Query 005477
Match_columns 694
No_of_seqs 206 out of 2148
Neff 9.9
Searched_HMMs 46136
Date Fri Mar 29 00:03:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005477.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005477hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1121 Tam3-transposase (Ac f 100.0 2.2E-50 4.7E-55 456.2 52.2 531 127-689 91-630 (641)
2 PF05699 Dimer_Tnp_hAT: hAT fa 99.8 4.3E-20 9.3E-25 150.1 4.0 83 602-684 1-86 (86)
3 PF04937 DUF659: Protein of un 99.7 3.6E-16 7.8E-21 139.0 12.0 146 172-333 1-152 (153)
4 PF14372 DUF4413: Domain of un 99.5 1.2E-13 2.6E-18 114.2 9.9 101 427-528 1-101 (101)
5 PF14291 DUF4371: Domain of un 99.4 5.2E-13 1.1E-17 129.9 10.4 142 138-282 69-232 (235)
6 PF02892 zf-BED: BED zinc fing 99.0 3.5E-10 7.6E-15 78.5 3.0 44 40-89 1-44 (45)
7 smart00614 ZnF_BED BED zinc fi 98.8 4.1E-09 8.9E-14 74.5 3.9 47 41-90 1-48 (50)
8 PF10683 DBD_Tnp_Hermes: Herme 96.6 0.0026 5.7E-08 45.9 3.3 35 131-165 12-46 (68)
9 PF09237 GAGA: GAGA factor; I 90.0 0.18 4E-06 34.6 1.4 28 56-91 23-50 (54)
10 PF13894 zf-C2H2_4: C2H2-type 89.8 0.18 3.9E-06 28.8 1.2 24 58-89 1-24 (24)
11 PF00096 zf-C2H2: Zinc finger, 89.0 0.22 4.7E-06 28.4 1.1 22 58-87 1-22 (23)
12 PHA00616 hypothetical protein 86.4 0.29 6.4E-06 32.9 0.7 25 59-91 3-27 (44)
13 PF12874 zf-met: Zinc-finger o 86.1 0.4 8.6E-06 27.9 1.1 22 58-87 1-22 (25)
14 PF13912 zf-C2H2_6: C2H2-type 80.7 1.2 2.6E-05 26.4 1.7 23 58-88 2-24 (27)
15 PF12171 zf-C2H2_jaz: Zinc-fin 79.1 0.65 1.4E-05 27.7 0.1 22 58-87 2-23 (27)
16 PF12017 Tnp_P_element: Transp 77.7 5.7 0.00012 38.4 6.1 125 152-286 85-230 (236)
17 PF13913 zf-C2HC_2: zinc-finge 76.5 1.6 3.5E-05 25.5 1.2 20 58-86 3-22 (25)
18 PHA02768 hypothetical protein; 73.5 1.9 4.2E-05 30.7 1.3 24 58-89 6-29 (55)
19 PF12907 zf-met2: Zinc-binding 65.1 2.5 5.4E-05 27.9 0.3 30 58-92 2-31 (40)
20 PF10551 MULE: MULE transposas 64.3 47 0.001 26.5 8.0 67 233-314 25-91 (93)
21 smart00451 ZnF_U1 U1-like zinc 60.3 5.2 0.00011 25.3 1.2 24 57-88 3-26 (35)
22 PF05443 ROS_MUCR: ROS/MUCR tr 56.4 5.6 0.00012 34.4 1.1 25 56-91 71-95 (132)
23 smart00355 ZnF_C2H2 zinc finge 50.9 10 0.00022 21.5 1.4 20 59-86 2-21 (26)
24 PLN03097 FHY3 Protein FAR-RED 50.7 1.4E+02 0.0029 35.1 11.2 80 223-319 305-387 (846)
25 PF05605 zf-Di19: Drought indu 49.3 9.7 0.00021 27.2 1.2 24 56-89 30-53 (54)
26 PF04959 ARS2: Arsenite-resist 47.4 14 0.00031 35.0 2.3 33 54-94 74-106 (214)
27 PF00872 Transposase_mut: Tran 45.9 8.7 0.00019 40.6 0.8 161 134-319 102-267 (381)
28 PF13909 zf-H2C2_5: C2H2-type 45.6 8.7 0.00019 21.9 0.4 22 59-89 2-23 (24)
29 PF12756 zf-C2H2_2: C2H2 type 44.0 19 0.0004 29.2 2.4 27 57-91 50-76 (100)
30 PF08209 Sgf11: Sgf11 (transcr 39.5 25 0.00053 22.2 1.8 23 56-87 3-25 (33)
31 KOG2893 Zn finger protein [Gen 37.9 14 0.00031 34.6 0.7 36 34-69 5-46 (341)
32 KOG2462 C2H2-type Zn-finger pr 37.7 19 0.00042 35.0 1.7 13 77-89 227-239 (279)
33 PF12013 DUF3505: Protein of u 36.9 34 0.00074 28.6 2.9 28 55-91 9-36 (109)
34 KOG1074 Transcriptional repres 35.1 41 0.00089 38.1 3.8 48 34-89 329-377 (958)
35 COG4957 Predicted transcriptio 31.9 35 0.00075 29.2 2.0 24 57-91 76-99 (148)
36 PF02914 DDE_2: Bacteriophage 31.5 1.3E+02 0.0029 28.4 6.0 39 235-277 43-81 (219)
37 PHA00732 hypothetical protein 30.2 37 0.00081 26.5 1.9 25 58-90 2-26 (79)
38 COG4049 Uncharacterized protei 26.5 44 0.00096 23.6 1.5 33 50-90 10-42 (65)
39 PF09416 UPF1_Zn_bind: RNA hel 25.9 44 0.00096 29.6 1.8 35 54-90 11-46 (152)
40 PHA00733 hypothetical protein 25.0 43 0.00092 29.0 1.5 24 58-89 100-123 (128)
41 PF13465 zf-H2C2_2: Zinc-finge 23.8 43 0.00093 19.6 0.9 15 54-68 11-25 (26)
42 KOG3623 Homeobox transcription 23.6 32 0.00069 38.2 0.6 13 57-69 281-293 (1007)
43 PRK00415 rps27e 30S ribosomal 22.8 45 0.00098 24.2 1.0 26 55-84 28-53 (59)
44 PF10276 zf-CHCC: Zinc-finger 21.5 75 0.0016 21.1 1.8 12 56-67 28-39 (40)
No 1
>KOG1121 consensus Tam3-transposase (Ac family) [Replication, recombination and repair]
Probab=100.00 E-value=2.2e-50 Score=456.19 Aligned_cols=531 Identities=36% Similarity=0.653 Sum_probs=445.2
Q ss_pred CcccchHhHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHhCCCccccCccchHhHHHHHHHHHHHHHHHHHhccCCceEEe
Q 005477 127 SISFNQDRSTQDIAKMIIVHEYPPHIVEHPAFIDFVHTLQPQFNVASFNTIQGDCVAIYLREKQRLLNFISGIHGRVNLA 206 (694)
Q Consensus 127 ~~~~~~~~~~~~l~~~i~~~~~P~~~ve~~~F~~l~~~l~p~~~~ps~~~~~~~i~~~~~~~~~~l~~~l~~~~~~~sl~ 206 (694)
...+++...++.+++||+.+++||+.||+++|+.|+..++|.|.+|++.++...+..+|...+..++..+....|.++++
T Consensus 91 ~~~~~~~~~~~~~~~~ii~~~lp~~~ve~~~~~~~~~~~~P~~~~~~~~t~~~~~~~~~~~~k~~~~~~~~~~~~~v~lT 170 (641)
T KOG1121|consen 91 RQKLDQKVIREAIARMIILHGLPLSTVEEPGFRELLKHLNPNYKLPSRSTLEADVLKIYEAEKPKLKEILEKIIGRVSLT 170 (641)
T ss_pred cccchHHHHHHHHHHHHHhcCCChhhccchhHHHHHHhcCCCcccCChhHHHHHHHHHHHHHHHHHHHHHHccCCceEEE
Confidence 34577889999999999999999999999999999999999999999999999999999999999999999888999999
Q ss_pred ecccccc-CCceEEEEEEEEEeCCcceeeeEEEeeeeCCCCchhHHHHHHHHHHHhcCCcccEEEEeccCCCCchHHHHH
Q 005477 207 LDLWSSN-QSVGYAVLTGHFIDGDWNLHHRVLNVVMVPSPDSDVAFNQALASCLSDWRLENKLLTLTLDRSFSNETINGN 285 (694)
Q Consensus 207 ~D~wt~~-~~~~~l~v~~~~i~~~~~~~~~~L~~~~~~~~~t~~~i~~~i~~vl~~~~i~~ki~~i~tD~a~~~~~~~~~ 285 (694)
+|.|++. .+..|+++++||+|.+|+++..+|++. +...|+++.|+..+..++.+|+|..++..++.|| .+......
T Consensus 171 ~d~w~~~~~~~~y~~~t~h~id~~~~l~~~il~~~-~~~~~~~~~i~~~~~~~~~~~~i~~kv~~~~~~n--~~~~~~~~ 247 (641)
T KOG1121|consen 171 TDLWSDSGTDEGYMVLTAHYIDRDWELHNKILSFC-IPPPHLGKALASVLNECLLEWGIEKKVFSITVDN--VNVSNIET 247 (641)
T ss_pred EeeecCCCCCcceEEEEEEEeccchHhhhheeeee-cCCcchHHHHHHHHHHHHHhhChhheEEEEeecc--cchhHHHH
Confidence 9999986 688999999999999999999999999 6677999999999999999999999999999999 45566666
Q ss_pred HHhhhccCCCccccCceeeeechHHHHHHHHHHHH-hhhhHHHHHHHHHhHHhhcChHHHHHHHHHHHhcCCCCCCcccc
Q 005477 286 LRGFLSVKNPFMLNCQLIKGNCYARVISRLAQDAL-GAIWETVDKIRASVKYVKTSDTHEEKFLELKERLQVPSTKELFI 364 (694)
Q Consensus 286 l~~~l~~~~~~~~~~~~~~i~C~~H~Lnl~~~~~l-~~~~~~l~k~~~~~~~~~~S~~~~~~l~~~~~~~~~~~~~~l~~ 364 (694)
+...+...++..+.+...+++|++|.+++++++++ ..+...+.++++.+++++.+..+...|.+.+...+.+.. .+..
T Consensus 248 ~~~~l~~~~~~~~~~~~~~~~C~~~~~~~~v~~~l~~~~~~~l~~ir~~v~~vk~s~~~~~~f~~~~~~~~~~~~-~~~~ 326 (641)
T KOG1121|consen 248 LRDHLKSSNALLLLGKFFHVRCFAHILNLIVQEGLKEEFSSLLEKLRESVKYVKSSESRESSFEECQEQLGIPSD-VLLL 326 (641)
T ss_pred hhHHHhhcccceecceeeeeehhhhhhhHHHHHHHHHHHhHHHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccc-cccc
Confidence 66666656666677888999999999999999999 689999999999999999999999999999998887764 3333
Q ss_pred CCCccchhHHHHHHHHHhhHHHHhHHhhcCCCCccCCCCHhhHHHHHHHHHHHHHHHHHHhhhcCCCccchhhHHHHHHH
Q 005477 365 DDQTKWNTTYHMLVAAHELKEVFACLETFDPDYKIATPTMDDWKQVEILCTYLKYFFDAANILTSPTYPTASVFYHEVSK 444 (694)
Q Consensus 365 ~~~tRW~S~~~~l~~~l~~~~~i~~~~~~~~~~~~~~l~~~~w~~l~~l~~iL~pf~~~~~~l~~~~~~t~~~v~~~~~~ 444 (694)
+.++||++++.|+.++++++.+|..+...+..+.... ++.+|..++.++.+|+||.+.+..+++..+++...+++.++.
T Consensus 327 d~~~~w~st~~ml~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~l~~~~~~~~~~s~~~~~ts~~~~~~i~~ 405 (641)
T KOG1121|consen 327 DVSTRWNSTYLMLSRALKLKDAFSKLEEEDKSYKSYP-SDEEWNRLEELCDFLQPFSEVTKLLSGSSYPTSNQYFPEIWK 405 (641)
T ss_pred cCCccchhHHHHHHHHHHHHHHHHHHHHhccccccCc-CHHHHHHHHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Confidence 7999999999999999999999999987765555544 788899999999999999999999999999999999999999
Q ss_pred HHHHHHHHhcCCChHHHHhHHHHHHHHHHHhh-hhhchhhhhheecCcchhhhHHHhhhhcccc---chhhHHHHHHHHH
Q 005477 445 IQAELTQAAMSEEPFTSYLTKPLKERFDEYWK-DCFLVLAIAVVIDPRFKMKLIEFSFSRIYGE---DAGMWIKAVDDGL 520 (694)
Q Consensus 445 l~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~~~~~~A~~LdPr~k~~~~~~~~~~~~~~---~~~~~~~~~~~~~ 520 (694)
+...+.......+..+..++..+..+|++||. ....++.+|++||||||..++.+++..+++. ...+.+..+.+.+
T Consensus 406 i~~~l~~~~~~~~~~~~~~a~~m~~k~dk~~~~~~~~~~~~atvlDPR~k~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~ 485 (641)
T KOG1121|consen 406 IENLLKTYASGEDEVVRSMAEEMFEKFDKYWSYSICDLLAIATLLDPRFKLKLLESSFEKLYGKDPEDAKEKVESVRDKL 485 (641)
T ss_pred HHHHHHhcccCccHHHHHHHHHHHHHhhhhcccchhHHHHHHHhcChHhHHHHHHHHhhhhhccchHHHHHHHHHHHHHH
Confidence 98877776666778899999999999999997 2246789999999999999999888887653 4445566678888
Q ss_pred HHHHHHHhhcccCCCCccccCCcccccccchhhhhhhccCCCCCCCCCcCccccccccCCCCCchhhhhhhcccCCCCch
Q 005477 521 HELFHEYLVQMLALPDTFMDEGLEVIPKSEASREETLHAGNIEEGTPQEHSQDLSLISIGDGLSDFEVYISEDTSGQPMR 600 (694)
Q Consensus 521 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~ 600 (694)
..++.+|.... +....... ..........+ ........|..............
T Consensus 486 ~~l~~~y~~~~----~~~~~~~~----------------------~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~ 538 (641)
T KOG1121|consen 486 KKLLEEYKQLS----PSNVSNSA----------------------HSWDLLDESPL-EKDAFEYLFEPEVSIDSGSKSGK 538 (641)
T ss_pred HHHHHHHhccC----CCCCCccc----------------------ccccccccccc-ccchhhhhhhHHHHHHhcCCCCC
Confidence 89999997531 10000000 00000000000 01111122222222222225677
Q ss_pred hHHHHHHhcc---CCCCCCCccHHHHHHhhcCCchhHHHHHHHHccccccccccccccccCCccccccccCCCHHHHHHH
Q 005477 601 SELDQYLEEF---LLPRTQDFDILDWWRLNQAKYPTLSRMASDILSIPFSTVPTDSVFDTVSKKIDSYRSSLRPVTLEAL 677 (694)
Q Consensus 601 ~El~~y~~~~---~~~~~~~~dpl~~W~~~~~~fP~L~~lA~~~LsiPass~~~ER~FS~~~~~~t~~R~~L~~~~le~l 677 (694)
.+++.|+.++ ..+....++||+||+.+..+||.|+.||+++|++|++++..|+.|+..++++++.|++|.|.+++.+
T Consensus 539 ~~l~~y~~e~~~~~~~~~~~~~~l~~w~~~~~~y~~ls~~a~d~l~~p~~~~~~e~~f~~~~~~~~~~r~~l~~~~~~~l 618 (641)
T KOG1121|consen 539 SELDHYLSESPRLLMPSFLDADVLQWWKGNGTRYPELSSMARDILSIPITSVASESSFSIGGRVLNKYRSRLLPENVQAL 618 (641)
T ss_pred chHHHHHhhhhhhhccccccccHHHHhhccCcccchHHHHHHHHHcCcccCccchhhcccCceecCchhccCCchhhHHh
Confidence 9999999996 4445568899999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhccccCCCC
Q 005477 678 ICAKDWLQYGSL 689 (694)
Q Consensus 678 ~~l~~~~~~~~~ 689 (694)
+|.++|++.+..
T Consensus 619 ~c~~~~~~~~~~ 630 (641)
T KOG1121|consen 619 ICTRNWLPGFTE 630 (641)
T ss_pred hchHhhhhhhcc
Confidence 999999998754
No 2
>PF05699 Dimer_Tnp_hAT: hAT family C-terminal dimerisation region; InterPro: IPR008906 This dimerisation domain is found at the C terminus of the transposases of elements belonging to the Activator superfamily (hAT element superfamily). The isolated dimerisation domain forms extremely stable dimers in vitro [].; GO: 0046983 protein dimerization activity; PDB: 2BW3_A.
Probab=99.79 E-value=4.3e-20 Score=150.12 Aligned_cols=83 Identities=40% Similarity=0.749 Sum_probs=63.4
Q ss_pred HHHHHHhc-cCCCCC--CCccHHHHHHhhcCCchhHHHHHHHHccccccccccccccccCCccccccccCCCHHHHHHHH
Q 005477 602 ELDQYLEE-FLLPRT--QDFDILDWWRLNQAKYPTLSRMASDILSIPFSTVPTDSVFDTVSKKIDSYRSSLRPVTLEALI 678 (694)
Q Consensus 602 El~~y~~~-~~~~~~--~~~dpl~~W~~~~~~fP~L~~lA~~~LsiPass~~~ER~FS~~~~~~t~~R~~L~~~~le~l~ 678 (694)
|+++|+.+ +..+.. ...||++||+.++..||.|+++|+++|++|+||+.+||+||..+.++++.|++|.++++++|+
T Consensus 1 El~~y~~e~~~~~~~~~~~~~~l~~W~~~~~~fP~L~~lA~~~Lsip~ss~~~ER~FS~~~~~~~~~r~~l~~~~~~~l~ 80 (86)
T PF05699_consen 1 ELDRYLSELPCLPRNKKSDMDPLEWWKQNSSRFPNLAKLARKYLSIPASSASSERSFSAMGKILTRNRNRLSPENVEALL 80 (86)
T ss_dssp -HHHHHT------T----T--HHHHHHHTTTTSHHHHHHHHHHHTS-S-TTTTHHHHHHTHHHHH-TTT---HHHHHHHH
T ss_pred CHHHHHhCCCcccccccCCCCHHHHHHHCchhchHHHHHHHHHHHhhccccccccccchhhcccccCccCCCHHHHHhhh
Confidence 78999999 766553 257999999999999999999999999999999999999999999999999999999999999
Q ss_pred Hhhccc
Q 005477 679 CAKDWL 684 (694)
Q Consensus 679 ~l~~~~ 684 (694)
|++.|+
T Consensus 81 ~l~~nl 86 (86)
T PF05699_consen 81 FLKSNL 86 (86)
T ss_dssp HHHH--
T ss_pred ceeccC
Confidence 999986
No 3
>PF04937 DUF659: Protein of unknown function (DUF 659); InterPro: IPR007021 These are transposase-like proteins with no known function.
Probab=99.68 E-value=3.6e-16 Score=138.98 Aligned_cols=146 Identities=14% Similarity=0.136 Sum_probs=116.6
Q ss_pred cCccchHhH-HHHHHHHHHHHHHHHHhc--cCCceEEeeccccccCCceEEEEEEEEEeCCcceeeeEEEeeeeC-CCCc
Q 005477 172 ASFNTIQGD-CVAIYLREKQRLLNFISG--IHGRVNLALDLWSSNQSVGYAVLTGHFIDGDWNLHHRVLNVVMVP-SPDS 247 (694)
Q Consensus 172 ps~~~~~~~-i~~~~~~~~~~l~~~l~~--~~~~~sl~~D~wt~~~~~~~l~v~~~~i~~~~~~~~~~L~~~~~~-~~~t 247 (694)
||++.++.. +.+.+.+++..++...+. . ..++|.+|+||+..+++++.+.++...+-+. |...... ..+|
T Consensus 1 PS~~~Lr~~lL~~~~~~v~~~~~~~k~~w~~-~Gcsi~~DgWtd~~~~~lInf~v~~~~g~~F-----lksvd~s~~~~~ 74 (153)
T PF04937_consen 1 PSYHELRGPLLDKEYKEVKEQVKEHKKSWKR-TGCSIMSDGWTDRKGRSLINFMVYCPEGTVF-----LKSVDASSIIKT 74 (153)
T ss_pred CCHHHHhhHHHHHHHHHHHHHHHHHHHHHHh-cCEEEEEecCcCCCCCeEEEEEEEcccccEE-----EEEEeccccccc
Confidence 788889987 678998888887655543 2 3699999999999999999999987654333 3333322 3589
Q ss_pred hhHHHHHHHHHHHhcCCcccEEEEeccCCCCchHHHHHHHhhhccCCCccccCceeeeechHHHHHHHHHHHHh--hhhH
Q 005477 248 DVAFNQALASCLSDWRLENKLLTLTLDRSFSNETINGNLRGFLSVKNPFMLNCQLIKGNCYARVISRLAQDALG--AIWE 325 (694)
Q Consensus 248 ~~~i~~~i~~vl~~~~i~~ki~~i~tD~a~~~~~~~~~l~~~l~~~~~~~~~~~~~~i~C~~H~Lnl~~~~~l~--~~~~ 325 (694)
+++|++.+.+++++.|-. +|+.|+|||++++.++...|.+.. +.+++.+|++|++||+++|+.+ .+.+
T Consensus 75 a~~l~~ll~~vIeeVG~~-nVvqVVTDn~~~~~~a~~~L~~k~---------p~ifw~~CaaH~inLmledi~k~~~i~~ 144 (153)
T PF04937_consen 75 AEYLFELLDEVIEEVGEE-NVVQVVTDNASNMKKAGKLLMEKY---------PHIFWTPCAAHCINLMLEDIGKLPWIKE 144 (153)
T ss_pred HHHHHHHHHHHHHHhhhh-hhhHHhccCchhHHHHHHHHHhcC---------CCEEEechHHHHHHHHHHHHhcChHHHH
Confidence 999999999999999865 899999999998888876665543 6889999999999999999874 5667
Q ss_pred HHHHHHHH
Q 005477 326 TVDKIRAS 333 (694)
Q Consensus 326 ~l~k~~~~ 333 (694)
++.+++.+
T Consensus 145 vi~~ak~i 152 (153)
T PF04937_consen 145 VIEKAKAI 152 (153)
T ss_pred HHHhcccC
Confidence 77777654
No 4
>PF14372 DUF4413: Domain of unknown function (DUF4413)
Probab=99.50 E-value=1.2e-13 Score=114.15 Aligned_cols=101 Identities=46% Similarity=0.880 Sum_probs=93.2
Q ss_pred hcCCCccchhhHHHHHHHHHHHHHHHhcCCChHHHHhHHHHHHHHHHHhhhhhchhhhhheecCcchhhhHHHhhhhccc
Q 005477 427 LTSPTYPTASVFYHEVSKIQAELTQAAMSEEPFTSYLTKPLKERFDEYWKDCFLVLAIAVVIDPRFKMKLIEFSFSRIYG 506 (694)
Q Consensus 427 l~~~~~~t~~~v~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~A~~LdPr~k~~~~~~~~~~~~~ 506 (694)
+++..+||++.+++.++.+...|.+ ....++.+..++..|..+|++||.+.+.++.+|++||||||..++++++.+.+|
T Consensus 1 ~S~~~~pTsn~~f~~i~~i~~~l~~-~~~~d~~l~~ma~~M~~KfdKYw~~~~~~l~ia~ILDPR~Kl~~~~~~~~~~~~ 79 (101)
T PF14372_consen 1 FSGSSYPTSNLYFHEIWKIKDLLRD-WNNDDPDLKNMAKKMKEKFDKYWKDCNLLLAIATILDPRFKLEFLEFCFSKLYG 79 (101)
T ss_pred CCCCCcCcHHHHHHHHHHHHHHHHH-hccCCHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhchHHHHHHHHHHHHHHhc
Confidence 4677899999999999999988877 446688999999999999999999999999999999999999999999999999
Q ss_pred cchhhHHHHHHHHHHHHHHHHh
Q 005477 507 EDAGMWIKAVDDGLHELFHEYL 528 (694)
Q Consensus 507 ~~~~~~~~~~~~~~~~l~~~~~ 528 (694)
.++..++..+++.+.++|.+|.
T Consensus 80 ~~~~~~~~~v~~~l~~Lf~~Y~ 101 (101)
T PF14372_consen 80 SDAKEKIEEVRDKLYELFDEYS 101 (101)
T ss_pred chHHHHHHHHHHHHHHHHHhhC
Confidence 9999999999999999999883
No 5
>PF14291 DUF4371: Domain of unknown function (DUF4371)
Probab=99.43 E-value=5.2e-13 Score=129.88 Aligned_cols=142 Identities=13% Similarity=0.170 Sum_probs=117.7
Q ss_pred HHHHHHHhhcCCCCCCCC-------HHHHHHHHHh---CCCc-----------cccCccchHhHHHHHHHHHHHHHHHHH
Q 005477 138 DIAKMIIVHEYPPHIVEH-------PAFIDFVHTL---QPQF-----------NVASFNTIQGDCVAIYLREKQRLLNFI 196 (694)
Q Consensus 138 ~l~~~i~~~~~P~~~ve~-------~~F~~l~~~l---~p~~-----------~~ps~~~~~~~i~~~~~~~~~~l~~~l 196 (694)
.++.|++..|+||.-=+. -.|+++++.+ +|.. ...+.+++...|..+...+++.|.+++
T Consensus 69 ~~i~fL~~QgLa~RGh~e~~~s~n~GNFl~ll~l~~~~d~~l~~~~~~~~~~~~~~~s~~iq~~i~~~a~~v~~~I~~~v 148 (235)
T PF14291_consen 69 DVILFLARQGLAFRGHDESEDSLNNGNFLELLELLAKYDPELKKHLSKNAPKNAKYSSKTIQNEIEILADHVRQSIVEEV 148 (235)
T ss_pred HHHHHHHhcccccccCCccccccccccHHHHHHHHHhhcccchhhhhcccccceeccHHHHHHHHHHHHHHHHHHHHhhc
Confidence 457899999999976332 2588888765 3322 122345556667677888888888988
Q ss_pred hccCCceEEeeccccccCCceEEEEEEEEEeCCcceeeeEEEeeeeCCCCchhHHHHHHHHHHHhcCCc-ccEEEEeccC
Q 005477 197 SGIHGRVNLALDLWSSNQSVGYAVLTGHFIDGDWNLHHRVLNVVMVPSPDSDVAFNQALASCLSDWRLE-NKLLTLTLDR 275 (694)
Q Consensus 197 ~~~~~~~sl~~D~wt~~~~~~~l~v~~~~i~~~~~~~~~~L~~~~~~~~~t~~~i~~~i~~vl~~~~i~-~ki~~i~tD~ 275 (694)
+. ++|||.+|+.+|.+...+|+|+++|++.+..+++++|++.+++. .||+.|++.|.++|.++||+ ++++|.++||
T Consensus 149 ~~--~~FSii~DettDis~~eQl~i~vRyv~~~~~i~E~Fl~f~~~~~-~ta~~l~~~i~~~L~~~~l~~~~~~gq~yDg 225 (235)
T PF14291_consen 149 KS--KYFSIIVDETTDISNKEQLSICVRYVDKDGKIKERFLGFVELED-TTAESLFNAIKDVLEKLGLDLSNCRGQCYDG 225 (235)
T ss_pred cc--cceeeeeeccccccccchhhheeeeeccCcceeeeeeeeeccCC-ccHHHHHHHHHHHHHHcCCCHHHcCcccccC
Confidence 86 48999999999999999999999999988899999999999975 79999999999999999999 9999999999
Q ss_pred CCCchHH
Q 005477 276 SFSNETI 282 (694)
Q Consensus 276 a~~~~~~ 282 (694)
|++|.+.
T Consensus 226 as~M~G~ 232 (235)
T PF14291_consen 226 ASNMSGK 232 (235)
T ss_pred hHhheec
Confidence 9977654
No 6
>PF02892 zf-BED: BED zinc finger; InterPro: IPR003656 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. This entry represents predicted BED-type zinc finger domains. The BED finger which was named after the Drosophila proteins BEAF and DREF, is found in one or more copies in cellular regulatory factors and transposases from plants, animals and fungi. The BED finger is an about 50 to 60 amino acid residues domain that contains a characteristic motif with two highly conserved aromatic positions, as well as a shared pattern of cysteines and histidines that is predicted to form a zinc finger. As diverse BED fingers are able to bind DNA, it has been suggested that DNA-binding is the general function of this domain []. Some proteins known to contain a BED domain include animal, plant and fungi AC1 and Hobo-like transposases; Caenorhabditis elegans Dpy-20 protein, a predicted cuticular gene transcriptional regulator; Drosophila BEAF (boundary element-associated factor), thought to be involved in chromatin insulation; Drosophila DREF, a transcriptional regulator for S-phase genes; and tobacco 3AF1 and tomato E4/E8-BP1, light- and ethylene-regulated DNA binding proteins that contain two BED fingers. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding; PDB: 2DJR_A 2CT5_A.
Probab=98.97 E-value=3.5e-10 Score=78.51 Aligned_cols=44 Identities=39% Similarity=0.589 Sum_probs=31.6
Q ss_pred ccccccceeeeecCCcceEeccccccccccccCccccCchHHHHhHhcCC
Q 005477 40 SIVWDYFTVETVDAGCTRACCNQCKKSFAYITGSKLAGTSHLKRHITMGI 89 (694)
Q Consensus 40 S~vW~~F~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~~h 89 (694)
|+||+||+... ++...++|++|++.+++. ++||++|++||+.+|
T Consensus 1 S~vW~~F~~~~--~~~~~a~C~~C~~~~~~~----~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 1 SPVWKHFTKIP--GDKKKAKCKYCGKVIKYS----SGGTSNLKRHLKKKH 44 (45)
T ss_dssp GGCCCCCEE----GCSS-EEETTTTEE---------SSTHHHHHHHHHTT
T ss_pred CCccccEEEcc--CCcCeEEeCCCCeEEeeC----CCcHHHHHHhhhhhC
Confidence 78999999986 456799999999999865 248999999997655
No 7
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=98.81 E-value=4.1e-09 Score=74.51 Aligned_cols=47 Identities=36% Similarity=0.568 Sum_probs=36.8
Q ss_pred cccccceeee-ecCCcceEeccccccccccccCccccCchHHHHhHhcCCC
Q 005477 41 IVWDYFTVET-VDAGCTRACCNQCKKSFAYITGSKLAGTSHLKRHITMGIC 90 (694)
Q Consensus 41 ~vW~~F~~~~-~~~~~~~~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~~h~ 90 (694)
.||+||+.+. .++|..+|+|++|++.+++.+ .+|||+|.+||+..|.
T Consensus 1 ~vW~~F~~i~~~~~g~~~a~C~~C~~~l~~~~---~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 1 KVWKHFTLILEKDNGKQRAKCKYCGKKLSRSS---KGGTSNLRRHLRRKHP 48 (50)
T ss_pred CcCccceEEEEcCCCCeEEEecCCCCEeeeCC---CCCcHHHHHHHHhHCc
Confidence 4899999743 344557999999999998653 2599999999996454
No 8
>PF10683 DBD_Tnp_Hermes: Hermes transposase DNA-binding domain ; InterPro: IPR018473 This domain confers specific DNA-binding on Hermes transposase [].; PDB: 2BW3_B.
Probab=96.56 E-value=0.0026 Score=45.94 Aligned_cols=35 Identities=17% Similarity=0.256 Sum_probs=28.9
Q ss_pred chHhHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHh
Q 005477 131 NQDRSTQDIAKMIIVHEYPPHIVEHPAFIDFVHTL 165 (694)
Q Consensus 131 ~~~~~~~~l~~~i~~~~~P~~~ve~~~F~~l~~~l 165 (694)
+++++.+.++.|++.+..||++|++.||+++++.+
T Consensus 12 ~K~~~~~k~~qw~v~dcRpfsiv~gsGfk~la~~l 46 (68)
T PF10683_consen 12 DKKEATDKCTQWCVKDCRPFSIVSGSGFKKLAQFL 46 (68)
T ss_dssp HHHHHHHHHHHHHHHCT--GGGGG-HHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHhcCCcceeeccccHHHHHHHH
Confidence 35688999999999999999999999999998865
No 9
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 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. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=90.02 E-value=0.18 Score=34.57 Aligned_cols=28 Identities=21% Similarity=0.460 Sum_probs=19.3
Q ss_pred ceEeccccccccccccCccccCchHHHHhHhcCCCC
Q 005477 56 TRACCNQCKKSFAYITGSKLAGTSHLKRHITMGICP 91 (694)
Q Consensus 56 ~~~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~~h~~ 91 (694)
+-+.|..|+.++. ..-||+|||+..|..
T Consensus 23 ~PatCP~C~a~~~--------~srnLrRHle~~H~~ 50 (54)
T PF09237_consen 23 QPATCPICGAVIR--------QSRNLRRHLEIRHFK 50 (54)
T ss_dssp --EE-TTT--EES--------SHHHHHHHHHHHTTT
T ss_pred CCCCCCcchhhcc--------chhhHHHHHHHHhcc
Confidence 4689999999985 478999999987754
No 10
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=89.85 E-value=0.18 Score=28.80 Aligned_cols=24 Identities=33% Similarity=0.578 Sum_probs=17.8
Q ss_pred EeccccccccccccCccccCchHHHHhHhcCC
Q 005477 58 ACCNQCKKSFAYITGSKLAGTSHLKRHITMGI 89 (694)
Q Consensus 58 ~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~~h 89 (694)
..|..|+..+. ....|++|+..+|
T Consensus 1 ~~C~~C~~~~~--------~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFR--------SKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EES--------SHHHHHHHHHHHS
T ss_pred CCCcCCCCcCC--------cHHHHHHHHHhhC
Confidence 47999999985 5789999998654
No 11
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 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. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=88.97 E-value=0.22 Score=28.36 Aligned_cols=22 Identities=45% Similarity=0.757 Sum_probs=18.6
Q ss_pred EeccccccccccccCccccCchHHHHhHhc
Q 005477 58 ACCNQCKKSFAYITGSKLAGTSHLKRHITM 87 (694)
Q Consensus 58 ~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~ 87 (694)
.+|..|++.+. ..++|.+|++.
T Consensus 1 y~C~~C~~~f~--------~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFS--------SKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEES--------SHHHHHHHHHH
T ss_pred CCCCCCCCccC--------CHHHHHHHHhH
Confidence 37999999995 57999999875
No 12
>PHA00616 hypothetical protein
Probab=86.42 E-value=0.29 Score=32.88 Aligned_cols=25 Identities=16% Similarity=0.251 Sum_probs=21.1
Q ss_pred eccccccccccccCccccCchHHHHhHhcCCCC
Q 005477 59 CCNQCKKSFAYITGSKLAGTSHLKRHITMGICP 91 (694)
Q Consensus 59 ~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~~h~~ 91 (694)
+|..||+.+. ..++|.+|+.++|..
T Consensus 3 qC~~CG~~F~--------~~s~l~~H~r~~hg~ 27 (44)
T PHA00616 3 QCLRCGGIFR--------KKKEVIEHLLSVHKQ 27 (44)
T ss_pred ccchhhHHHh--------hHHHHHHHHHHhcCC
Confidence 7999999995 479999999987754
No 13
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=86.12 E-value=0.4 Score=27.90 Aligned_cols=22 Identities=32% Similarity=0.776 Sum_probs=18.8
Q ss_pred EeccccccccccccCccccCchHHHHhHhc
Q 005477 58 ACCNQCKKSFAYITGSKLAGTSHLKRHITM 87 (694)
Q Consensus 58 ~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~ 87 (694)
+.|..|++.++ +...++.|+++
T Consensus 1 ~~C~~C~~~f~--------s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFS--------SENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEES--------SHHHHHHHHTT
T ss_pred CCCCCCCCCcC--------CHHHHHHHHCc
Confidence 47999999985 57899999985
No 14
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=80.73 E-value=1.2 Score=26.41 Aligned_cols=23 Identities=30% Similarity=0.606 Sum_probs=19.2
Q ss_pred EeccccccccccccCccccCchHHHHhHhcC
Q 005477 58 ACCNQCKKSFAYITGSKLAGTSHLKRHITMG 88 (694)
Q Consensus 58 ~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~~ 88 (694)
..|..|++.+. ....|.+|.+.+
T Consensus 2 ~~C~~C~~~F~--------~~~~l~~H~~~h 24 (27)
T PF13912_consen 2 FECDECGKTFS--------SLSALREHKRSH 24 (27)
T ss_dssp EEETTTTEEES--------SHHHHHHHHCTT
T ss_pred CCCCccCCccC--------ChhHHHHHhHHh
Confidence 47999999995 578999999753
No 15
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=79.07 E-value=0.65 Score=27.67 Aligned_cols=22 Identities=32% Similarity=0.764 Sum_probs=18.5
Q ss_pred EeccccccccccccCccccCchHHHHhHhc
Q 005477 58 ACCNQCKKSFAYITGSKLAGTSHLKRHITM 87 (694)
Q Consensus 58 ~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~ 87 (694)
..|..|++.+. +...+..|+++
T Consensus 2 ~~C~~C~k~f~--------~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFS--------SENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBS--------SHHHHHCCTTS
T ss_pred CCcccCCCCcC--------CHHHHHHHHcc
Confidence 47999999985 57889999885
No 16
>PF12017 Tnp_P_element: Transposase protein; InterPro: IPR021896 Protein in this family are transposases found in insects. This region is about 230 amino acids in length and is found associated with PF05485 from PFAM.
Probab=77.70 E-value=5.7 Score=38.39 Aligned_cols=125 Identities=13% Similarity=0.078 Sum_probs=69.1
Q ss_pred CCCCHHHHHHHHHhCCCccccCccchHhHHHHH------HHHHHHHHHH-HHhccCCceEEeeccccccCCceE------
Q 005477 152 IVEHPAFIDFVHTLQPQFNVASFNTIQGDCVAI------YLREKQRLLN-FISGIHGRVNLALDLWSSNQSVGY------ 218 (694)
Q Consensus 152 ~ve~~~F~~l~~~l~p~~~~ps~~~~~~~i~~~------~~~~~~~l~~-~l~~~~~~~sl~~D~wt~~~~~~~------ 218 (694)
...-.+++.|.+ -+|.+|+..|+++.+..+ -..+..-+.. .+......+.|++|+-.-.....|
T Consensus 85 ~~spr~Y~yL~k---k~~pLPs~rTL~r~l~~v~~~pGi~~~il~~l~~~~~~~~dr~CvL~fDEm~l~~~~eYD~~~d~ 161 (236)
T PF12017_consen 85 KCSPRAYNYLRK---KGYPLPSVRTLQRWLSKVNIDPGILDFILDLLKNKSMSEEDRICVLSFDEMKLSPHLEYDPSRDE 161 (236)
T ss_pred ecChHHHHHHHH---cCCCCCCHHHHHHHHHhCCCCCCchHHHHHHHHHccCchhccEEEEEEeEEEccceeeeccccCc
Confidence 444555665554 378999999988865322 1222222221 222222357788887542111111
Q ss_pred --------EEEEEEEEeCCcceeeeEEEeeeeCCCCchhHHHHHHHHHHHhcCCcccEEEEeccCCCCchHHHHHH
Q 005477 219 --------AVLTGHFIDGDWNLHHRVLNVVMVPSPDSDVAFNQALASCLSDWRLENKLLTLTLDRSFSNETINGNL 286 (694)
Q Consensus 219 --------l~v~~~~i~~~~~~~~~~L~~~~~~~~~t~~~i~~~i~~vl~~~~i~~ki~~i~tD~a~~~~~~~~~l 286 (694)
..+.++-+...|+.- +++ .+....+++.|.+.| .-+.+-|+. |+++|+|.+++|.++..+|
T Consensus 162 v~~~~~~~~v~mvrGl~~~WKQp---i~~-~f~t~m~~~~l~~iI-~~l~~~g~~--VvAivsD~g~~N~~~w~~L 230 (236)
T PF12017_consen 162 VNEPANYVQVFMVRGLFKSWKQP---IYF-DFDTSMDADILKNII-EKLHEIGYN--VVAIVSDMGSNNISLWREL 230 (236)
T ss_pred ccChhhhhhHHHHHHHHhcCCcc---EEE-EecCcCCHHHHHHHH-HHHHHCCCE--EEEEECCCCcchHHHHHHc
Confidence 112222223444322 222 224455666665544 567888885 9999999999999888776
No 17
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=76.53 E-value=1.6 Score=25.51 Aligned_cols=20 Identities=25% Similarity=0.647 Sum_probs=17.5
Q ss_pred EeccccccccccccCccccCchHHHHhHh
Q 005477 58 ACCNQCKKSFAYITGSKLAGTSHLKRHIT 86 (694)
Q Consensus 58 ~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~ 86 (694)
+.|..|+..+ +...+.+|+.
T Consensus 3 ~~C~~CgR~F---------~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCPICGRKF---------NPDRLEKHEK 22 (25)
T ss_pred CcCCCCCCEE---------CHHHHHHHHH
Confidence 5799999999 4789999986
No 18
>PHA02768 hypothetical protein; Provisional
Probab=73.53 E-value=1.9 Score=30.66 Aligned_cols=24 Identities=13% Similarity=0.275 Sum_probs=19.7
Q ss_pred EeccccccccccccCccccCchHHHHhHhcCC
Q 005477 58 ACCNQCKKSFAYITGSKLAGTSHLKRHITMGI 89 (694)
Q Consensus 58 ~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~~h 89 (694)
..|..|++.++ ..++|.+|+++++
T Consensus 6 y~C~~CGK~Fs--------~~~~L~~H~r~H~ 29 (55)
T PHA02768 6 YECPICGEIYI--------KRKSMITHLRKHN 29 (55)
T ss_pred cCcchhCCeec--------cHHHHHHHHHhcC
Confidence 48999999996 3689999998744
No 19
>PF12907 zf-met2: Zinc-binding
Probab=65.05 E-value=2.5 Score=27.91 Aligned_cols=30 Identities=23% Similarity=0.394 Sum_probs=22.7
Q ss_pred EeccccccccccccCccccCchHHHHhHhcCCCCc
Q 005477 58 ACCNQCKKSFAYITGSKLAGTSHLKRHITMGICPV 92 (694)
Q Consensus 58 ~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~~h~~~ 92 (694)
.+|++|...+-... ....|+.|..+||...
T Consensus 2 i~C~iC~qtF~~t~-----~~~~L~eH~enKHpK~ 31 (40)
T PF12907_consen 2 IICKICRQTFMQTT-----NEPQLKEHAENKHPKN 31 (40)
T ss_pred cCcHHhhHHHHhcC-----CHHHHHHHHHccCCCC
Confidence 57999998775332 4567999999999753
No 20
>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=64.33 E-value=47 Score=26.54 Aligned_cols=67 Identities=9% Similarity=0.095 Sum_probs=41.6
Q ss_pred eeeEEEeeeeCCCCchhHHHHHHHHHHHhcCCcccEEEEeccCCCCchHHHHHHHhhhccCCCccccCceeeeechHHHH
Q 005477 233 HHRVLNVVMVPSPDSDVAFNQALASCLSDWRLENKLLTLTLDRSFSNETINGNLRGFLSVKNPFMLNCQLIKGNCYARVI 312 (694)
Q Consensus 233 ~~~~L~~~~~~~~~t~~~i~~~i~~vl~~~~i~~ki~~i~tD~a~~~~~~~~~l~~~l~~~~~~~~~~~~~~i~C~~H~L 312 (694)
+..++++.-+.. .+.+.+...+..+.+.++- . ...|++|... +....++..+ |...+..|.-|.+
T Consensus 25 ~~~~v~~~l~~~-e~~~~~~~~l~~~~~~~~~-~-p~~ii~D~~~---~~~~Ai~~vf---------P~~~~~~C~~H~~ 89 (93)
T PF10551_consen 25 RGFPVAFALVSS-ESEESYEWFLEKLKEAMPQ-K-PKVIISDFDK---ALINAIKEVF---------PDARHQLCLFHIL 89 (93)
T ss_pred CEEEEEEEEEcC-CChhhhHHHHHHhhhcccc-C-ceeeeccccH---HHHHHHHHHC---------CCceEehhHHHHH
Confidence 334777776654 5666666555544444332 2 6688999985 3333344333 5677899999987
Q ss_pred HH
Q 005477 313 SR 314 (694)
Q Consensus 313 nl 314 (694)
..
T Consensus 90 ~n 91 (93)
T PF10551_consen 90 RN 91 (93)
T ss_pred Hh
Confidence 64
No 21
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=60.34 E-value=5.2 Score=25.31 Aligned_cols=24 Identities=17% Similarity=0.436 Sum_probs=19.3
Q ss_pred eEeccccccccccccCccccCchHHHHhHhcC
Q 005477 57 RACCNQCKKSFAYITGSKLAGTSHLKRHITMG 88 (694)
Q Consensus 57 ~~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~~ 88 (694)
...|.+|++.+. +...+..|++++
T Consensus 3 ~~~C~~C~~~~~--------~~~~~~~H~~gk 26 (35)
T smart00451 3 GFYCKLCNVTFT--------DEISVEAHLKGK 26 (35)
T ss_pred CeEccccCCccC--------CHHHHHHHHChH
Confidence 367999999985 478889999853
No 22
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=56.43 E-value=5.6 Score=34.39 Aligned_cols=25 Identities=32% Similarity=0.514 Sum_probs=15.6
Q ss_pred ceEeccccccccccccCccccCchHHHHhHhcCCCC
Q 005477 56 TRACCNQCKKSFAYITGSKLAGTSHLKRHITMGICP 91 (694)
Q Consensus 56 ~~~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~~h~~ 91 (694)
..++|..||+.++ .|+|||..+|..
T Consensus 71 d~i~clecGk~~k-----------~LkrHL~~~~gl 95 (132)
T PF05443_consen 71 DYIICLECGKKFK-----------TLKRHLRTHHGL 95 (132)
T ss_dssp S-EE-TBT--EES-----------BHHHHHHHTT-S
T ss_pred CeeEEccCCcccc-----------hHHHHHHHccCC
Confidence 3789999999873 369999987664
No 23
>smart00355 ZnF_C2H2 zinc finger.
Probab=50.88 E-value=10 Score=21.48 Aligned_cols=20 Identities=40% Similarity=0.785 Sum_probs=16.7
Q ss_pred eccccccccccccCccccCchHHHHhHh
Q 005477 59 CCNQCKKSFAYITGSKLAGTSHLKRHIT 86 (694)
Q Consensus 59 ~C~~C~~~~~~~~~~~~~~ts~l~~Hl~ 86 (694)
.|..|++.+. +.+.+.+|+.
T Consensus 2 ~C~~C~~~f~--------~~~~l~~H~~ 21 (26)
T smart00355 2 RCPECGKVFK--------SKSALKEHMR 21 (26)
T ss_pred CCCCCcchhC--------CHHHHHHHHH
Confidence 6999998884 5789999987
No 24
>PLN03097 FHY3 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provisional
Probab=50.67 E-value=1.4e+02 Score=35.12 Aligned_cols=80 Identities=6% Similarity=0.134 Sum_probs=48.4
Q ss_pred EEEEeCCcceeeeEEEeeeeCCCCchhH---HHHHHHHHHHhcCCcccEEEEeccCCCCchHHHHHHHhhhccCCCcccc
Q 005477 223 GHFIDGDWNLHHRVLNVVMVPSPDSDVA---FNQALASCLSDWRLENKLLTLTLDRSFSNETINGNLRGFLSVKNPFMLN 299 (694)
Q Consensus 223 ~~~i~~~~~~~~~~L~~~~~~~~~t~~~---i~~~i~~vl~~~~i~~ki~~i~tD~a~~~~~~~~~l~~~l~~~~~~~~~ 299 (694)
+-|+.=+.-.+..++||..+.+ .+.+. +++....++ +=. .=..|+||....|..++..+ +
T Consensus 305 a~FvGvNhH~qtvlfGcaLl~d-Et~eSf~WLf~tfl~aM---~gk-~P~tIiTDqd~am~~AI~~V---f--------- 367 (846)
T PLN03097 305 ALFVGVNQHYQFMLLGCALISD-ESAATYSWLMQTWLRAM---GGQ-APKVIITDQDKAMKSVISEV---F--------- 367 (846)
T ss_pred EEEEEecCCCCeEEEEEEEccc-CchhhHHHHHHHHHHHh---CCC-CCceEEecCCHHHHHHHHHH---C---------
Confidence 3344334456678999998865 44444 344433333 222 34678999985444333332 3
Q ss_pred CceeeeechHHHHHHHHHHH
Q 005477 300 CQLIKGNCYARVISRLAQDA 319 (694)
Q Consensus 300 ~~~~~i~C~~H~Lnl~~~~~ 319 (694)
|+..|--|.-|++..+.+..
T Consensus 368 P~t~Hr~C~wHI~~~~~e~L 387 (846)
T PLN03097 368 PNAHHCFFLWHILGKVSENL 387 (846)
T ss_pred CCceehhhHHHHHHHHHHHh
Confidence 57789999999998776653
No 25
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=49.33 E-value=9.7 Score=27.16 Aligned_cols=24 Identities=25% Similarity=0.505 Sum_probs=16.0
Q ss_pred ceEeccccccccccccCccccCchHHHHhHhcCC
Q 005477 56 TRACCNQCKKSFAYITGSKLAGTSHLKRHITMGI 89 (694)
Q Consensus 56 ~~~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~~h 89 (694)
..++|.+|...+ +.+|.+||...|
T Consensus 30 ~~v~CPiC~~~~----------~~~l~~Hl~~~H 53 (54)
T PF05605_consen 30 KNVVCPICSSRV----------TDNLIRHLNSQH 53 (54)
T ss_pred CCccCCCchhhh----------hhHHHHHHHHhc
Confidence 357788887532 348888887655
No 26
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=47.44 E-value=14 Score=35.01 Aligned_cols=33 Identities=21% Similarity=0.320 Sum_probs=24.5
Q ss_pred CcceEeccccccccccccCccccCchHHHHhHhcCCCCccc
Q 005477 54 GCTRACCNQCKKSFAYITGSKLAGTSHLKRHITMGICPVSR 94 (694)
Q Consensus 54 ~~~~~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~~h~~~~~ 94 (694)
+..++.|..|+|.|+ +..=.++|+..||.....
T Consensus 74 ~~~K~~C~lc~KlFk--------g~eFV~KHI~nKH~e~ve 106 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFK--------GPEFVRKHIFNKHPEKVE 106 (214)
T ss_dssp SSEEEEE-SSS-EES--------SHHHHHHHHHHH-HHHHH
T ss_pred cCCEECCCCCCcccC--------ChHHHHHHHhhcCHHHHH
Confidence 346899999999995 678899999999976553
No 27
>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=45.87 E-value=8.7 Score=40.56 Aligned_cols=161 Identities=13% Similarity=0.039 Sum_probs=88.9
Q ss_pred hHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHhCCCccccCccchHhHHHHHHHHHHHHHHHHHhccCCceEEeecccccc
Q 005477 134 RSTQDIAKMIIVHEYPPHIVEHPAFIDFVHTLQPQFNVASFNTIQGDCVAIYLREKQRLLNFISGIHGRVNLALDLWSSN 213 (694)
Q Consensus 134 ~~~~~l~~~i~~~~~P~~~ve~~~F~~l~~~l~p~~~~ps~~~~~~~i~~~~~~~~~~l~~~l~~~~~~~sl~~D~wt~~ 213 (694)
.+...|..+ +..|+.-+ .+.+.++.+..... .|+.++++....+.+.+..=-...|...+ +..|-+|+-.-.
T Consensus 102 ~l~~~i~~l-y~~G~Str-----~i~~~l~~l~g~~~-~S~s~vSri~~~~~~~~~~w~~R~L~~~~-y~~l~iD~~~~k 173 (381)
T PF00872_consen 102 SLEELIISL-YLKGVSTR-----DIEEALEELYGEVA-VSKSTVSRITKQLDEEVEAWRNRPLESEP-YPYLWIDGTYFK 173 (381)
T ss_pred hhhhhhhhh-hccccccc-----cccchhhhhhcccc-cCchhhhhhhhhhhhhHHHHhhhcccccc-ccceeeeeeecc
Confidence 333444333 44555433 34444544433222 68888877666666665555555566543 678888875431
Q ss_pred C--CceE---EEEEEEEEeCCcceeeeEEEeeeeCCCCchhHHHHHHHHHHHhcCCcccEEEEeccCCCCchHHHHHHHh
Q 005477 214 Q--SVGY---AVLTGHFIDGDWNLHHRVLNVVMVPSPDSDVAFNQALASCLSDWRLENKLLTLTLDRSFSNETINGNLRG 288 (694)
Q Consensus 214 ~--~~~~---l~v~~~~i~~~~~~~~~~L~~~~~~~~~t~~~i~~~i~~vl~~~~i~~ki~~i~tD~a~~~~~~~~~l~~ 288 (694)
- +..+ -.+++--|+.++. ..+||+...+. .+.....+.+ .=|.+=|+. .+.-+|+|+.. +|.+
T Consensus 174 vr~~~~~~~~~~~v~iGi~~dG~--r~vLg~~~~~~-Es~~~W~~~l-~~L~~RGl~-~~~lvv~Dg~~-------gl~~ 241 (381)
T PF00872_consen 174 VREDGRVVKKAVYVAIGIDEDGR--REVLGFWVGDR-ESAASWREFL-QDLKERGLK-DILLVVSDGHK-------GLKE 241 (381)
T ss_pred cccccccccchhhhhhhhhcccc--cceeeeecccC-CccCEeeecc-hhhhhcccc-ccceeeccccc-------cccc
Confidence 1 1111 1122223344443 46888886543 3444444333 334566776 47788899985 5555
Q ss_pred hhccCCCccccCceeeeechHHHHHHHHHHH
Q 005477 289 FLSVKNPFMLNCQLIKGNCYARVISRLAQDA 319 (694)
Q Consensus 289 ~l~~~~~~~~~~~~~~i~C~~H~Lnl~~~~~ 319 (694)
.+.... |...+..|..|.+..+....
T Consensus 242 ai~~~f-----p~a~~QrC~vH~~RNv~~~v 267 (381)
T PF00872_consen 242 AIREVF-----PGAKWQRCVVHLMRNVLRKV 267 (381)
T ss_pred cccccc-----cchhhhhheechhhhhcccc
Confidence 554322 46678999999987776654
No 28
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=45.61 E-value=8.7 Score=21.88 Aligned_cols=22 Identities=36% Similarity=0.575 Sum_probs=14.6
Q ss_pred eccccccccccccCccccCchHHHHhHhcCC
Q 005477 59 CCNQCKKSFAYITGSKLAGTSHLKRHITMGI 89 (694)
Q Consensus 59 ~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~~h 89 (694)
+|..|.-.- ..++|.+|++.+|
T Consensus 2 ~C~~C~y~t---------~~~~l~~H~~~~H 23 (24)
T PF13909_consen 2 KCPHCSYST---------SKSNLKRHLKRHH 23 (24)
T ss_dssp E-SSSS-EE---------SHHHHHHHHHHHH
T ss_pred CCCCCCCcC---------CHHHHHHHHHhhC
Confidence 688998221 2568999998755
No 29
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=43.97 E-value=19 Score=29.24 Aligned_cols=27 Identities=22% Similarity=0.431 Sum_probs=21.1
Q ss_pred eEeccccccccccccCccccCchHHHHhHhcCCCC
Q 005477 57 RACCNQCKKSFAYITGSKLAGTSHLKRHITMGICP 91 (694)
Q Consensus 57 ~~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~~h~~ 91 (694)
...|.+|++.+. +...|..|+++++..
T Consensus 50 ~~~C~~C~~~f~--------s~~~l~~Hm~~~~H~ 76 (100)
T PF12756_consen 50 SFRCPYCNKTFR--------SREALQEHMRSKHHK 76 (100)
T ss_dssp SEEBSSSS-EES--------SHHHHHHHHHHTTTT
T ss_pred CCCCCccCCCCc--------CHHHHHHHHcCccCC
Confidence 489999999984 579999999975443
No 30
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=39.53 E-value=25 Score=22.21 Aligned_cols=23 Identities=22% Similarity=0.495 Sum_probs=17.4
Q ss_pred ceEeccccccccccccCccccCchHHHHhHhc
Q 005477 56 TRACCNQCKKSFAYITGSKLAGTSHLKRHITM 87 (694)
Q Consensus 56 ~~~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~ 87 (694)
..+.|..|++.+. .+.+-.||++
T Consensus 3 ~~~~C~nC~R~v~---------a~RfA~HLek 25 (33)
T PF08209_consen 3 PYVECPNCGRPVA---------ASRFAPHLEK 25 (33)
T ss_dssp -EEE-TTTSSEEE---------GGGHHHHHHH
T ss_pred CeEECCCCcCCcc---------hhhhHHHHHH
Confidence 4689999999994 5788889883
No 31
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=37.88 E-value=14 Score=34.63 Aligned_cols=36 Identities=22% Similarity=0.463 Sum_probs=21.7
Q ss_pred Cccccccccccc---ceeeee---cCCcceEecccccccccc
Q 005477 34 KRRRKKSIVWDY---FTVETV---DAGCTRACCNQCKKSFAY 69 (694)
Q Consensus 34 ~~~~~~S~vW~~---F~~~~~---~~~~~~~~C~~C~~~~~~ 69 (694)
||+--+.|+|-. |+-... ..+.+..+|.+|++++-.
T Consensus 5 kkk~~kpwcwycnrefddekiliqhqkakhfkchichkkl~s 46 (341)
T KOG2893|consen 5 KKKVDKPWCWYCNREFDDEKILIQHQKAKHFKCHICHKKLFS 46 (341)
T ss_pred ccccCCceeeecccccchhhhhhhhhhhccceeeeehhhhcc
Confidence 444456788855 442210 112457899999999843
No 32
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=37.65 E-value=19 Score=34.99 Aligned_cols=13 Identities=23% Similarity=0.363 Sum_probs=10.1
Q ss_pred CchHHHHhHhcCC
Q 005477 77 GTSHLKRHITMGI 89 (694)
Q Consensus 77 ~ts~l~~Hl~~~h 89 (694)
..|||+-|++++.
T Consensus 227 DRSNLRAHmQTHS 239 (279)
T KOG2462|consen 227 DRSNLRAHMQTHS 239 (279)
T ss_pred chHHHHHHHHhhc
Confidence 5789999998633
No 33
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=36.94 E-value=34 Score=28.59 Aligned_cols=28 Identities=18% Similarity=0.323 Sum_probs=22.3
Q ss_pred cceEeccccccccccccCccccCchHHHHhHhcCCCC
Q 005477 55 CTRACCNQCKKSFAYITGSKLAGTSHLKRHITMGICP 91 (694)
Q Consensus 55 ~~~~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~~h~~ 91 (694)
-..++|..|+.-+. ++.+..||+.+|..
T Consensus 9 ~~vlIC~~C~~av~---------~~~v~~HL~~~H~~ 36 (109)
T PF12013_consen 9 YRVLICRQCQYAVQ---------PSEVESHLRKRHHI 36 (109)
T ss_pred CCEEEeCCCCcccC---------chHHHHHHHHhccc
Confidence 35799999998873 68999999976654
No 34
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=35.06 E-value=41 Score=38.11 Aligned_cols=48 Identities=25% Similarity=0.317 Sum_probs=30.4
Q ss_pred CcccccccccccceeeeecCC-cceEeccccccccccccCccccCchHHHHhHhcCC
Q 005477 34 KRRRKKSIVWDYFTVETVDAG-CTRACCNQCKKSFAYITGSKLAGTSHLKRHITMGI 89 (694)
Q Consensus 34 ~~~~~~S~vW~~F~~~~~~~~-~~~~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~~h 89 (694)
-....+..+-.||.......+ --+-+|++|.+++. .-|.|.-||+++.
T Consensus 329 ~p~~~k~~~~~~~~v~~~~~~~~~khkCr~Cakvfg--------S~SaLqiHlRSHT 377 (958)
T KOG1074|consen 329 SPGLLKEKNGSYFSVEGPSEKPFFKHKCRFCAKVFG--------SDSALQIHLRSHT 377 (958)
T ss_pred CcccCCcccccccccccCCccccccchhhhhHhhcC--------chhhhhhhhhccC
Confidence 344456667778887643332 23568888888872 4567777777633
No 35
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=31.89 E-value=35 Score=29.21 Aligned_cols=24 Identities=33% Similarity=0.398 Sum_probs=19.6
Q ss_pred eEeccccccccccccCccccCchHHHHhHhcCCCC
Q 005477 57 RACCNQCKKSFAYITGSKLAGTSHLKRHITMGICP 91 (694)
Q Consensus 57 ~~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~~h~~ 91 (694)
+.+|.-||+.| -.|+|||..+|.-
T Consensus 76 ~IicLEDGkkf-----------KSLKRHL~t~~gm 99 (148)
T COG4957 76 YIICLEDGKKF-----------KSLKRHLTTHYGL 99 (148)
T ss_pred eEEEeccCcch-----------HHHHHHHhcccCC
Confidence 67899999988 3699999986653
No 36
>PF02914 DDE_2: Bacteriophage Mu transposase; InterPro: IPR004189 This transposase is essential for integration, replication-transposition and excision of Bacteriophage Mu DNA. Transposition requires transposase and a transposition enhancer, and the DNA can be transposed into multiple sites in bacterial genomes. The crystal structure of the core domain of Mu transposase, MuA, has been determined. The first of two subdomains contains the active site and, despite very limited sequence homology, exhibits a striking similarity to the core domain of Human immunodeficiency virus 1 integrase. The enzymatic activity of MuA is known to be activated by formation of a DNA-bound tetramer of the protein []. 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, 0015074 DNA integration; PDB: 1BCO_A 1BCM_B.
Probab=31.49 E-value=1.3e+02 Score=28.42 Aligned_cols=39 Identities=10% Similarity=0.261 Sum_probs=24.7
Q ss_pred eEEEeeeeCCCCchhHHHHHHHHHHHhcCCcccEEEEeccCCC
Q 005477 235 RVLNVVMVPSPDSDVAFNQALASCLSDWRLENKLLTLTLDRSF 277 (694)
Q Consensus 235 ~~L~~~~~~~~~t~~~i~~~i~~vl~~~~i~~ki~~i~tD~a~ 277 (694)
.+|+.+. ....+.+.|...|.+++..|||+.. +..||+.
T Consensus 43 kIlg~r~-~~seNs~~vrlsl~d~i~~yGIP~~---l~iDNGr 81 (219)
T PF02914_consen 43 KILGWRI-DKSENSDTVRLSLGDMIERYGIPKH---LYIDNGR 81 (219)
T ss_dssp -EEEEEE-ESS--HHHHHHHHHHHHHHH-EESE---EE---SS
T ss_pred ceEEEEe-cCCcCHHHHHHHHHHHHHhcCCCce---EEEeCCH
Confidence 4566654 3447888999999999999999964 4679985
No 37
>PHA00732 hypothetical protein
Probab=30.21 E-value=37 Score=26.49 Aligned_cols=25 Identities=20% Similarity=0.186 Sum_probs=19.3
Q ss_pred EeccccccccccccCccccCchHHHHhHhcCCC
Q 005477 58 ACCNQCKKSFAYITGSKLAGTSHLKRHITMGIC 90 (694)
Q Consensus 58 ~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~~h~ 90 (694)
..|..|++.+. ..++|.+|++..|.
T Consensus 2 y~C~~Cgk~F~--------s~s~Lk~H~r~~H~ 26 (79)
T PHA00732 2 FKCPICGFTTV--------TLFALKQHARRNHT 26 (79)
T ss_pred ccCCCCCCccC--------CHHHHHHHhhcccC
Confidence 36999999985 47899999875343
No 38
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=26.51 E-value=44 Score=23.60 Aligned_cols=33 Identities=18% Similarity=0.235 Sum_probs=23.6
Q ss_pred eecCCcceEeccccccccccccCccccCchHHHHhHhcCCC
Q 005477 50 TVDAGCTRACCNQCKKSFAYITGSKLAGTSHLKRHITMGIC 90 (694)
Q Consensus 50 ~~~~~~~~~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~~h~ 90 (694)
...+|.....|..|+..+.+. -...||....|.
T Consensus 10 ~~RDGE~~lrCPRC~~~FR~~--------K~Y~RHVNKaH~ 42 (65)
T COG4049 10 RDRDGEEFLRCPRCGMVFRRR--------KDYIRHVNKAHG 42 (65)
T ss_pred eccCCceeeeCCchhHHHHHh--------HHHHHHhhHHhh
Confidence 345677899999999999653 445677765443
No 39
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=25.94 E-value=44 Score=29.64 Aligned_cols=35 Identities=23% Similarity=0.275 Sum_probs=23.6
Q ss_pred CcceEeccccccccccccCccccCchHHHHhHhc-CCC
Q 005477 54 GCTRACCNQCKKSFAYITGSKLAGTSHLKRHITM-GIC 90 (694)
Q Consensus 54 ~~~~~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~-~h~ 90 (694)
....++|..|++-|..+ ..+.+.||...||.+ +|.
T Consensus 11 p~~vv~C~~c~kWFCNg--~~~~s~SHIv~HLv~srh~ 46 (152)
T PF09416_consen 11 PSCVVKCNTCNKWFCNG--RGNTSGSHIVNHLVRSRHK 46 (152)
T ss_dssp CCCEEEETTTTEEEES----TTSSS-HHHHHHHHHT--
T ss_pred cccEeEcCCCCcEeecC--CCCCcccHHHHHHHHccCC
Confidence 34689999999999653 334478999999984 444
No 40
>PHA00733 hypothetical protein
Probab=25.01 E-value=43 Score=29.03 Aligned_cols=24 Identities=25% Similarity=0.450 Sum_probs=13.8
Q ss_pred EeccccccccccccCccccCchHHHHhHhcCC
Q 005477 58 ACCNQCKKSFAYITGSKLAGTSHLKRHITMGI 89 (694)
Q Consensus 58 ~~C~~C~~~~~~~~~~~~~~ts~l~~Hl~~~h 89 (694)
..|..|++.+. ..++|.+|...+|
T Consensus 100 ~~C~~CgK~F~--------~~~sL~~H~~~~h 123 (128)
T PHA00733 100 KVCPVCGKEFR--------NTDSTLDHVCKKH 123 (128)
T ss_pred ccCCCCCCccC--------CHHHHHHHHHHhc
Confidence 35666666553 3556666666555
No 41
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=23.83 E-value=43 Score=19.59 Aligned_cols=15 Identities=40% Similarity=0.680 Sum_probs=11.6
Q ss_pred CcceEeccccccccc
Q 005477 54 GCTRACCNQCKKSFA 68 (694)
Q Consensus 54 ~~~~~~C~~C~~~~~ 68 (694)
|.+...|..|++.+.
T Consensus 11 ~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 11 GEKPYKCPYCGKSFS 25 (26)
T ss_dssp SSSSEEESSSSEEES
T ss_pred CCCCCCCCCCcCeeC
Confidence 345689999999874
No 42
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=23.63 E-value=32 Score=38.20 Aligned_cols=13 Identities=31% Similarity=0.966 Sum_probs=6.7
Q ss_pred eEecccccccccc
Q 005477 57 RACCNQCKKSFAY 69 (694)
Q Consensus 57 ~~~C~~C~~~~~~ 69 (694)
+.+|+-|+|-|+|
T Consensus 281 KFKCtECgKAFKf 293 (1007)
T KOG3623|consen 281 KFKCTECGKAFKF 293 (1007)
T ss_pred cccccccchhhhh
Confidence 4555555555543
No 43
>PRK00415 rps27e 30S ribosomal protein S27e; Reviewed
Probab=22.84 E-value=45 Score=24.22 Aligned_cols=26 Identities=35% Similarity=0.547 Sum_probs=18.4
Q ss_pred cceEeccccccccccccCccccCchHHHHh
Q 005477 55 CTRACCNQCKKSFAYITGSKLAGTSHLKRH 84 (694)
Q Consensus 55 ~~~~~C~~C~~~~~~~~~~~~~~ts~l~~H 84 (694)
...+.|..|+..+....| |...+..+
T Consensus 28 ~t~V~C~~Cg~~L~~PtG----GKa~i~~~ 53 (59)
T PRK00415 28 STVVRCLVCGKTLAEPTG----GKAKIKGE 53 (59)
T ss_pred CcEEECcccCCCcccCCC----cceeeehh
Confidence 457899999999977654 55555444
No 44
>PF10276 zf-CHCC: Zinc-finger domain; InterPro: IPR019401 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. This entry represents a short conserved zinc-finger domain. It contains the sequence motif Cx8Hx14Cx2C. ; PDB: 2JVM_A 2JRR_A 2JZ8_A.
Probab=21.52 E-value=75 Score=21.10 Aligned_cols=12 Identities=17% Similarity=0.623 Sum_probs=10.0
Q ss_pred ceEecccccccc
Q 005477 56 TRACCNQCKKSF 67 (694)
Q Consensus 56 ~~~~C~~C~~~~ 67 (694)
..+.|.+|+..+
T Consensus 28 ~~~~CpYCg~~y 39 (40)
T PF10276_consen 28 GPVVCPYCGTRY 39 (40)
T ss_dssp CEEEETTTTEEE
T ss_pred CeEECCCCCCEE
Confidence 379999999865
Done!