.|+++++..+||.|+|.+|+.. .++|.|.-+|.++..+.. +..
T Consensus 1 F~~k~~ikpwlq~~~~~~Gi~iVIerSd~~------ki~FkCk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~k 74 (111)
T PF08731_consen 1 FDDKDEIKPWLQKIFYPQGIGIVIERSDKK------KIVFKCKNGKRYRHKKKKKGQAQAQQKESTSGNKNKSSKKKKKK 74 (111)
T ss_pred CCchHHHHHHHHHHhhhcCceEEEEecCCc------eEEEEEecCCCcccccccccccccccccccccccccccccccCC
Confidence 889999999999999999999999999988 789999988877533321 113
Q ss_pred cccccccCCccEEEEEEcc-CCcEEEEEEecCCCCCC
Q 046720 78 RCSKVREGCKAKLAVVKSK-SGTYVVSVFEEDHNHPL 113 (455)
Q Consensus 78 ~~~s~~~gCpa~i~~~~~~-~~~w~v~~~~~~HNH~~ 113 (455)
.+.+.+++|||+|++.... .+.|.|..+++.|||++
T Consensus 75 ~t~srk~~CPFriRA~yS~k~k~W~lvvvnn~HnH~l 111 (111)
T PF08731_consen 75 RTKSRKNTCPFRIRANYSKKNKKWTLVVVNNEHNHPL 111 (111)
T ss_pred cccccccCCCeEEEEEEEecCCeEEEEEecCCcCCCC
Confidence 4557889999999999998 99999999999999985
No 7
>PF03108 DBD_Tnp_Mut: MuDR family transposase; InterPro: IPR004332 The plant MuDR transposase domain is present in plant proteins that are presumed to be the transposases for Mutator transposable elements [, ]. The function of these proteins is unknown. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=99.06 E-value=6.2e-10 Score=79.63 Aligned_cols=64 Identities=33% Similarity=0.557 Sum_probs=56.9
Q ss_pred CCCCCCccCCHHHHHHHHHHHhcccCeEEEEeceecCCCCcEEEEEEEecCCCCcccccccccccccccccCCccEEEEE
Q 046720 14 EARLGQEFVLLDDVHEFYNEYAKKVGFSVRINSSRKSHRGEIVRKEYVCSKEGATTKEVVEKKRRCSKVREGCKAKLAVV 93 (455)
Q Consensus 14 ~p~~g~~F~s~~e~~~~~~~ya~~~gf~i~~~~s~~~~~~~~~~~~~~C~r~g~~~~~~~~~~r~~~s~~~gCpa~i~~~ 93 (455)
.-.+||.|+|.+|++.++..||..++|.+++.+|.+. ++..+|... ||||+|+++
T Consensus 3 ~l~~G~~F~~~~e~k~av~~yai~~~~~~~v~ksd~~------r~~~~C~~~-------------------~C~Wrv~as 57 (67)
T PF03108_consen 3 ELEVGQTFPSKEEFKEAVREYAIKNGFEFKVKKSDKK------RYRAKCKDK-------------------GCPWRVRAS 57 (67)
T ss_pred ccccCCEECCHHHHHHHHHHHHHhcCcEEEEeccCCE------EEEEEEcCC-------------------CCCEEEEEE
Confidence 3468999999999999999999999999999999976 889999832 499999999
Q ss_pred Ecc-CCcEEE
Q 046720 94 KSK-SGTYVV 102 (455)
Q Consensus 94 ~~~-~~~w~v 102 (455)
..+ ++.|+|
T Consensus 58 ~~~~~~~~~I 67 (67)
T PF03108_consen 58 KRKRSDTFQI 67 (67)
T ss_pred EcCCCCEEEC
Confidence 998 787875
No 8
>PF01610 DDE_Tnp_ISL3: Transposase; InterPro: IPR002560 Autonomous mobile genetic elements such as transposon or insertion sequences (IS) encode an enzyme, transposase, that is required for excising and inserting the mobile element. Transposases have been grouped into various families [, , ]. This family includes the IS204 [], IS1001 [], IS1096 [] and IS1165 [] transposases. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated
Probab=97.45 E-value=9e-05 Score=68.25 Aligned_cols=94 Identities=15% Similarity=0.145 Sum_probs=67.8
Q ss_pred EEeeeeccccCCceeeeEEEEee--CCcceeehhhhccCcchhhHHHHHHHH-HHHCCCCCCceEecCcCHHHHHHHHhh
Q 046720 237 VFDTTYNTNKYGMIFAPFIGVNN--HGQTTVFACSFLSDETTESFVWLFEQF-KKAMPGDLPKMIITDQDPAITKAISET 313 (455)
Q Consensus 237 ~~D~t~~~~~~~~~l~~~~~~~~--~~~~~~~~~~~~~~e~~~~~~~~l~~~-~~~~~~~~p~~ii~D~~~~~~~ai~~v 313 (455)
+||=+........ |..+.+|- ++. .++ .++++-+.++...+|..+ -.. ....+++|++|...+...|+++.
T Consensus 2 giDE~~~~~g~~~--y~t~~~d~~~~~~-~il--~i~~~r~~~~l~~~~~~~~~~~-~~~~v~~V~~Dm~~~y~~~~~~~ 75 (249)
T PF01610_consen 2 GIDEFAFRKGHRS--YVTVVVDLDTDTG-RIL--DILPGRDKETLKDFFRSLYPEE-ERKNVKVVSMDMSPPYRSAIREY 75 (249)
T ss_pred eEeeeeeecCCcc--eeEEEEECccCCc-eEE--EEcCCccHHHHHHHHHHhCccc-cccceEEEEcCCCcccccccccc
Confidence 4564444332221 44455555 332 333 378899999988888876 222 33567889999999999999999
Q ss_pred CCcCccchhhhHHHHHHHhhhcc
Q 046720 314 LPNTFHRYCIWHILNKFSDKIHA 336 (455)
Q Consensus 314 fp~~~~~~C~~Hi~~~~~~~~~~ 336 (455)
||+|.+..-.|||.+++.+.+..
T Consensus 76 ~P~A~iv~DrFHvvk~~~~al~~ 98 (249)
T PF01610_consen 76 FPNAQIVADRFHVVKLANRALDK 98 (249)
T ss_pred ccccccccccchhhhhhhhcchh
Confidence 99999999999999999886553
No 9
>PF03106 WRKY: WRKY DNA -binding domain; InterPro: IPR003657 The WRKY domain is a 60 amino acid region that is defined by the conserved amino acid sequence WRKYGQK at its N-terminal end, together with a novel zinc-finger- like motif. The WRKY domain is found in one or two copies in a superfamily of plant transcription factors involved in the regulation of various physiological programs that are unique to plants, including pathogen defence, senescence, trichome development and the biosynthesis of secondary metabolites. The WRKY domain binds specifically to the DNA sequence motif (T)(T)TGAC(C/T), which is known as the W box. The invariant TGAC core of the W box is essential for function and WRKY binding []. Some proteins known to contain a WRKY domain include Arabidopsis thaliana ZAP1 (Zinc-dependent Activator Protein-1) and AtWRKY44/TTG2, a protein involved in trichome development and anthocyanin pigmentation; and wild oat ABF1-2, two proteins involved in the gibberelic acid-induced expression of the alpha-Amy2 gene. Structural studies indicate that this domain is a four-stranded beta-sheet with a zinc binding pocket, forming a novel zinc and DNA binding structure []. The WRKYGQK residues correspond to the most N-terminal beta-strand, which enables extensive hydrophobic interactions, contributing to the structural stability of the beta-sheet.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2AYD_A 1WJ2_A 2LEX_A.
Probab=96.94 E-value=0.0044 Score=42.56 Aligned_cols=55 Identities=31% Similarity=0.581 Sum_probs=39.7
Q ss_pred CeEEEEeceecCCCCcEEEEEEEecCCCCcccccccccccccccccCCccEEEEEEcc-CCcEEEEEEecCCCCC
Q 046720 39 GFSVRINSSRKSHRGEIVRKEYVCSKEGATTKEVVEKKRRCSKVREGCKAKLAVVKSK-SGTYVVSVFEEDHNHP 112 (455)
Q Consensus 39 gf~i~~~~s~~~~~~~~~~~~~~C~r~g~~~~~~~~~~r~~~s~~~gCpa~i~~~~~~-~~~w~v~~~~~~HNH~ 112 (455)
||.+|+--.+.-++....+-+|.|+.. ||||+=.+.+.. ++...++.+..+|||+
T Consensus 4 gy~WRKYGqK~i~g~~~pRsYYrCt~~-------------------~C~akK~Vqr~~~d~~~~~vtY~G~H~h~ 59 (60)
T PF03106_consen 4 GYRWRKYGQKNIKGSPYPRSYYRCTHP-------------------GCPAKKQVQRSADDPNIVIVTYEGEHNHP 59 (60)
T ss_dssp SS-EEEEEEEEETTTTCEEEEEEEECT-------------------TEEEEEEEEEETTCCCEEEEEEES--SS-
T ss_pred CCchhhccCcccCCCceeeEeeecccc-------------------ChhheeeEEEecCCCCEEEEEEeeeeCCC
Confidence 677776665554444466778999965 499999999887 7888888999999996
No 10
>PF06782 UPF0236: Uncharacterised protein family (UPF0236); InterPro: IPR009620 This is a group of proteins of unknown function.
Probab=96.54 E-value=0.13 Score=51.80 Aligned_cols=136 Identities=12% Similarity=0.131 Sum_probs=89.0
Q ss_pred CcchhhHHHHHHHHHHHCCCCCC--ceEecCcCHHHHHHHHhhCCcCccchhhhHHHHHHHhhhcccCCCCchhhHHhhh
Q 046720 273 DETTESFVWLFEQFKKAMPGDLP--KMIITDQDPAITKAISETLPNTFHRYCIWHILNKFSDKIHAIKHKDCYPDFQKCI 350 (455)
Q Consensus 273 ~e~~~~~~~~l~~~~~~~~~~~p--~~ii~D~~~~~~~ai~~vfp~~~~~~C~~Hi~~~~~~~~~~~~~~~~~~~~~~~~ 350 (455)
....+-|..+.+.+-+....... .++.+|+...+.+++. .+|++.+++..||+.+.+.+.++.. ++....+.+++
T Consensus 235 ~~~~~~~~~v~~~i~~~Y~~~~~~~iiingDGa~WIk~~~~-~~~~~~~~LD~FHl~k~i~~~~~~~--~~~~~~~~~al 311 (470)
T PF06782_consen 235 ESAEEFWEEVLDYIYNHYDLDKTTKIIINGDGASWIKEGAE-FFPKAEYFLDRFHLNKKIKQALSHD--PELKEKIRKAL 311 (470)
T ss_pred cchHHHHHHHHHHHHHhcCcccceEEEEeCCCcHHHHHHHH-hhcCceEEecHHHHHHHHHHHhhhC--hHHHHHHHHHH
Confidence 44566788777777666543333 3467899999988776 9999999999999999999998764 45666666656
Q ss_pred ccCCCHHHHHHHHHHHHHHcCCCc--------hHHHHHHHhhccccc--ccccccccccccccCCCcchhhhhhhcccCC
Q 046720 351 WKSLSRDDFDRNWLEIIEKGKLRD--------NAWLKSVFEIRSKWV--PACVNHVFSAGMSSSQRAESCHSFFKRYVSK 420 (455)
Q Consensus 351 ~~~~s~~~f~~~~~~~~~~~~~~~--------~~~l~~~~~~~~~W~--~~~~~~~~~~~~~Ttn~~Es~n~~lk~~~~~ 420 (455)
...+...++..++.+........ ..||. ..|- .+|... .|+......|+.+..+..++.+
T Consensus 312 -~~~d~~~l~~~L~~~~~~~~~~~~~~~i~~~~~Yl~------~n~~~i~~y~~~---~~~~g~g~ee~~~~~~s~RmK~ 381 (470)
T PF06782_consen 312 -KKGDKKKLETVLDTAESCAKDEEERKKIRKLRKYLL------NNWDGIKPYRER---EGLRGIGAEESVSHVLSYRMKS 381 (470)
T ss_pred -HhcCHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHH------HCHHHhhhhhhc---cCCCccchhhhhhhHHHHHhcC
Confidence 34577888777776665432111 22333 3342 222211 3334444578888888877755
Q ss_pred C
Q 046720 421 K 421 (455)
Q Consensus 421 ~ 421 (455)
+
T Consensus 382 r 382 (470)
T PF06782_consen 382 R 382 (470)
T ss_pred C
Confidence 4
No 11
>PF13610 DDE_Tnp_IS240: DDE domain
Probab=96.20 E-value=0.0043 Score=51.43 Aligned_cols=81 Identities=25% Similarity=0.321 Sum_probs=68.4
Q ss_pred CcEEEEeeeeccccCCceeeeEEEEeeCCcceeehhhhccCcchhhHHHHHHHHHHHCCCCCCceEecCcCHHHHHHHHh
Q 046720 233 GDVVVFDTTYNTNKYGMIFAPFIGVNNHGQTTVFACSFLSDETTESFVWLFEQFKKAMPGDLPKMIITDQDPAITKAISE 312 (455)
Q Consensus 233 ~~v~~~D~t~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~p~~ii~D~~~~~~~ai~~ 312 (455)
|+.|.+|-||..-+ |-..++...+|.+|. ++.+-+...-+..+=..||..+++..+ ..|..|+||+.++...|+++
T Consensus 1 ~~~w~~DEt~iki~-G~~~yl~~aiD~~~~--~l~~~ls~~Rd~~aA~~Fl~~~l~~~~-~~p~~ivtDk~~aY~~A~~~ 76 (140)
T PF13610_consen 1 GDSWHVDETYIKIK-GKWHYLWRAIDAEGN--ILDFYLSKRRDTAAAKRFLKRALKRHR-GEPRVIVTDKLPAYPAAIKE 76 (140)
T ss_pred CCEEEEeeEEEEEC-CEEEEEEEeeccccc--chhhhhhhhcccccceeeccccceeec-cccceeecccCCccchhhhh
Confidence 57899999998754 346677888999998 888888888888888888888877654 68999999999999999999
Q ss_pred hCCcC
Q 046720 313 TLPNT 317 (455)
Q Consensus 313 vfp~~ 317 (455)
..|..
T Consensus 77 l~~~~ 81 (140)
T PF13610_consen 77 LNPEG 81 (140)
T ss_pred ccccc
Confidence 99974
No 12
>PF04500 FLYWCH: FLYWCH zinc finger domain; InterPro: IPR007588 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a potential FLYWCH Zn-finger domain found in a number of eukaryotic proteins. FLYWCH is a C2H2-type zinc finger characterised by five conserved hydrophobic residues, containing the conserved sequence motif: F/Y-X(n)-L-X(n)-F/Y-X(n)-WXCX(6-12)CX(17-22)HXH where X indicates any amino acid. This domain was first characterised in Drosophila Modifier of mdg4 proteins, Mod(mgd4), putative chromatin modulators involved in higher order chromatin domains. Mod(mdg4) proteins share a common N-terminal BTB/POZ domain, but differ in their C-terminal region, most containing C-terminal FLYWCH zinc finger motifs []. The FLYWCH domain in Mod(mdg4) proteins has a putative role in protein-protein interactions; for example, Mod(mdg4)-67.2 interacts with DNA-binding protein Su(Hw) via its FLYWCH domain. FLYWCH domains have been described in other proteins as well, including suppressor of killer of prune, Su(Kpn), which contains 4 terminal FLYWCH zinc finger motifs in a tandem array and a C-terminal glutathione SH-transferase (GST) domain []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2RPR_A.
Probab=95.33 E-value=0.04 Score=38.17 Aligned_cols=49 Identities=27% Similarity=0.516 Sum_probs=23.9
Q ss_pred cCeEEEEeceecCCCCcEEEEEEEecCCCCcccccccccccccccccCCccEEEEEEccCCcEEEEEEecCCCC
Q 046720 38 VGFSVRINSSRKSHRGEIVRKEYVCSKEGATTKEVVEKKRRCSKVREGCKAKLAVVKSKSGTYVVSVFEEDHNH 111 (455)
Q Consensus 38 ~gf~i~~~~s~~~~~~~~~~~~~~C~r~g~~~~~~~~~~r~~~s~~~gCpa~i~~~~~~~~~w~v~~~~~~HNH 111 (455)
.||.+...+.... ...+.|.+... .+|+|++.+. .+.-.+.....+|||
T Consensus 14 ~Gy~y~~~~~~~~------~~~WrC~~~~~----------------~~C~a~~~~~---~~~~~~~~~~~~HnH 62 (62)
T PF04500_consen 14 DGYRYYFNKRNDG------KTYWRCSRRRS----------------HGCRARLITD---AGDGRVVRTNGEHNH 62 (62)
T ss_dssp TTEEEEEEEE-SS-------EEEEEGGGTT----------------S----EEEEE-----TTEEEE-S---SS
T ss_pred CCeEEECcCCCCC------cEEEEeCCCCC----------------CCCeEEEEEE---CCCCEEEECCCccCC
Confidence 4666666555522 56888986542 4799999998 233345555688998
No 13
>smart00774 WRKY DNA binding domain. The WRKY domain is a DNA binding domain found in one or two copies in a superfamily of plant transcription factors. These transcription factors are involved in the regulation of various physiological programs that are unique to plants, including pathogen defense, senescence and trichome development. The domain is a 60 amino acid region that is defined by the conserved amino acid sequence WRKYGQK at its N-terminal end, together with a novel zinc-finger-like motif. It binds specifically to the DNA sequence motif (T)(T)TGAC(C/T), which is known as the W box. The invariant TGAC core is essential for function and WRKY binding.
Probab=95.28 E-value=0.038 Score=37.64 Aligned_cols=55 Identities=27% Similarity=0.490 Sum_probs=38.6
Q ss_pred CeEEEEeceecCCCCcEEEEEEEecCCCCcccccccccccccccccCCccEEEEEEcc-CCcEEEEEEecCCCC
Q 046720 39 GFSVRINSSRKSHRGEIVRKEYVCSKEGATTKEVVEKKRRCSKVREGCKAKLAVVKSK-SGTYVVSVFEEDHNH 111 (455)
Q Consensus 39 gf~i~~~~s~~~~~~~~~~~~~~C~r~g~~~~~~~~~~r~~~s~~~gCpa~i~~~~~~-~~~w~v~~~~~~HNH 111 (455)
||.+|+--.+..+.....+-+|.|+.. .||||+=.+.... ++.-.++.+..+|||
T Consensus 4 Gy~WRKYGQK~ikgs~~pRsYYrCt~~------------------~~C~a~K~Vq~~~~d~~~~~vtY~g~H~h 59 (59)
T smart00774 4 GYQWRKYGQKVIKGSPFPRSYYRCTYS------------------QGCPAKKQVQRSDDDPSVVEVTYEGEHTH 59 (59)
T ss_pred cccccccCcEecCCCcCcceEEecccc------------------CCCCCcccEEEECCCCCEEEEEEeeEeCC
Confidence 555665444444433455668899872 1699987777776 777888888999998
No 14
>PF04684 BAF1_ABF1: BAF1 / ABF1 chromatin reorganising factor; InterPro: IPR006774 ABF1 is a sequence-specific DNA binding protein involved in transcription activation, gene silencing and initiation of DNA replication. ABF1 is known to remodel chromatin, and it is proposed that it mediates its effects on transcription and gene expression by modifying local chromatin architecture []. These functions require a conserved stretch of 20 amino acids in the C-terminal region of ABF1 (amino acids 639 to 662 Saccharomyces cerevisiae (P14164 from SWISSPROT)) []. The N-terminal two thirds of the protein are necessary for DNA binding, and the N terminus (amino acids 9 to 91 in S. cerevisiae) is thought to contain a novel zinc-finger motif which may stabilise the protein structure [].; GO: 0003677 DNA binding, 0006338 chromatin remodeling, 0005634 nucleus
Probab=93.77 E-value=0.15 Score=49.33 Aligned_cols=55 Identities=15% Similarity=0.338 Sum_probs=48.3
Q ss_pred CCccCCHHHHHHHHHHHhcccCeEEEEeceecCCCCcEEEEEEEecCCCCcccccccccccccccccCCccEEEEEEcc
Q 046720 18 GQEFVLLDDVHEFYNEYAKKVGFSVRINSSRKSHRGEIVRKEYVCSKEGATTKEVVEKKRRCSKVREGCKAKLAVVKSK 96 (455)
Q Consensus 18 g~~F~s~~e~~~~~~~ya~~~gf~i~~~~s~~~~~~~~~~~~~~C~r~g~~~~~~~~~~r~~~s~~~gCpa~i~~~~~~ 96 (455)
+..|+|+++-|..+++|.-...-.|+..+|-+++ .++|.|... +|||+|.+...+
T Consensus 25 ~~~f~tl~~wy~v~ndyefq~rcpiilknsh~nk-----hftfachlk-------------------~c~fkillsy~g 79 (496)
T PF04684_consen 25 ARKFPTLEAWYNVINDYEFQSRCPIILKNSHRNK-----HFTFACHLK-------------------NCPFKILLSYCG 79 (496)
T ss_pred ccCCCcHHHHHHHHhhhhhhhcCceeeccccccc-----ceEEEeecc-------------------CCCceeeeeecc
Confidence 5789999999999999999999999998888773 779999974 499999998874
No 15
>PF00665 rve: Integrase core domain; InterPro: IPR001584 Integrase comprises three domains capable of folding independently and whose three-dimensional structures are known. However, the manner in which the N-terminal, catalytic, and C-terminal domains interact in the holoenzyme remains obscure. Numerous studies indicate that the enzyme functions as a multimer, minimally a dimer. The integrase proteins from Human immunodeficiency virus 1 (HIV-1) and Avian sarcoma virus (ASV) have been studied most carefully with respect to the structural basis of catalysis. Although the active site of ASV integrase does not undergo significant conformational changes on binding the required metal cofactor, that of HIV-1 does. This active site-mediated conformational change in HIV-1 reorganises the catalytic core and C-terminal domains and appears to promote an interaction that is favourable for catalysis []. Retroviral integrase is synthesised as part of the POL polyprotein that contains; an aspartyl protease, a reverse transcriptase, RNase H and integrase. POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. The presence of retrovirus integrase-related gene sequences in eukaryotes is known. Bacterial transposases involved in the transposition of the insertion sequence also belong to this group. HIV integrase catalyses the incorporation of virally derived DNA into the human genome. This unique step in the virus life cycle provides a variety of points for intervention and hence is an attractive target for the development of new therapeutics for the treatment of AIDS []. Substrate recognition by the retroviral integrase enzyme is critical for retroviral integration. To catalyse this recombination event, integrase must recognise and act on two types of substrates, viral DNA and host DNA, yet the necessary interactions exhibit markedly different degrees of specificity [].; GO: 0015074 DNA integration; PDB: 3AO3_A 3OVN_A 3AO5_A 3AO4_A 3AO1_A 1C6V_D 3HPG_A 3HPH_A 3OYD_A 3OYF_B ....
Probab=92.01 E-value=0.54 Score=37.29 Aligned_cols=76 Identities=20% Similarity=0.213 Sum_probs=53.2
Q ss_pred CcEEEEeeeecc-ccCCceeeeEEEEeeCCcceeehhhhccCcchhhHHHHHHHHHHHCCCCCCceEecCcCHHHHHH
Q 046720 233 GDVVVFDTTYNT-NKYGMIFAPFIGVNNHGQTTVFACSFLSDETTESFVWLFEQFKKAMPGDLPKMIITDQDPAITKA 309 (455)
Q Consensus 233 ~~v~~~D~t~~~-~~~~~~l~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~p~~ii~D~~~~~~~a 309 (455)
++.+.+|.+... ...+...+.++.+|..-+ ..+++.+...++.+.+..+|.......+...|.+|++|...+..+.
T Consensus 6 ~~~~~~D~~~~~~~~~~~~~~~~~~iD~~S~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~p~~i~tD~g~~f~~~ 82 (120)
T PF00665_consen 6 GERWQIDFTPMPIPDKGGRVYLLVFIDDYSR-FIYAFPVSSKETAEAALRALKRAIEKRGGRPPRVIRTDNGSEFTSH 82 (120)
T ss_dssp TTEEEEEEEEETGGCTT-CEEEEEEEETTTT-EEEEEEESSSSHHHHHHHHHHHHHHHHS-SE-SEEEEESCHHHHSH
T ss_pred CCEEEEeeEEEecCCCCccEEEEEEEECCCC-cEEEEEeecccccccccccccccccccccccceecccccccccccc
Confidence 378899988554 334457777788877754 4456666777788888888887666656555999999999987643
No 16
>PF03050 DDE_Tnp_IS66: Transposase IS66 family ; InterPro: IPR004291 Transposase proteins are necessary for efficient DNA transposition. This family includes the bacterial insertion sequence (IS) element, IS66, from Agrobacterium tumefaciens []. IS66 may cause genetic and structural variations of the T region and the vir region of the octopine Ti plasmids []. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=89.27 E-value=0.43 Score=44.43 Aligned_cols=85 Identities=19% Similarity=0.226 Sum_probs=54.1
Q ss_pred cEEEEeeeecc----ccCC-ceeeeEEEEeeCCcceeehhhhccCcchhhHHHHHHHHHHHCCCCCCceEecCcCHHHHH
Q 046720 234 DVVVFDTTYNT----NKYG-MIFAPFIGVNNHGQTTVFACSFLSDETTESFVWLFEQFKKAMPGDLPKMIITDQDPAITK 308 (455)
Q Consensus 234 ~v~~~D~t~~~----~~~~-~~l~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~p~~ii~D~~~~~~~ 308 (455)
+++.+|-|.-. .+.. .-+.++. +.. .+.|.+..+-..+....+|. + ...++++|+-.+...
T Consensus 68 ~~~~~DET~~~vl~~~~g~~~~~Wv~~--~~~----~v~f~~~~sR~~~~~~~~L~-------~-~~GilvsD~y~~Y~~ 133 (271)
T PF03050_consen 68 PVVHADETGWRVLDKGKGKKGYLWVFV--SPE----VVLFFYAPSRSSKVIKEFLG-------D-FSGILVSDGYSAYNK 133 (271)
T ss_pred ceeccCCceEEEeccccccceEEEeee--ccc----eeeeeecccccccchhhhhc-------c-cceeeeccccccccc
Confidence 56777766554 3322 2233332 222 44555666666666555543 2 335899999888654
Q ss_pred HHHhhCCcCccchhhhHHHHHHHhhhccc
Q 046720 309 AISETLPNTFHRYCIWHILNKFSDKIHAI 337 (455)
Q Consensus 309 ai~~vfp~~~~~~C~~Hi~~~~~~~~~~~ 337 (455)
+.++.|+.|+.|+.|.+.......
T Consensus 134 -----~~~~~hq~C~AH~~R~~~~~~~~~ 157 (271)
T PF03050_consen 134 -----LAGITHQLCWAHLRRDFQDAAESD 157 (271)
T ss_pred -----cccccccccccccccccccccccc
Confidence 238999999999999998877764
No 17
>PF04937 DUF659: Protein of unknown function (DUF 659); InterPro: IPR007021 These are transposase-like proteins with no known function.
Probab=87.38 E-value=3.7 Score=34.41 Aligned_cols=109 Identities=18% Similarity=0.265 Sum_probs=74.3
Q ss_pred chhhhhcCcEEEEeeeeccccCCceeeeEEEEeeCCcceeehhhh-ccCcchhhHHHHHHHHHHHCCCCCCceEecCcCH
Q 046720 226 RRGYNSFGDVVVFDTTYNTNKYGMIFAPFIGVNNHGQTTVFACSF-LSDETTESFVWLFEQFKKAMPGDLPKMIITDQDP 304 (455)
Q Consensus 226 ~~~~~~~~~v~~~D~t~~~~~~~~~l~~~~~~~~~~~~~~~~~~~-~~~e~~~~~~~~l~~~~~~~~~~~p~~ii~D~~~ 304 (455)
++.+..+|-.|..||= ++..+.+++.|+.....|-.+.=..-. -...+.+....+|+...+.+|......||||...
T Consensus 26 k~~w~~~Gcsi~~DgW--td~~~~~lInf~v~~~~g~~Flksvd~s~~~~~a~~l~~ll~~vIeeVG~~nVvqVVTDn~~ 103 (153)
T PF04937_consen 26 KKSWKRTGCSIMSDGW--TDRKGRSLINFMVYCPEGTVFLKSVDASSIIKTAEYLFELLDEVIEEVGEENVVQVVTDNAS 103 (153)
T ss_pred HHHHHhcCEEEEEecC--cCCCCCeEEEEEEEcccccEEEEEEecccccccHHHHHHHHHHHHHHhhhhhhhHHhccCch
Confidence 3455666777778876 344556777777666655444322111 1224566677777777777776666678999998
Q ss_pred HHHHH---HHhhCCcCccchhhhHHHHHHHhhhcc
Q 046720 305 AITKA---ISETLPNTFHRYCIWHILNKFSDKIHA 336 (455)
Q Consensus 305 ~~~~a---i~~vfp~~~~~~C~~Hi~~~~~~~~~~ 336 (455)
....| +.+-+|......|.-|-..-+.+.+.+
T Consensus 104 ~~~~a~~~L~~k~p~ifw~~CaaH~inLmledi~k 138 (153)
T PF04937_consen 104 NMKKAGKLLMEKYPHIFWTPCAAHCINLMLEDIGK 138 (153)
T ss_pred hHHHHHHHHHhcCCCEEEechHHHHHHHHHHHHhc
Confidence 87777 445678888889999999888887775
No 18
>COG3316 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=86.80 E-value=1.3 Score=38.88 Aligned_cols=82 Identities=17% Similarity=0.221 Sum_probs=58.4
Q ss_pred CcEEEEeeeeccccCCceeeeEEEEeeCCcceeehhhhccCcchhhHHHHHHHHHHHCCCCCCceEecCcCHHHHHHHHh
Q 046720 233 GDVVVFDTTYNTNKYGMIFAPFIGVNNHGQTTVFACSFLSDETTESFVWLFEQFKKAMPGDLPKMIITDQDPAITKAISE 312 (455)
Q Consensus 233 ~~v~~~D~t~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~p~~ii~D~~~~~~~ai~~ 312 (455)
++.+-+|=||.+.+.+. .+.-..+|.+| .++.+-+...-+...=..||..+++.. ..|.+|+||+.+....|+.+
T Consensus 70 ~~~w~vDEt~ikv~gkw-~ylyrAid~~g--~~Ld~~L~~rRn~~aAk~Fl~kllk~~--g~p~v~vtDka~s~~~A~~~ 144 (215)
T COG3316 70 GDSWRVDETYIKVNGKW-HYLYRAIDADG--LTLDVWLSKRRNALAAKAFLKKLLKKH--GEPRVFVTDKAPSYTAALRK 144 (215)
T ss_pred ccceeeeeeEEeeccEe-eehhhhhccCC--CeEEEEEEcccCcHHHHHHHHHHHHhc--CCCceEEecCccchHHHHHh
Confidence 36788999988755332 23334456654 455556666666666677777777765 57999999999999999999
Q ss_pred hCCcCcc
Q 046720 313 TLPNTFH 319 (455)
Q Consensus 313 vfp~~~~ 319 (455)
+-+...|
T Consensus 145 l~~~~eh 151 (215)
T COG3316 145 LGSEVEH 151 (215)
T ss_pred cCcchhe
Confidence 9885443
No 19
>PHA02517 putative transposase OrfB; Reviewed
Probab=78.96 E-value=8.2 Score=35.88 Aligned_cols=73 Identities=14% Similarity=-0.040 Sum_probs=49.1
Q ss_pred CcEEEEeeeeccccCCceeeeEEEEeeCCcceeehhhhccCcchhhHHHHHHHHHHHCCCCCCceEecCcCHHHH
Q 046720 233 GDVVVFDTTYNTNKYGMIFAPFIGVNNHGQTTVFACSFLSDETTESFVWLFEQFKKAMPGDLPKMIITDQDPAIT 307 (455)
Q Consensus 233 ~~v~~~D~t~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~p~~ii~D~~~~~~ 307 (455)
..++..|-|+..... +..++.+.+|.. ...++|+.+....+.+....+|+......+...+.+|.||......
T Consensus 110 n~~w~~D~t~~~~~~-g~~yl~~iiD~~-sr~i~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~i~~sD~G~~y~ 182 (277)
T PHA02517 110 NQLWVADFTYVSTWQ-GWVYVAFIIDVF-ARRIVGWRVSSSMDTDFVLDALEQALWARGRPGGLIHHSDKGSQYV 182 (277)
T ss_pred CCeEEeceeEEEeCC-CCEEEEEecccC-CCeeeecccCCCCChHHHHHHHHHHHHhcCCCcCcEeecccccccc
Confidence 378999999875443 345666666665 4566778888888888777777666555453334567799877543
No 20
>PRK14702 insertion element IS2 transposase InsD; Provisional
Probab=64.03 E-value=29 Score=32.06 Aligned_cols=71 Identities=8% Similarity=-0.023 Sum_probs=48.1
Q ss_pred cEEEEeeeeccccCCceeeeEEEEeeCCcceeehhhhccC-cchhhHHHHHHHHHHH-CC---CCCCceEecCcCHH
Q 046720 234 DVVVFDTTYNTNKYGMIFAPFIGVNNHGQTTVFACSFLSD-ETTESFVWLFEQFKKA-MP---GDLPKMIITDQDPA 305 (455)
Q Consensus 234 ~v~~~D~t~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~-e~~~~~~~~l~~~~~~-~~---~~~p~~ii~D~~~~ 305 (455)
.++..|-||.....+..++..+.+|...+ .++||.+... .+.+....+|+...+. .+ ...|.+|.||....
T Consensus 88 ~~W~~DiT~~~~~~g~~~Yl~~viD~~sR-~ivg~~is~~~~~~~~v~~~l~~A~~~~~~~~~~~~~~iihSD~Gsq 163 (262)
T PRK14702 88 QRWCSDGFEFCCDNGERLRVTFALDCCDR-EALHWAVTTGGFNSETVQDVMLGAVERRFGNDLPSSPVEWLTDNGSC 163 (262)
T ss_pred CEEEeeeEEEEecCCcEEEEEEEEecccc-eeeeEEeccCcCCHHHHHHHHHHHHHHHhcccCCCCCeEEEcCCCcc
Confidence 78899988876555556888888887765 6778888774 5666555566544333 22 23577889998654
No 21
>PRK09409 IS2 transposase TnpB; Reviewed
Probab=63.16 E-value=30 Score=32.66 Aligned_cols=71 Identities=8% Similarity=-0.006 Sum_probs=49.2
Q ss_pred cEEEEeeeeccccCCceeeeEEEEeeCCcceeehhhhccC-cchhhHHHHHHHHH-HHCCC---CCCceEecCcCHH
Q 046720 234 DVVVFDTTYNTNKYGMIFAPFIGVNNHGQTTVFACSFLSD-ETTESFVWLFEQFK-KAMPG---DLPKMIITDQDPA 305 (455)
Q Consensus 234 ~v~~~D~t~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~-e~~~~~~~~l~~~~-~~~~~---~~p~~ii~D~~~~ 305 (455)
.+++.|-||.....+.-++..+.+|...+ .++||.+... .+.+....+|+... ...+. ..|.+|-||+...
T Consensus 127 ~~W~tDiT~~~~~~g~~~Yl~~ViD~~sR-~ivg~~~s~~~~~~~~v~~~l~~a~~~~~~~~~~~~~~iihSDrGsq 202 (301)
T PRK09409 127 QRWCSDGFEFCCDNGERLRVTFALDCCDR-EALHWAVTTGGFNSETVQDVMLGAVERRFGNDLPSSPVEWLTDNGSC 202 (301)
T ss_pred CEEEeeeEEEEeCCCCEEEEEEEeecccc-eEEEEEeccCCCCHHHHHHHHHHHHHHHhccCCCCCCcEEecCCCcc
Confidence 78999999976555556888888887765 6788888876 56666666666443 33232 3466889997654
No 22
>PRK13907 rnhA ribonuclease H; Provisional
Probab=59.70 E-value=88 Score=24.92 Aligned_cols=79 Identities=10% Similarity=-0.073 Sum_probs=42.1
Q ss_pred EEEEeeeeccccCCceeeeEEEEeeCCcceeehhhhccCcchhhHHHHHHHHHHHCCC-CCCceEecCcCHHHHHHHHhh
Q 046720 235 VVVFDTTYNTNKYGMIFAPFIGVNNHGQTTVFACSFLSDETTESFVWLFEQFKKAMPG-DLPKMIITDQDPAITKAISET 313 (455)
Q Consensus 235 v~~~D~t~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~-~~p~~ii~D~~~~~~~ai~~v 313 (455)
.|.+||.++.+.-..-... +..+..|....-+..-..+.....+.-++..+...... ..+..|.+|. ..+.+++...
T Consensus 3 ~iy~DGa~~~~~g~~G~G~-vi~~~~~~~~~~~~~~~~tn~~AE~~All~aL~~a~~~g~~~v~i~sDS-~~vi~~~~~~ 80 (128)
T PRK13907 3 EVYIDGASKGNPGPSGAGV-FIKGVQPAVQLSLPLGTMSNHEAEYHALLAALKYCTEHNYNIVSFRTDS-QLVERAVEKE 80 (128)
T ss_pred EEEEeeCCCCCCCccEEEE-EEEECCeeEEEEecccccCCcHHHHHHHHHHHHHHHhCCCCEEEEEech-HHHHHHHhHH
Confidence 4789999987753332222 22444443221111112334455566777777665432 3345566765 6677777776
Q ss_pred CC
Q 046720 314 LP 315 (455)
Q Consensus 314 fp 315 (455)
+.
T Consensus 81 ~~ 82 (128)
T PRK13907 81 YA 82 (128)
T ss_pred Hh
Confidence 63
No 23
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=59.36 E-value=4.6 Score=25.66 Aligned_cols=30 Identities=13% Similarity=0.204 Sum_probs=14.4
Q ss_pred cCCCCHHHHHhHHHHhhcCCCcchhhHHHh
Q 046720 125 HRNVSEVKRSLTHQLAAANIPIHQQISVLE 154 (455)
Q Consensus 125 ~r~ls~~~~~~i~~l~~~g~~~~~I~~~l~ 154 (455)
.+.|+.+++..|..+.+.|.+..+|.+.+.
T Consensus 2 ~~~Lt~~eR~~I~~l~~~G~s~~~IA~~lg 31 (44)
T PF13936_consen 2 YKHLTPEERNQIEALLEQGMSIREIAKRLG 31 (44)
T ss_dssp ----------HHHHHHCS---HHHHHHHTT
T ss_pred ccchhhhHHHHHHHHHHcCCCHHHHHHHHC
Confidence 457889999999999999999888877764
No 24
>PF14201 DUF4318: Domain of unknown function (DUF4318)
Probab=54.65 E-value=41 Score=24.22 Aligned_cols=42 Identities=21% Similarity=0.288 Sum_probs=31.6
Q ss_pred CccCCHHHHHHHHHHHhcccCeEEEEeceecC---C-CCcEEEEEE
Q 046720 19 QEFVLLDDVHEFYNEYAKKVGFSVRINSSRKS---H-RGEIVRKEY 60 (455)
Q Consensus 19 ~~F~s~~e~~~~~~~ya~~~gf~i~~~~s~~~---~-~~~~~~~~~ 60 (455)
..|+|.+++..++..|+.++|-++..-+.... . +|..+.+..
T Consensus 12 ~~yPs~e~i~~aIE~YC~~~~~~l~Fisr~~Pi~~~idg~lYev~i 57 (74)
T PF14201_consen 12 PKYPSKEEICEAIEKYCIKNGESLEFISRDKPITFKIDGVLYEVEI 57 (74)
T ss_pred CCCCCHHHHHHHHHHHHHHcCCceEEEecCCcEEEEECCeEEEEEE
Confidence 45899999999999999999988876655542 1 665555544
No 25
>PF08069 Ribosomal_S13_N: Ribosomal S13/S15 N-terminal domain; InterPro: IPR012606 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found at the N terminus of ribosomal S13 and S15 proteins. This domain is also identified as NUC021 [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3U5C_N 3O30_G 3IZB_O 3O2Z_G 3U5G_N 2XZN_O 2XZM_O 3IZ6_O.
Probab=51.65 E-value=10 Score=25.91 Aligned_cols=29 Identities=28% Similarity=0.159 Sum_probs=25.4
Q ss_pred HHHHHhHHHHhhcCCCcchhhHHHhhccC
Q 046720 130 EVKRSLTHQLAAANIPIHQQISVLELQGG 158 (455)
Q Consensus 130 ~~~~~~i~~l~~~g~~~~~I~~~l~~~~g 158 (455)
++..+.|..|.+.|++|++|--+|++++|
T Consensus 31 ~eVe~~I~klakkG~tpSqIG~iLRD~~G 59 (60)
T PF08069_consen 31 EEVEELIVKLAKKGLTPSQIGVILRDQYG 59 (60)
T ss_dssp HHHHHHHHHHCCTTHCHHHHHHHHHHSCT
T ss_pred HHHHHHHHHHHHcCCCHHHhhhhhhhccC
Confidence 45677888999999999999999999886
No 26
>PF13082 DUF3931: Protein of unknown function (DUF3931)
Probab=51.23 E-value=15 Score=23.82 Aligned_cols=27 Identities=19% Similarity=0.203 Sum_probs=19.6
Q ss_pred CceeeeEEEEeeCCcceeehhhhccCc
Q 046720 248 GMIFAPFIGVNNHGQTTVFACSFLSDE 274 (455)
Q Consensus 248 ~~~l~~~~~~~~~~~~~~~~~~~~~~e 274 (455)
.+.-++++|...+|+..++..++...|
T Consensus 36 efssfvlcgetpdgrrlvlthmistde 62 (66)
T PF13082_consen 36 EFSSFVLCGETPDGRRLVLTHMISTDE 62 (66)
T ss_pred EEEEEEEEccCCCCcEEEEEEEecchh
Confidence 355667788888888888877665554
No 27
>KOG3517 consensus Transcription factor PAX1/9 [Transcription]
Probab=49.74 E-value=32 Score=30.72 Aligned_cols=69 Identities=13% Similarity=0.146 Sum_probs=50.1
Q ss_pred cCCCCHHHHHhHHHHhhcCCCcchhhHHHhhccCCccccccccccccchhhhhccc-------ccCC----CHHHHHHHH
Q 046720 125 HRNVSEVKRSLTHQLAAANIPIHQQISVLELQGGGIQNIGCLGKDLYNDETKSKNK-------VKGH----DADMLLEHF 193 (455)
Q Consensus 125 ~r~ls~~~~~~i~~l~~~g~~~~~I~~~l~~~~g~~~~~~~t~~di~n~~~~~r~~-------~~~~----d~~~l~~~l 193 (455)
-|.+....|..|.+|...|+.|..|-..|+-.+|-. ..++.+.... +.++ .-..++.++
T Consensus 18 GRPLPna~RlrIVELarlGiRPCDISRQLrvSHGCV----------SKILaRy~EtGsIlPGaIGGSkPRVTTP~VV~~I 87 (334)
T KOG3517|consen 18 GRPLPNAIRLRIVELARLGIRPCDISRQLRVSHGCV----------SKILARYNETGSILPGAIGGSKPRVTTPKVVKYI 87 (334)
T ss_pred CccCcchhhhhHHHHHHcCCCccchhhhhhhccchH----------HHHHHHhccCCcccccccCCCCCccCChhHHHHH
Confidence 456777888899999999999999999988877642 2333333322 2222 246789999
Q ss_pred HHhhhcCCCe
Q 046720 194 QLEKEKNSAF 203 (455)
Q Consensus 194 ~~~~~~~p~~ 203 (455)
++++..|||.
T Consensus 88 R~~Kq~DPGI 97 (334)
T KOG3517|consen 88 RSLKQRDPGI 97 (334)
T ss_pred HHhhccCCce
Confidence 9999999994
No 28
>PRK08561 rps15p 30S ribosomal protein S15P; Reviewed
Probab=49.33 E-value=34 Score=28.30 Aligned_cols=32 Identities=22% Similarity=0.007 Sum_probs=27.2
Q ss_pred HHHHHhHHHHhhcCCCcchhhHHHhhccCCcc
Q 046720 130 EVKRSLTHQLAAANIPIHQQISVLELQGGGIQ 161 (455)
Q Consensus 130 ~~~~~~i~~l~~~g~~~~~I~~~l~~~~g~~~ 161 (455)
++..+.|..+.+.|.+|++|--.+++++|-+.
T Consensus 31 eeve~~I~~lakkG~~pSqIG~~LRD~~gip~ 62 (151)
T PRK08561 31 EEIEELVVELAKQGYSPSMIGIILRDQYGIPD 62 (151)
T ss_pred HHHHHHHHHHHHCCCCHHHhhhhHhhccCCCc
Confidence 45677888999999999999999999997543
No 29
>PF15299 ALS2CR8: Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8
Probab=49.31 E-value=17 Score=32.64 Aligned_cols=19 Identities=16% Similarity=0.371 Sum_probs=15.5
Q ss_pred ccccccccCCccEEEEEEc
Q 046720 77 RRCSKVREGCKAKLAVVKS 95 (455)
Q Consensus 77 r~~~s~~~gCpa~i~~~~~ 95 (455)
+...+.+.+|||+|.++..
T Consensus 71 ~~~~skK~~CPA~I~Ik~I 89 (225)
T PF15299_consen 71 RSKPSKKRDCPARIYIKEI 89 (225)
T ss_pred ccccccCCCCCeEEEEEEE
Confidence 4567899999999999753
No 30
>PF04800 ETC_C1_NDUFA4: ETC complex I subunit conserved region; InterPro: IPR006885 This entry represents prokaryotic NADH-ubiquinone oxidoreductase subunits (1.6.5.3 from EC, 1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 21 kDa protein [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022900 electron transport chain, 0005743 mitochondrial inner membrane; PDB: 2JYA_A 2LJU_A.
Probab=45.91 E-value=16 Score=28.11 Aligned_cols=29 Identities=17% Similarity=0.399 Sum_probs=21.3
Q ss_pred CCCCccCCHHHHHHHHHHHhcccCeEEEEecee
Q 046720 16 RLGQEFVLLDDVHEFYNEYAKKVGFSVRINSSR 48 (455)
Q Consensus 16 ~~g~~F~s~~e~~~~~~~ya~~~gf~i~~~~s~ 48 (455)
.+.+.|+|.|+|. .||+++|..+.+..-.
T Consensus 50 ~v~l~F~skE~Ai----~yaer~G~~Y~V~~p~ 78 (101)
T PF04800_consen 50 SVRLKFDSKEDAI----AYAERNGWDYEVEEPK 78 (101)
T ss_dssp -CEEEESSHHHHH----HHHHHCT-EEEEE-ST
T ss_pred eeEeeeCCHHHHH----HHHHHcCCeEEEeCCC
Confidence 4678999999997 6788999888765443
No 31
>COG3464 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=41.66 E-value=43 Score=33.09 Aligned_cols=70 Identities=14% Similarity=0.185 Sum_probs=51.9
Q ss_pred eeEEEEeeCCcceeehhhhccCcchhhHHHHHHHHHHHCCCCCCceEecCcCHHHHHHHHhhCCcCccchhhhHHHH
Q 046720 252 APFIGVNNHGQTTVFACSFLSDETTESFVWLFEQFKKAMPGDLPKMIITDQDPAITKAISETLPNTFHRYCIWHILN 328 (455)
Q Consensus 252 ~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~p~~ii~D~~~~~~~ai~~vfp~~~~~~C~~Hi~~ 328 (455)
+.++.+|.+....+ .++++-+.++....|+.+ +....+.+..|...+..+++.+.+|++.+.+=.||+.+
T Consensus 169 ~~~i~~D~~~~~~i---~i~~~r~~~ti~~~l~~~----g~~~v~~V~~D~~~~y~~~v~e~~pna~i~~d~fh~~~ 238 (402)
T COG3464 169 YQTIAVDLDTRKVI---DILEGRSVRTLRRYLRRG----GSEQVKSVSMDMFGPYASAVQELFPNALIIADRFHVVQ 238 (402)
T ss_pred EEEEEEcCCCCcee---eecCCccHHHHHHHHHhC----CCcceeEEEccccHHHHHHHHHhCCChheeeeeeeeee
Confidence 34555555542222 367777888887777654 33356779999999999999999999999988888876
No 32
>PF08459 UvrC_HhH_N: UvrC Helix-hairpin-helix N-terminal; InterPro: IPR001162 During the process of Escherichia coli nucleotide excision repair, DNA damage recognition and processing are achieved by the action of the uvrA, uvrB, and uvrC gene products []. The UvrC proteins contain 4 conserved regions: a central region which interacts with UvrB (Uvr domain), a Helix hairpin Helix (HhH) domain important for 5 prime incision of damage DNA and the homology regions 1 and 2 of unknown function. UvrC homology region 2 is specific for UvrC proteins, whereas UvrC homology region 1 is also shared by few other nucleases. Proteins that contain the UvrC homology region 1, IPR000305 from INTERPRO, are listed below: Prokaryotic UvrC proteins. Bacteriophage T4 END2 protein. Small subunit of ribonucleotide reductase enzyme. T4 TEV1 protein. Endonuclease specific to the thymidylate synthase (td) gene splice junction. Found in putative intron-homing endonucleases encoded by group I introns of fungi and phage. Mycobacterium hypothetical protein Y002. Exonuclease by similarity. Bacillus subtilis hypothetical protein YURQ. ; GO: 0003677 DNA binding, 0004518 nuclease activity, 0006289 nucleotide-excision repair; PDB: 3C65_A 2NRZ_A 2NRR_A 2NRX_A 2NRV_A 2NRT_A 2NRW_A.
Probab=40.96 E-value=92 Score=26.13 Aligned_cols=43 Identities=19% Similarity=0.270 Sum_probs=27.6
Q ss_pred hhhHHHHHHHHHHHCC------CCCCceEecCcCHHHHHHHHhhCCcCc
Q 046720 276 TESFVWLFEQFKKAMP------GDLPKMIITDQDPAITKAISETLPNTF 318 (455)
Q Consensus 276 ~~~~~~~l~~~~~~~~------~~~p~~ii~D~~~~~~~ai~~vfp~~~ 318 (455)
.+.|..+-+.+..... ...|..|+.|+.++..+|+.+++-...
T Consensus 55 ~dDy~~M~Evl~RR~~~~~~~~~~lPDLilIDGG~gQl~aa~~~l~~lg 103 (155)
T PF08459_consen 55 GDDYAAMREVLTRRFKRLKEEKEPLPDLILIDGGKGQLNAAKEVLKELG 103 (155)
T ss_dssp T-HHHHHHHHHHHHHCCCHHHT----SEEEESSSHHHHHHHHHHHHCTT
T ss_pred CcHHHHHHHHHHHHHhcccccCCCCCCEEEEcCCHHHHHHHHHHHHHcC
Confidence 4556655555555432 257999999999999999988875443
No 33
>PF11433 DUF3198: Protein of unknown function (DUF3198); InterPro: IPR024504 This domain is found at the C-terminal of a family of archaeal proteins annotated as membrane proteins.; PDB: 1X9B_A.
Probab=39.71 E-value=23 Score=22.63 Aligned_cols=44 Identities=27% Similarity=0.371 Sum_probs=27.4
Q ss_pred hHHhhhccCCCHHHHHHHHHHHHHHcCCCchHHHHHHHhhccccc
Q 046720 345 DFQKCIWKSLSRDDFDRNWLEIIEKGKLRDNAWLKSVFEIRSKWV 389 (455)
Q Consensus 345 ~~~~~~~~~~s~~~f~~~~~~~~~~~~~~~~~~l~~~~~~~~~W~ 389 (455)
.|...+ .++|...|.+...++-..-..-+..|...+-+.+++|-
T Consensus 6 ~Fe~~I-nS~SK~~Fv~nL~ELE~is~rlg~~Y~~~LeeaK~kWk 49 (51)
T PF11433_consen 6 KFESYI-NSESKSVFVRNLTELERISKRLGKSYQIRLEEAKEKWK 49 (51)
T ss_dssp HHHHHH-HS--HHHHHHHHHHHHHHHHHH-SHHHHHHHHHHHHH-
T ss_pred HHHHHh-CCccHHHHHHhHHHHHHHHHHHchHHHHHHHHHHHhhc
Confidence 455644 78899999999888765322123567777777778883
No 34
>smart00816 Amb_V_allergen Amb V Allergen. Amb V is an Ambrosia sp (ragweed) pollen allergen. Amb t V has been shown to contain a C-terminal helix as the major T cell epitope. Free sulphhydryl groups also play a major role in the T cell recognition of cross-reactivity T cell epitopes within these related allergens.
Probab=35.08 E-value=27 Score=21.43 Aligned_cols=21 Identities=29% Similarity=0.675 Sum_probs=15.7
Q ss_pred EEEEecCCCCcccccccccccccccccCCccEEEEEEc
Q 046720 58 KEYVCSKEGATTKEVVEKKRRCSKVREGCKAKLAVVKS 95 (455)
Q Consensus 58 ~~~~C~r~g~~~~~~~~~~r~~~s~~~gCpa~i~~~~~ 95 (455)
..|+|+--|.+ |||.+.-..+
T Consensus 16 r~YCcSdpGrY-----------------CpwqvVCYeS 36 (45)
T smart00816 16 RKYCCSDPGRY-----------------CPWQVVCYES 36 (45)
T ss_pred CccccCCCccc-----------------CCceEEEeeh
Confidence 46788888877 9999866543
No 35
>PRK00766 hypothetical protein; Provisional
Probab=33.72 E-value=2.1e+02 Score=25.04 Aligned_cols=27 Identities=22% Similarity=0.422 Sum_probs=19.3
Q ss_pred CCceEecCcC---HHHHHHHHhhCCcCccc
Q 046720 294 LPKMIITDQD---PAITKAISETLPNTFHR 320 (455)
Q Consensus 294 ~p~~ii~D~~---~~~~~ai~~vfp~~~~~ 320 (455)
.|.++++..- .++.+|+.+.||+...+
T Consensus 99 ~PVI~V~r~~p~~~~ie~AL~k~f~~~~~R 128 (194)
T PRK00766 99 LPVIVVMRKKPDFEAIESALKKHFSDWEER 128 (194)
T ss_pred CCEEEEEecCCCHHHHHHHHHHHCCCHHHH
Confidence 5666664332 47899999999997654
No 36
>PF03913 Amb_V_allergen: Amb V Allergen; InterPro: IPR005611 Amb V is an Ambrosia sp (ragweed) pollen allergen. Amb t V has been shown to contain a C-terminal helix as the major T cell epitope. Free sulphydryl groups also play a major role in the T cell recognition of cross-reactivity T cell epitopes within these related allergens [].; PDB: 2BBG_A 3BBG_A 1BBG_A.
Probab=32.96 E-value=30 Score=21.18 Aligned_cols=18 Identities=28% Similarity=0.652 Sum_probs=8.4
Q ss_pred EEEecCCCCcccccccccccccccccCCccEEEEE
Q 046720 59 EYVCSKEGATTKEVVEKKRRCSKVREGCKAKLAVV 93 (455)
Q Consensus 59 ~~~C~r~g~~~~~~~~~~r~~~s~~~gCpa~i~~~ 93 (455)
.|+|+--|.+ |||.+.-.
T Consensus 16 ~YCcSdpGrY-----------------CpwqvVCY 33 (44)
T PF03913_consen 16 AYCCSDPGRY-----------------CPWQVVCY 33 (44)
T ss_dssp SEEE-SSSSS----------------------EEE
T ss_pred CeecCCCccc-----------------ccceeeee
Confidence 5788888877 99987544
No 37
>PF00292 PAX: 'Paired box' domain; InterPro: IPR001523 The paired box is a conserved 124 amino acid N-terminal domain of unknown function that usually, but not always, precedes a homeobox domain (see IPR001356 from INTERPRO) [, ]. Paired box genes are expressed in alternate segments of the developing fruit fly, the observed grouping of segments into pairs depending on the position of the segment in the segmental array, and not on the identity of the segment as in the case of homeotic genes. This implies that the genes affect different processes from those altered by homeotic genes.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 6PAX_A 1K78_E 1MDM_A 2K27_A 1PDN_C.
Probab=32.56 E-value=30 Score=27.79 Aligned_cols=70 Identities=14% Similarity=0.178 Sum_probs=39.7
Q ss_pred ccCCCCHHHHHhHHHHhhcCCCcchhhHHHhhccCCccccccccccccchhhhhccc-------ccCC----CHHHHHHH
Q 046720 124 SHRNVSEVKRSLTHQLAAANIPIHQQISVLELQGGGIQNIGCLGKDLYNDETKSKNK-------VKGH----DADMLLEH 192 (455)
Q Consensus 124 ~~r~ls~~~~~~i~~l~~~g~~~~~I~~~l~~~~g~~~~~~~t~~di~n~~~~~r~~-------~~~~----d~~~l~~~ 192 (455)
.-|.++.+.+..|.+|...|++|..|...+.-.+|. +..++.++++. +.++ .-..+..+
T Consensus 14 nGrPLp~~~R~rIvela~~G~rp~~Isr~l~Vs~gc----------VsKIl~Ry~eTGsi~Pg~iGGskprv~tp~v~~~ 83 (125)
T PF00292_consen 14 NGRPLPNELRQRIVELAKEGVRPCDISRQLRVSHGC----------VSKILSRYRETGSIRPGPIGGSKPRVATPEVVEK 83 (125)
T ss_dssp TTSSS-HHHHHHHHHHHHTT--HHHHHHHHT--HHH----------HHHHHHHHHHHS-SS----S----SSS-HCHHHH
T ss_pred CCccCcHHHHHHHHHHhhhcCCHHHHHHHHccchhH----------HHHHHHHHHHhcccCcccccCCCCCCCChHHHHH
Confidence 456788899999999999999999998877655432 23333333321 2121 12346667
Q ss_pred HHHhhhcCCCe
Q 046720 193 FQLEKEKNSAF 203 (455)
Q Consensus 193 l~~~~~~~p~~ 203 (455)
+...+.+||..
T Consensus 84 I~~~k~enP~i 94 (125)
T PF00292_consen 84 IEQYKRENPTI 94 (125)
T ss_dssp HHHHHHH-TTS
T ss_pred HHHHHhcCCCc
Confidence 77777888874
No 38
>PTZ00072 40S ribosomal protein S13; Provisional
Probab=31.50 E-value=51 Score=27.00 Aligned_cols=42 Identities=19% Similarity=0.052 Sum_probs=31.3
Q ss_pred CHHHHHhHHHHhhcCCCcchhhHHHhhccCCccccccccccc
Q 046720 129 SEVKRSLTHQLAAANIPIHQQISVLELQGGGIQNIGCLGKDL 170 (455)
Q Consensus 129 s~~~~~~i~~l~~~g~~~~~I~~~l~~~~g~~~~~~~t~~di 170 (455)
.++..+.|..+.+.|.+|++|--.+++++|-+.--.+|-+.|
T Consensus 27 ~eeVe~~I~klaKkG~~pSqIG~iLRD~~gi~~vk~vtG~kI 68 (148)
T PTZ00072 27 SSEVEDQICKLAKKGLTPSQIGVILRDSMGIPQVKNVTGSKI 68 (148)
T ss_pred HHHHHHHHHHHHHCCCCHhHhhhhhhhccCccceeeccchHH
Confidence 345678888999999999999999999997544334443333
No 39
>PF12762 DDE_Tnp_IS1595: ISXO2-like transposase domain; InterPro: IPR024445 This domain probably functions as an integrase that is found in a wide variety of transposases, including ISXO2.
Probab=30.37 E-value=1e+02 Score=25.39 Aligned_cols=33 Identities=21% Similarity=0.191 Sum_probs=22.0
Q ss_pred hhccCcchhhHHHHHHHHHHHCCCCCCceEecCcCHHH
Q 046720 269 SFLSDETTESFVWLFEQFKKAMPGDLPKMIITDQDPAI 306 (455)
Q Consensus 269 ~~~~~e~~~~~~~~l~~~~~~~~~~~p~~ii~D~~~~~ 306 (455)
.++.+.+.++..-+++.... +-.+|+||...+.
T Consensus 54 ~~v~~~~~~tl~~~i~~~i~-----~gs~i~TD~~~aY 86 (151)
T PF12762_consen 54 FVVPDRSAETLKPIIQEHIE-----PGSTIITDGWRAY 86 (151)
T ss_pred EeecccccchhHHHHHHhhh-----ccceeeecchhhc
Confidence 45677888887766654321 2356899998876
No 40
>PF12000 Glyco_trans_4_3: Gkycosyl transferase family 4 group; InterPro: IPR022623 This presumed domain is functionally uncharacterised and found in bacteria. This region is about 170 amino acids in length and is found N-terminal to PF00534 from PFAM. There is a single completely conserved residue G that may be functionally important.
Probab=30.10 E-value=58 Score=27.82 Aligned_cols=45 Identities=18% Similarity=0.258 Sum_probs=35.0
Q ss_pred hHHHHHHHHHHHCCCCCCceEecCcCHHHHHHHHhhCCcCccc-hhhh
Q 046720 278 SFVWLFEQFKKAMPGDLPKMIITDQDPAITKAISETLPNTFHR-YCIW 324 (455)
Q Consensus 278 ~~~~~l~~~~~~~~~~~p~~ii~D~~~~~~~ai~~vfp~~~~~-~C~~ 324 (455)
.....+..|++. +..|.+|+.-..-|..--++.|||++.+. +|-|
T Consensus 52 av~~a~~~L~~~--Gf~PDvI~~H~GWGe~Lflkdv~P~a~li~Y~E~ 97 (171)
T PF12000_consen 52 AVARAARQLRAQ--GFVPDVIIAHPGWGETLFLKDVFPDAPLIGYFEF 97 (171)
T ss_pred HHHHHHHHHHHc--CCCCCEEEEcCCcchhhhHHHhCCCCcEEEEEEE
Confidence 334445555554 68999999999999999999999999976 5654
No 41
>PF07933 DUF1681: Protein of unknown function (DUF1681); InterPro: IPR012466 NECAP 1 localises to clathrin-coated pits and direct binding to the globular ear domain of the alpha-adaptin subunit (alpha-ear) of the adaptor protein 2 (AP-2) complex. This interaction is mediated by a specific motif, WVQF, that uses a distinct alpha-ear interface relative to known alpha-ear-binding partners. Disruption of this interaction blocks clathrin-mediated endocytosis [].; GO: 0006897 endocytosis, 0016020 membrane; PDB: 1TQZ_A.
Probab=29.36 E-value=1.2e+02 Score=25.63 Aligned_cols=88 Identities=9% Similarity=0.141 Sum_probs=53.3
Q ss_pred CCCeEEEEeecCCCcee--eeEecccccchhhhhcC--cEEEEeeeeccccCCceeeeEEEEeeCCcceeehhhhccCcc
Q 046720 200 NSAFTFTIESDNENRIT--HCFWADATSRRGYNSFG--DVVVFDTTYNTNKYGMIFAPFIGVNNHGQTTVFACSFLSDET 275 (455)
Q Consensus 200 ~p~~~~~~~~d~~~~~~--~i~~~~~~~~~~~~~~~--~v~~~D~t~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~e~ 275 (455)
+|-|.-.+.+-+.+.-- .|..-++...++|..|| .-..|..+-..++| +++-..|..|+.-.+|.+|-...+
T Consensus 35 ~~iwtGrlrV~~~g~~~~v~i~leD~~tgeLFA~~P~~~~~~VE~v~DSSRY----FvlRv~d~~Gr~AfiGiGF~eRsd 110 (160)
T PF07933_consen 35 KPIWTGRLRVVEKGDKCKVDIRLEDPSTGELFAQCPYDDYAAVEPVIDSSRY----FVLRVQDPSGRHAFIGIGFRERSD 110 (160)
T ss_dssp SS-EEEEEEEE--SSSE--EEEEE-SS--SS-EEEEE-SS--EEE-TT--S-----EEEEEEETTTEEEEEEEE-S-HHH
T ss_pred CceeeeEEEEEEcCCeeEEEEEecCCCCcceEEECcccCCCceEEeecccce----EEEEEEcCCCcEEEEEEeeccccc
Confidence 56666666555444433 66677777888888777 21455555555554 566778889999999999999999
Q ss_pred hhhHHHHHHHHHHHCC
Q 046720 276 TESFVWLFEQFKKAMP 291 (455)
Q Consensus 276 ~~~~~~~l~~~~~~~~ 291 (455)
.-+|.-.|+.+.+.+.
T Consensus 111 AFDF~vaLqd~~k~~~ 126 (160)
T PF07933_consen 111 AFDFNVALQDHRKYLK 126 (160)
T ss_dssp HHHHHHHHHHHHS-SS
T ss_pred cccHHHHHHHHHHHhh
Confidence 9999999999887653
No 42
>TIGR03147 cyt_nit_nrfF cytochrome c nitrite reductase, accessory protein NrfF.
Probab=26.79 E-value=54 Score=26.37 Aligned_cols=36 Identities=14% Similarity=0.077 Sum_probs=31.3
Q ss_pred ccCCCCHHHHHhHHHHhhcCCCcchhhHHHhhccCC
Q 046720 124 SHRNVSEVKRSLTHQLAAANIPIHQQISVLELQGGG 159 (455)
Q Consensus 124 ~~r~ls~~~~~~i~~l~~~g~~~~~I~~~l~~~~g~ 159 (455)
|+-.+..+.|..|..+...|.+..+|.+.+...+|.
T Consensus 54 S~a~iA~dmR~~Vr~~i~~G~Sd~eI~~~~v~RYG~ 89 (126)
T TIGR03147 54 SNSPIAYDLRHEVYSMVNEGKSNQQIIDFMTARFGD 89 (126)
T ss_pred cCCHHHHHHHHHHHHHHHcCCCHHHHHHHHHHhcCC
Confidence 344566788999999999999999999999999985
No 43
>TIGR00334 5S_RNA_mat_M5 ribonuclease M5. This family of orthologous proteins shows a weak but significant similarity to the central region of the DnaG-type DNA primase. The region of similarity is termed the Toprim (topoisomerase-primase) domain and is also shared by RecR, OLD family nucleases, and type IA and II topoisomerases.
Probab=24.99 E-value=99 Score=26.45 Aligned_cols=40 Identities=30% Similarity=0.341 Sum_probs=29.4
Q ss_pred HHHHHHHCCCCCCceEecCcCHH---HHHHHHhhCCcCccchhh
Q 046720 283 FEQFKKAMPGDLPKMIITDQDPA---ITKAISETLPNTFHRYCI 323 (455)
Q Consensus 283 l~~~~~~~~~~~p~~ii~D~~~~---~~~ai~~vfp~~~~~~C~ 323 (455)
++.+++. ......+|+||.|.+ +++-|.+.+|++.|.+=.
T Consensus 38 i~~i~~~-~~~rgVIIfTDpD~~GekIRk~i~~~vp~~khafi~ 80 (174)
T TIGR00334 38 INLIKKA-QKKQGVIILTDPDFPGEKIRKKIEQHLPGYENCFIP 80 (174)
T ss_pred HHHHHHH-hhcCCEEEEeCCCCchHHHHHHHHHHCCCCeEEeee
Confidence 3344443 235678899999874 889999999999987533
No 44
>PF03462 PCRF: PCRF domain; InterPro: IPR005139 This domain is found in peptide chain release factors. Peptide chain release factors are important for protein synthesis since they direct the termination of translation in response to the peptide chain termination codons UAG and UAA. These are structurally distinct but both contain the PCRF domain [].; GO: 0016149 translation release factor activity, codon specific, 0006415 translational termination, 0005737 cytoplasm; PDB: 3D5A_X 3D5C_X 3MR8_V 3MS0_V 3F1G_X 3F1E_X 1ZBT_A 2IHR_1 2X9R_Y 2X9T_Y ....
Probab=24.36 E-value=2.1e+02 Score=22.54 Aligned_cols=38 Identities=18% Similarity=0.419 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHhcccCeEEEEeceecCCCCcEEEEEEE
Q 046720 24 LDDVHEFYNEYAKKVGFSVRINSSRKSHRGEIVRKEYV 61 (455)
Q Consensus 24 ~~e~~~~~~~ya~~~gf~i~~~~s~~~~~~~~~~~~~~ 61 (455)
..++.+.|..||...|+.+.+-.......|.++.+.+.
T Consensus 65 a~~L~~MY~~~a~~~gw~~~~l~~~~~~~~G~k~a~~~ 102 (115)
T PF03462_consen 65 AEELFRMYQRYAERRGWKVEVLDYSPGEEGGIKSATLE 102 (115)
T ss_dssp HHHHHHHHHHHHHHTT-EEEEEEEEE-SSSSEEEEEEE
T ss_pred HHHHHHHHHHHHHHcCCEEEEEecCCCCccceeEEEEE
Confidence 36789999999999999999888766554545555543
No 45
>PRK10144 formate-dependent nitrite reductase complex subunit NrfF; Provisional
Probab=23.66 E-value=67 Score=25.82 Aligned_cols=36 Identities=17% Similarity=0.076 Sum_probs=31.3
Q ss_pred ccCCCCHHHHHhHHHHhhcCCCcchhhHHHhhccCC
Q 046720 124 SHRNVSEVKRSLTHQLAAANIPIHQQISVLELQGGG 159 (455)
Q Consensus 124 ~~r~ls~~~~~~i~~l~~~g~~~~~I~~~l~~~~g~ 159 (455)
|+-.+..+.|..|..+...|-+..+|.+.+...+|.
T Consensus 54 Sna~iA~dmR~~Vr~~i~~G~sd~eI~~~~v~RYG~ 89 (126)
T PRK10144 54 SNAPVAVSMRHQVYSMVAEGKSEVEIIGWMTERYGD 89 (126)
T ss_pred cCCHHHHHHHHHHHHHHHcCCCHHHHHHHHHHhcCC
Confidence 344566788999999999999999999999999985
No 46
>PF09954 DUF2188: Uncharacterized protein conserved in bacteria (DUF2188); InterPro: IPR018691 This family has no known function.
Probab=23.61 E-value=1.2e+02 Score=20.65 Aligned_cols=31 Identities=23% Similarity=0.183 Sum_probs=27.2
Q ss_pred CCccCCHHHHHHHHHHHhccc-CeEEEEecee
Q 046720 18 GQEFVLLDDVHEFYNEYAKKV-GFSVRINSSR 48 (455)
Q Consensus 18 g~~F~s~~e~~~~~~~ya~~~-gf~i~~~~s~ 48 (455)
...|+|.+||.+.-++.|+.. +-.+.+....
T Consensus 22 ~~~~~Tk~eAi~~Ar~~a~~~~~~el~Ih~~d 53 (62)
T PF09954_consen 22 SKTFDTKAEAIEAARELAKNQGGGELIIHGRD 53 (62)
T ss_pred ccccCcHHHHHHHHHHHHHhCCCcEEEEECCC
Confidence 468999999999999999997 8888887664
No 47
>cd04659 Piwi_piwi-like_ProArk Piwi_piwi-like_ProArk: PIWI domain, Piwi-like subfamily found in Archaea and Bacteria. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs. The central component of the RNA-induced silencing complex (RISC) and related complexes is Argonaute. The PIWI domain is the C-terminal portion of Argonaute and consists of two subdomains, one of which provides the 5' anchoring of the guide RNA and the other, the catalytic site for slicing. This domain is also found in closely related proteins, including the Piwi subfamily, where it is believed to perform a crucial role in germline cells, via a similar mechanism.
Probab=23.56 E-value=1.8e+02 Score=28.76 Aligned_cols=95 Identities=7% Similarity=0.104 Sum_probs=47.5
Q ss_pred EEEEeeeeccccCCceeeeEEEEeeCCcceeehhhhccCc--------chhhHHHHHHHHHHHCCCCCCceEecCc----
Q 046720 235 VVVFDTTYNTNKYGMIFAPFIGVNNHGQTTVFACSFLSDE--------TTESFVWLFEQFKKAMPGDLPKMIITDQ---- 302 (455)
Q Consensus 235 v~~~D~t~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~e--------~~~~~~~~l~~~~~~~~~~~p~~ii~D~---- 302 (455)
+|.+|.++...........+...|.+|.+..+.-.-...+ -.+.....|+.+++..+...|.-||.-+
T Consensus 192 iIGidv~~~~~~~~~~~~~a~vf~~~g~g~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~y~~~~~~~~P~rIiihrdg~~ 271 (404)
T cd04659 192 YIGIGFARSRDGEVRVTGCAQVFDSDGLGLILRGAPIEEPTEDRSPADLKDLLKRVLEGYRESHRGRDPKRLVLHKDGRF 271 (404)
T ss_pred EEEEEEEEcCCCCEEEEEEEEEEcCCCCEEEEecCccCCcccccCHHHHHHHHHHHHHHHHHHcCCCCCeEEEEECCCCC
Confidence 5678888887653333344445677764444432222221 1234555566666666553676655433
Q ss_pred CHHHHHHHHhhCCcCccchhhhHHHHH
Q 046720 303 DPAITKAISETLPNTFHRYCIWHILNK 329 (455)
Q Consensus 303 ~~~~~~ai~~vfp~~~~~~C~~Hi~~~ 329 (455)
...+++++.++.......+...+|.++
T Consensus 272 ~~~E~~~i~~a~~~~~~~i~~I~V~k~ 298 (404)
T cd04659 272 TDEEIEGLKEALEELGIKVDLVEVIKS 298 (404)
T ss_pred CHHHHHHHHHHHHhhCceEEEEEEEec
Confidence 234455555554433234444444443
No 48
>PRK14669 uvrC excinuclease ABC subunit C; Provisional
Probab=22.31 E-value=1.6e+02 Score=31.10 Aligned_cols=23 Identities=22% Similarity=0.385 Sum_probs=20.6
Q ss_pred CCCceEecCcCHHHHHHHHhhCC
Q 046720 293 DLPKMIITDQDPAITKAISETLP 315 (455)
Q Consensus 293 ~~p~~ii~D~~~~~~~ai~~vfp 315 (455)
..|..|++|+.++..+|+.+++-
T Consensus 463 ~~PDLilIDGGkgQl~aa~~vl~ 485 (624)
T PRK14669 463 PMPGLVLIDGGLGQLHAAAEALE 485 (624)
T ss_pred CCCCEEEEeCCHHHHHHHHHHHH
Confidence 36999999999999999999874
No 49
>PRK12306 uvrC excinuclease ABC subunit C; Reviewed
Probab=21.43 E-value=1.6e+02 Score=30.32 Aligned_cols=26 Identities=19% Similarity=0.267 Sum_probs=21.8
Q ss_pred CCCceEecCcCHHHHHHHHhhCCcCc
Q 046720 293 DLPKMIITDQDPAITKAISETLPNTF 318 (455)
Q Consensus 293 ~~p~~ii~D~~~~~~~ai~~vfp~~~ 318 (455)
..|..|++|+.++..+|+.+++-...
T Consensus 433 ~~PDLilIDGGkgQl~aa~~~l~elg 458 (519)
T PRK12306 433 ELPDLIVIDGGKGQLSSAFKELRKLG 458 (519)
T ss_pred CCCCEEEEeCCHHHHHHHHHHHHHcC
Confidence 47999999999999999998874433
No 50
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=21.39 E-value=89 Score=20.55 Aligned_cols=31 Identities=0% Similarity=0.141 Sum_probs=20.2
Q ss_pred CCCCHHHHHhHHHHhhcCCCcchhhHHHhhc
Q 046720 126 RNVSEVKRSLTHQLAAANIPIHQQISVLELQ 156 (455)
Q Consensus 126 r~ls~~~~~~i~~l~~~g~~~~~I~~~l~~~ 156 (455)
+.|+..++..|..+...|++..+|-..+...
T Consensus 3 ~~Lt~~Eqaqid~m~qlG~s~~~isr~i~RS 33 (50)
T PF11427_consen 3 KTLTDAEQAQIDVMHQLGMSLREISRRIGRS 33 (50)
T ss_dssp ----HHHHHHHHHHHHTT--HHHHHHHHT--
T ss_pred CcCCHHHHHHHHHHHHhchhHHHHHHHhCcc
Confidence 3578899999999999999988887776543
No 51
>TIGR00194 uvrC excinuclease ABC, C subunit. This family consists of the DNA repair enzyme UvrC, an ABC excinuclease subunit which interacts with the UvrA/UvrB complex to excise UV-damaged nucleotide segments.
Probab=21.04 E-value=1.6e+02 Score=30.72 Aligned_cols=43 Identities=16% Similarity=0.264 Sum_probs=28.5
Q ss_pred cchhhHHHHHHH-HHHHCCC---CCCceEecCcCHHHHHHHHhhCCc
Q 046720 274 ETTESFVWLFEQ-FKKAMPG---DLPKMIITDQDPAITKAISETLPN 316 (455)
Q Consensus 274 e~~~~~~~~l~~-~~~~~~~---~~p~~ii~D~~~~~~~ai~~vfp~ 316 (455)
.+-+++..++.. +...... ..|..|++|+.++..+|+.+++-.
T Consensus 426 dDya~m~Evl~RR~~r~~~~~~~~~PDLiliDGGkgQl~aa~~~l~~ 472 (574)
T TIGR00194 426 DDYAAMREVLRRRYSSIQKKNNLPLPDLILIDGGKGQLNAALEVLKS 472 (574)
T ss_pred CHHHHHHHHHHHHHhhhccccCCCCCCEEEEeCCHHHHHHHHHHHHH
Confidence 444454444443 3332222 479999999999999999988743
No 52
>PRK00558 uvrC excinuclease ABC subunit C; Validated
Probab=21.00 E-value=1.8e+02 Score=30.60 Aligned_cols=26 Identities=27% Similarity=0.321 Sum_probs=22.1
Q ss_pred CCCceEecCcCHHHHHHHHhhCCcCc
Q 046720 293 DLPKMIITDQDPAITKAISETLPNTF 318 (455)
Q Consensus 293 ~~p~~ii~D~~~~~~~ai~~vfp~~~ 318 (455)
..|..|++|+.+|..+|..+++-...
T Consensus 450 ~~PDLiliDGGkgQl~~a~~~l~~lg 475 (598)
T PRK00558 450 PLPDLILIDGGKGQLNAAKEVLEELG 475 (598)
T ss_pred CCCCEEEEeCCHHHHHHHHHHHHHCC
Confidence 57999999999999999999875433
No 53
>PF14398 ATPgrasp_YheCD: YheC/D like ATP-grasp
Probab=20.74 E-value=2.4e+02 Score=25.93 Aligned_cols=24 Identities=21% Similarity=0.477 Sum_probs=18.7
Q ss_pred CccCCHHHHHHHHHHHhcccCeEE
Q 046720 19 QEFVLLDDVHEFYNEYAKKVGFSV 42 (455)
Q Consensus 19 ~~F~s~~e~~~~~~~ya~~~gf~i 42 (455)
..|.+.+++..+++.+.....|-+
T Consensus 94 ~~~~~~~~l~~~l~~~~~~~~yIi 117 (262)
T PF14398_consen 94 RTFSSLEELEQFLKELLGKRRYII 117 (262)
T ss_pred EEeCCHHHHHHHHHHhcCCCcEEE
Confidence 369999999999998876655544
No 54
>PF11460 DUF3007: Protein of unknown function (DUF3007); InterPro: IPR021562 This is a family of uncharacterised proteins found in bacteria and eukaryotes.
Probab=20.55 E-value=2e+02 Score=22.18 Aligned_cols=39 Identities=18% Similarity=0.327 Sum_probs=30.5
Q ss_pred hhhcccCCCCCHHHHHHHHHHHHHHHHHHHHhchHhhhh
Q 046720 413 FFKRYVSKKNSLLDFMIRFNRALNHQRHEELNANHADIM 451 (455)
Q Consensus 413 ~lk~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 451 (455)
++-+.+..+++..+-.+.|+..++....+|+++-+++..
T Consensus 53 YlfRV~t~~MTy~~Q~k~Ye~a~~~~~~~~lqkRle~l~ 91 (104)
T PF11460_consen 53 YLFRVVTGKMTYMQQRKDYEEAVDQLTNEELQKRLEELS 91 (104)
T ss_pred HHhhhccCCCcHHHHHHHHHHHHHHHhHHHHHHHHHhCC
Confidence 444566788899999999999998888888777776643
No 55
>KOG4027 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.19 E-value=2.9e+02 Score=23.12 Aligned_cols=36 Identities=22% Similarity=0.334 Sum_probs=27.6
Q ss_pred Eeeeec-cccCCcee--eeEEEEeeCCcceeehhhhccC
Q 046720 238 FDTTYN-TNKYGMIF--APFIGVNNHGQTTVFACSFLSD 273 (455)
Q Consensus 238 ~D~t~~-~~~~~~~l--~~~~~~~~~~~~~~~~~~~~~~ 273 (455)
||.||+ ++.|+.|- +...|.|+.|+-.+.||+.+.-
T Consensus 70 ievt~KstsPygWPqivl~vfg~d~~G~d~v~GYg~~hi 108 (187)
T KOG4027|consen 70 IEVTLKSTSPYGWPQIVLNVFGKDHSGKDCVTGYGMLHI 108 (187)
T ss_pred eEEEeccCCCCCCceEEEEEecCCcCCcceeeeeeeEec
Confidence 678998 67788764 4556789999999999887543
Done!