Query 004439
Match_columns 753
No_of_seqs 179 out of 205
Neff 3.9
Searched_HMMs 46136
Date Thu Mar 28 23:28:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004439.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004439hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2295 C2H2 Zn-finger protein 100.0 3.4E-79 7.4E-84 665.2 14.7 555 43-664 27-608 (648)
2 PF04959 ARS2: Arsenite-resist 100.0 2.8E-36 6.1E-41 303.9 7.2 129 456-594 2-136 (214)
3 PF12066 DUF3546: Domain of un 99.9 3.1E-25 6.8E-30 203.5 9.0 85 227-311 1-85 (110)
4 KOG2295 C2H2 Zn-finger protein 99.0 4.5E-10 9.8E-15 125.6 5.6 92 220-311 42-133 (648)
5 PF13821 DUF4187: Domain of un 98.1 1.7E-06 3.8E-11 71.7 2.0 32 426-457 8-39 (55)
6 PF13894 zf-C2H2_4: C2H2-type 88.3 0.35 7.5E-06 31.8 1.9 24 531-556 1-24 (24)
7 PF00096 zf-C2H2: Zinc finger, 87.6 0.28 6E-06 33.0 1.1 23 531-556 1-23 (23)
8 smart00451 ZnF_U1 U1-like zinc 84.1 0.79 1.7E-05 33.5 2.1 30 530-561 3-33 (35)
9 KOG1994 Predicted RNA binding 82.5 1.2 2.6E-05 47.1 3.4 82 366-457 167-251 (268)
10 KOG0717 Molecular chaperone (D 82.0 1.3 2.8E-05 50.8 3.7 43 527-571 289-332 (508)
11 PF12756 zf-C2H2_2: C2H2 type 80.4 0.83 1.8E-05 39.5 1.2 31 530-562 50-81 (100)
12 PF12171 zf-C2H2_jaz: Zinc-fin 78.6 0.81 1.8E-05 32.4 0.5 24 530-555 1-24 (27)
13 KOG3973 Uncharacterized conser 77.2 7 0.00015 43.9 7.3 24 172-197 376-399 (465)
14 PF12874 zf-met: Zinc-finger o 77.1 1.3 2.7E-05 30.4 1.1 22 531-554 1-22 (25)
15 PF04959 ARS2: Arsenite-resist 72.0 0.92 2E-05 47.4 -0.9 39 514-553 65-103 (214)
16 smart00355 ZnF_C2H2 zinc finge 70.1 3.6 7.8E-05 27.0 1.9 24 531-557 1-24 (26)
17 PHA00616 hypothetical protein 69.1 2.2 4.7E-05 34.7 0.8 26 531-558 2-27 (44)
18 PF13912 zf-C2H2_6: C2H2-type 60.2 5.8 0.00013 27.5 1.5 25 531-557 2-26 (27)
19 KOG1924 RhoA GTPase effector D 58.1 19 0.00042 44.2 6.2 18 290-307 135-152 (1102)
20 PF02892 zf-BED: BED zinc fing 45.8 14 0.00031 28.6 1.8 27 529-557 15-45 (45)
21 PF04780 DUF629: Protein of un 43.9 22 0.00047 41.4 3.6 42 515-562 45-87 (466)
22 KOG0921 Dosage compensation co 42.7 1.1E+02 0.0024 38.8 9.2 19 122-143 1156-1174(1282)
23 KOG3875 Peroxisomal biogenesis 41.8 60 0.0013 36.4 6.3 15 112-127 4-18 (362)
24 KOG3993 Transcription factor ( 40.4 10 0.00022 43.6 0.3 27 530-558 356-382 (500)
25 PF13465 zf-H2C2_2: Zinc-finge 40.1 17 0.00036 25.8 1.3 24 515-543 2-25 (26)
26 KOG2482 Predicted C2H2-type Zn 38.1 5.9 0.00013 44.3 -1.9 59 529-592 194-252 (423)
27 KOG1924 RhoA GTPase effector D 37.8 65 0.0014 40.0 6.2 26 676-701 542-567 (1102)
28 KOG2654 Uncharacterized conser 34.3 82 0.0018 36.4 6.0 24 67-94 105-128 (461)
29 PF05605 zf-Di19: Drought indu 34.0 32 0.00069 28.1 2.1 26 530-558 2-27 (54)
30 PF05443 ROS_MUCR: ROS/MUCR tr 31.7 33 0.00072 33.7 2.2 34 527-565 69-102 (132)
31 KOG2893 Zn finger protein [Gen 31.3 1.6E+02 0.0034 32.2 7.2 33 530-565 34-67 (341)
32 COG5192 BMS1 GTP-binding prote 31.1 50 0.0011 39.8 3.9 48 235-285 506-566 (1077)
33 KOG4173 Alpha-SNAP protein [In 30.8 26 0.00056 37.2 1.4 49 507-556 122-170 (253)
34 KOG2146 Splicing coactivator S 30.6 1.2E+02 0.0027 33.7 6.4 42 87-136 194-241 (354)
35 PF01715 IPPT: IPP transferase 29.9 83 0.0018 33.5 5.0 48 225-273 203-250 (253)
36 PHA00733 hypothetical protein 29.1 39 0.00084 32.6 2.2 26 530-557 99-124 (128)
37 PF04423 Rad50_zn_hook: Rad50 28.8 86 0.0019 25.7 3.9 46 513-566 7-52 (54)
38 PLN02748 tRNA dimethylallyltra 28.4 65 0.0014 37.6 4.2 35 530-566 418-454 (468)
39 PF13913 zf-C2HC_2: zinc-finge 27.9 44 0.00096 23.8 1.7 20 532-554 4-23 (25)
40 PF13909 zf-H2C2_5: C2H2-type 26.4 37 0.00079 23.1 1.1 24 531-557 1-24 (24)
41 PRK00091 miaA tRNA delta(2)-is 23.9 1.1E+02 0.0024 33.7 4.7 49 225-274 239-287 (307)
42 KOG4702 Uncharacterized conser 23.3 1.5E+02 0.0032 26.9 4.5 35 227-261 30-64 (77)
43 PHA02768 hypothetical protein; 22.2 57 0.0012 27.8 1.7 24 531-557 6-29 (55)
44 COG0324 MiaA tRNA delta(2)-iso 22.0 1.7E+02 0.0037 32.5 5.7 50 224-274 239-288 (308)
45 TIGR00174 miaA tRNA isopenteny 21.7 1.2E+02 0.0027 33.1 4.6 41 225-266 235-275 (287)
46 TIGR00570 cdk7 CDK-activating 21.5 2.1E+02 0.0047 32.0 6.3 87 224-311 91-194 (309)
47 KOG3623 Homeobox transcription 20.7 37 0.00081 41.6 0.4 29 529-559 280-308 (1007)
48 PF05605 zf-Di19: Drought indu 20.4 1.2E+02 0.0026 24.8 3.2 24 530-557 31-54 (54)
49 COG4957 Predicted transcriptio 20.3 55 0.0012 32.7 1.4 45 529-587 75-119 (148)
No 1
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=100.00 E-value=3.4e-79 Score=665.23 Aligned_cols=555 Identities=27% Similarity=0.284 Sum_probs=466.1
Q ss_pred CCCCCCCCCCCC---CCcccccchhhhhhccCCCCCCCCCCCCCCCCcCCCCCCCCCCCccchhhhhccCCCCCCCCCCC
Q 004439 43 NNSAPQSSPPPP---PPPARRRERDSRERRDDRDLDRPPPNRRGPDYYDRNRSPPPPMPRERDRDYKRRSTVSPPPPPLP 119 (753)
Q Consensus 43 ~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~ 119 (753)
.-++|-|++|+- .+++-++.+++|.+++++|+++++..++ |-|+..-|+ +.+.+++..+.++++ +
T Consensus 27 ~r~~p~S~sp~geqs~~~p~r~t~kkr~~~~dddi~e~~p~kr---ynd~k~dp~------~qq~~~~f~a~k~ee---w 94 (648)
T KOG2295|consen 27 ERSQPRSQSPPGEQSAYHPERSTFKKRLNSYDDDIRESGPYKR---YNDYKIDPR------TQQNAVFFEAHKDEE---W 94 (648)
T ss_pred CCCCccccCCCccccccCcccchHHHhhcccccccccCCCccc---ccccCCCCc------hhhhHHHHHhcCCcc---h
Confidence 334444444444 3355678899999999999999966654 777777666 237888888877776 9
Q ss_pred CCCCCCCCC--CCCCCCccCccCCCCCCCCCCCCCCCCCCC-CCCCcccCCCCccccCCCCCCCCCCCCCCCCCCCCCCC
Q 004439 120 YRDRRHSPP--PRRSPPYKRSRRDDGGYEPRRGSPRGGFGP-DRRFGYDYTGGYEREMGGRPGYGDERPHGRFAGRSSGG 196 (753)
Q Consensus 120 ~~~rr~SP~--~~~spp~kR~rr~~~g~d~~~g~p~~~~g~-d~~~g~~~~~g~~~~~gg~~~~~~~~~~g~~~~~~~~g 196 (753)
||+++|+++ -++++++++.+++..+|+++.+.+.++++. |.+|+|++..++.++|++..+++....++.++++..
T Consensus 95 yr~k~h~d~~~k~r~~~~g~yqn~~q~f~~r~e~~~~~~~~~D~~fada~~~~~d~~vv~~~g~te~~~r~~l~qk~e-- 172 (648)
T KOG2295|consen 95 YRKKYHPDATEKLRNSLHGTYQNRLQVFYARTERGFFESHCLDAWFADAIWVMLDQGVVKEEGGTEKSLRRALYQKFE-- 172 (648)
T ss_pred hhhccCCChHHHHHHHHHHHHHHHHHHHHHhhcccccccCCcccchhhhHhhhhhhhhhcccCCCcccHHHHHHHHhh--
Confidence 999999999 778999999998888999999999999998 999999999999999999999999999998888876
Q ss_pred CCCCCCCcCCCCCCCCCCCCCCCCCCCCCCCHHHHHHhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCChhHHhhc
Q 004439 197 YQSGPSEWDSSRGGYGDASNTGSTQREGLMSYKQFIQELEDDILPAEAERRYQEYKSEYISTQKRVFFDAHKDEEWLKDK 276 (753)
Q Consensus 197 ~~~~p~~~~~~~~g~~~~~~~~~~~~~~lmsFKqFl~~~eD~IspeEA~~rY~eYK~ef~~kq~r~FF~~HKdEeWFrEK 276 (753)
| ..+.+||.++..++..+....|++|+ +|++++..+...|++| .+|. .|..+||+.||...||..+
T Consensus 173 ------D-e~~~~gy~De~~~gt~e~e~kkssk~-----ddd~d~s~~ee~e~e~-se~~-tqksa~~n~hke~sll~rn 238 (648)
T KOG2295|consen 173 ------D-EGLDAGYKDEFQLGTAEDEIKKSSKP-----DDDTDDSILEENEPEL-SEWG-TQKSANDNTHKECSLLVRN 238 (648)
T ss_pred ------h-ccccccccccccCCCcchhhhcccCc-----ccccCcccccccchhh-hhhh-hhhhhhhhhhHHHHHHHhc
Confidence 3 45678999999889999999999998 9999999999999999 8887 8999999999999999999
Q ss_pred cCCcchHHHHHHH-------------HHHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccc
Q 004439 277 YHPTNLVAVIERR-------------NDLARKVAKDFLLDLQSGTLDLGPSVNASSSNKLGQTSEPNSDDDVDNGGKRRR 343 (753)
Q Consensus 277 Y~P~~l~~v~erR-------------nE~~~~aak~Fi~dLesGtlD~~pgv~~~~sdksG~~sdpnse~e~~~~~Kr~R 343 (753)
|+|.++.+.++.. +-++...+..|+-.+.++++++++.+.+. ++.+-++.++++.+...++++.|
T Consensus 239 i~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aL--n~irl~s~~~se~en~~i~rrvr 316 (648)
T KOG2295|consen 239 ILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWAL--NGIRLRSNFLSESENPDITRRVR 316 (648)
T ss_pred cCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHh--hhccccccccccccccCccceec
Confidence 9999998877743 33667778888889999999998766665 34455567788877777888888
Q ss_pred ccCCCCCcccccc-cCCCCCCCCCchhHHHHhHHHHHHHHHHHhhhccccccccCCCCcccccccccC-CCCCCceeecc
Q 004439 344 HGRGPAKETDLLS-AAPKAHPISSEPRRIQVDIEQAQALVRKLDSEKGITENILCGSDNDKMNREKSH-GSTGPVIIIRG 421 (753)
Q Consensus 344 ~Gwv~fkesD~~s-~aPKahPi~S~peRI~~DLeqAr~LV~kLDaEkGIe~N~L~~~d~~~~d~dksh-~s~gp~~i~rg 421 (753)
++-+-.+...+++ +|+|...+.+.+-||..+.+|+..|+.+|+.++-|..|++.......+..++.+ ++.+|+++++|
T Consensus 317 ~~~Gia~~keiasn~a~k~~~lldk~irl~~~a~~t~al~tkl~s~n~i~kni~d~l~te~S~eE~e~~gssg~e~p~eg 396 (648)
T KOG2295|consen 317 PINGIAKHKEIASNAAQKLKNLLDKLIRLIDRASQTQALVTKLSSPNPIAKNIEDRLKTEASMEEDELLGSSGPEVPIEG 396 (648)
T ss_pred cCCchhhHHHHHHHHHHhhhHHHhhhHHHhhcccccccchhhccCCCHHHHHHHHHhhhhcchhhhhhcCCCCCcCcccc
Confidence 8876656555544 799999999999999999999999999999999998888655443334444444 37889999999
Q ss_pred cccccCcchhhHHHHHHHHHHHHhhcccccccccc------cccccccccCCCCCCccCCchhhHHHhhHHHHHHHhhcC
Q 004439 422 LTSVKGLEGVELLDTLITYLWRIHGVDYYGMVETS------EAKGLRHVRAEGKSSDITNNGAEWEKKLDFRWQERLRSQ 495 (753)
Q Consensus 422 ~~~veg~e~~e~LDllI~YLRrVHsvDYY~~~E~d------ercgl~HvR~~~k~~~~~s~~~dWeKklD~~~q~rL~~~ 495 (753)
++.+.+++.+++||+||+|||+||++|||+.+||+ ++||++|||+++..+. .+..+|+++|++.|+.+|...
T Consensus 397 ~~~er~d~~lk~LDll~~YLr~VhslDfyn~~ey~~e~~mpnrcgl~hvR~~~~vs~--~ev~e~es~f~s~le~~l~~~ 474 (648)
T KOG2295|consen 397 LTSERDDIRLKLLDLLAEYLRIVHSLDFYNSKEYESEDAMPNRCGLIHVRGKGFVSS--KEVGEEESIFLSDLENNLACL 474 (648)
T ss_pred CccccchhHHHHHHHHHHHHHHHHhcccccccccchhhhcccccCceeecccCCCCc--ccchhHHHHHHHHhhhccccc
Confidence 99999999999999999999999999999999987 4899999999854432 246789999999999999988
Q ss_pred ChhhHhhhhhhHHHHHHHhhhhHHHhhhhcccCcccccCCCCccccccchhHHHHHHhhhChHHHHHHHhhHHHHHHHhh
Q 004439 496 DPLEIMTAKDKIDAAAVDALDPFVRKIRDEKYGWKYGCGAKGCTKLFHAAEFVHKHLKLKHPELVIELTSKVREELYFQN 575 (753)
Q Consensus 496 Dple~l~~kdkID~el~e~le~fVkk~~DEk~g~K~rC~v~gCtKLFKgpEFV~KHI~nKH~E~Veev~~kv~E~~yFNN 575 (753)
++++.+-+++++++.++++|++||.+|++|+++|||+|+|++|+|||||+|||+|||++||.|||+++++ |++||||
T Consensus 475 ~~lee~eakkkg~k~~e~eve~~v~s~t~e~~kdKy~C~lsgc~KlF~gpEFvrKHi~~KH~d~leeirk---ea~ffnn 551 (648)
T KOG2295|consen 475 LELEEEEAKKKGAKDVEDEVENFVDSNTMELDKDKYLCPLSGCAKLFKGPEFVRKHINKKHKDKLEEIRK---EAIFFNN 551 (648)
T ss_pred ccchHHHHHHhcccCHHHHHHHHHHHHHHHhhcccccCCCcchHhhccCHHHHHHHHHHHHHHHHHHHHH---HHHHHHh
Confidence 8888888888888889999999999999999999999999999999999999999999999999999985 8999999
Q ss_pred hccCCCCCCCCCCCCCCCCCCcccccCCCCCCcccccccCccccccccCCCCCCCCCccccCCCCCCCCCCCCCCCCCCc
Q 004439 576 YMNDPDAPGGTPVMQQPMPKDRPLRRKLGPDNRLKDERGNRRDRDYRANGSDRYDRSDNAQASDFPSNDDVPEGANRDES 655 (753)
Q Consensus 576 Yl~DP~RP~~~pv~~q~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 655 (753)
||+|||||..++| +++.|.+.++++ |+++|++|. .+....+|+++-..
T Consensus 552 Yl~Dp~rp~~pe~-~~q~prd~qIl~--------r~~~gG~r~-----------------------~~r~~~dg~~p~~~ 599 (648)
T KOG2295|consen 552 YLLDPCRPMDPEV-VSQSPRDLQILN--------RGPYGGFRN-----------------------YNRNYTDGTTPYGR 599 (648)
T ss_pred hccCccccCCCcc-ccCCCCcccccc--------CCCCCCccC-----------------------CCCCCCCCCCCCCC
Confidence 9999999988888 666665555533 334444433 11122567888888
Q ss_pred ccccCCCCc
Q 004439 656 MFDTFGGQG 664 (753)
Q Consensus 656 ~~d~~~~~~ 664 (753)
-+|.|||.|
T Consensus 600 g~d~fgg~G 608 (648)
T KOG2295|consen 600 GRDEFGGSG 608 (648)
T ss_pred CCCcccCCC
Confidence 899999988
No 2
>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=100.00 E-value=2.8e-36 Score=303.92 Aligned_cols=129 Identities=33% Similarity=0.549 Sum_probs=66.2
Q ss_pred ccccccccccCCCCCCccCC-chhhHHHhhHHHHHHHhhcCC-----hhhHhhhhhhHHHHHHHhhhhHHHhhhhcccCc
Q 004439 456 SEAKGLRHVRAEGKSSDITN-NGAEWEKKLDFRWQERLRSQD-----PLEIMTAKDKIDAAAVDALDPFVRKIRDEKYGW 529 (753)
Q Consensus 456 dercgl~HvR~~~k~~~~~s-~~~dWeKklD~~~q~rL~~~D-----ple~l~~kdkID~el~e~le~fVkk~~DEk~g~ 529 (753)
.+||||+|||++.+++.+++ +..+|+|+|+++|+.+|+..+ .+.+|+++ .+++ +|++||.++++|+++|
T Consensus 2 p~rcGi~HvRg~~p~~~~~~~e~~~w~k~~e~kl~~~L~~~~~l~~~~~~klG~k-~~e~----eve~~v~~~~~e~~~~ 76 (214)
T PF04959_consen 2 PNRCGIIHVRGPPPSNRVTSDEVSEWVKTFEEKLQQLLEPRETLSEEELKKLGGK-DPEE----EVEKFVQKNTKEEDED 76 (214)
T ss_dssp ------------------------HHHHHHHHHHHHHHHS--HHHHHH-HHHHHH-HHHH----HHGGGEEEEE-SSSSE
T ss_pred cccccccccccccccCccCHHHHHHHHHHHHHHHHHHcCCcCcCChHHHHHHccC-cHHH----HHHHHHHHHHHHHcCC
Confidence 47999999999988766543 567999999999999997654 34445555 3554 4555555555555668
Q ss_pred ccccCCCCccccccchhHHHHHHhhhChHHHHHHHhhHHHHHHHhhhccCCCCCCCCCCCCCCCC
Q 004439 530 KYGCGAKGCTKLFHAAEFVHKHLKLKHPELVIELTSKVREELYFQNYMNDPDAPGGTPVMQQPMP 594 (753)
Q Consensus 530 K~rC~v~gCtKLFKgpEFV~KHI~nKH~E~Veev~~kv~E~~yFNNYl~DP~RP~~~pv~~q~~~ 594 (753)
||+|++ |+|||||+|||+|||+|||+|||+++++ |+.||||||+||+||+.+.+++++.+
T Consensus 77 K~~C~l--c~KlFkg~eFV~KHI~nKH~e~ve~~~~---ev~~fnnY~~Dp~rp~~~~~~~~~~p 136 (214)
T PF04959_consen 77 KWRCPL--CGKLFKGPEFVRKHIFNKHPEKVEEVKK---EVEYFNNYLLDPKRPQPPEANPNQHP 136 (214)
T ss_dssp EEEE-S--SS-EESSHHHHHHHHHHH-HHHHHHHHH---HHHHHHHH------------------
T ss_pred EECCCC--CCcccCChHHHHHHHhhcCHHHHHHHHH---HHHHHHHHhcCcccCCCCcccccCcc
Confidence 999985 9999999999999999999999999986 57899999999999987776665544
No 3
>PF12066 DUF3546: Domain of unknown function (DUF3546); InterPro: IPR021933 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 93 to 114 amino acids in length. This domain has two completely conserved Y residues that may be functionally important. ; PDB: 3AX1_A.
Probab=99.92 E-value=3.1e-25 Score=203.45 Aligned_cols=85 Identities=46% Similarity=0.868 Sum_probs=76.6
Q ss_pred CHHHHHHhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCChhHHhhccCCcchHHHHHHHHHHHHHHHHHHHHHhhc
Q 004439 227 SYKQFIQELEDDILPAEAERRYQEYKSEYISTQKRVFFDAHKDEEWLKDKYHPTNLVAVIERRNDLARKVAKDFLLDLQS 306 (753)
Q Consensus 227 sFKqFl~~~eD~IspeEA~~rY~eYK~ef~~kq~r~FF~~HKdEeWFrEKY~P~~l~~v~erRnE~~~~aak~Fi~dLes 306 (753)
|||||++.++|+|++++|+++|++||.+|+++|+++||++||+++||+|||||+.+..+.++|++.+++++++|+++|++
T Consensus 1 tfK~F~~~~~D~i~~~ea~~~Y~eYK~e~~~~q~~~FF~~HK~eeWFreKY~P~~~~~~~~~~~~~~~~~~~~F~~~l~~ 80 (110)
T PF12066_consen 1 TFKQFLEQQDDDITPEEAQKRYDEYKEEFQRKQLRAFFEQHKDEEWFREKYHPEELDKRREERKEFRKGRADVFMEDLES 80 (110)
T ss_dssp -HHHHGGGTTTS--HHHHHHHHHHHHHHHHHHHHHHHHHHHTTSHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred CHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHhcCcHhhHHHHHHHHHHHHHHHHHHHHHHHC
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCC
Q 004439 307 GTLDL 311 (753)
Q Consensus 307 GtlD~ 311 (753)
|+||.
T Consensus 81 G~~d~ 85 (110)
T PF12066_consen 81 GKFDE 85 (110)
T ss_dssp T----
T ss_pred CCCcc
Confidence 99994
No 4
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=98.97 E-value=4.5e-10 Score=125.57 Aligned_cols=92 Identities=27% Similarity=0.490 Sum_probs=80.0
Q ss_pred CCCCCCCCHHHHHHhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCChhHHhhccCCcchHHHHHHHHHHHHHHHHH
Q 004439 220 TQREGLMSYKQFIQELEDDILPAEAERRYQEYKSEYISTQKRVFFDAHKDEEWLKDKYHPTNLVAVIERRNDLARKVAKD 299 (753)
Q Consensus 220 ~~~~~lmsFKqFl~~~eD~IspeEA~~rY~eYK~ef~~kq~r~FF~~HKdEeWFrEKY~P~~l~~v~erRnE~~~~aak~ 299 (753)
.+.+.+-|||.|+.+++|+|...++.++|++||.++..+|...||.+||+|+||+.||||....+.+..-....++....
T Consensus 42 ~~~p~r~t~kkr~~~~dddi~e~~p~krynd~k~dp~~qq~~~~f~a~k~eewyr~k~h~d~~~k~r~~~~g~yqn~~q~ 121 (648)
T KOG2295|consen 42 AYHPERSTFKKRLNSYDDDIRESGPYKRYNDYKIDPRTQQNAVFFEAHKDEEWYRKKYHPDATEKLRNSLHGTYQNRLQV 121 (648)
T ss_pred ccCcccchHHHhhcccccccccCCCcccccccCCCCchhhhHHHHHhcCCcchhhhccCCChHHHHHHHHHHHHHHHHHH
Confidence 45677889999999999999999999999999999999999999999999999999999988655544444556666778
Q ss_pred HHHHhhcCCCCC
Q 004439 300 FLLDLQSGTLDL 311 (753)
Q Consensus 300 Fi~dLesGtlD~ 311 (753)
|....++|.|+.
T Consensus 122 f~~r~e~~~~~~ 133 (648)
T KOG2295|consen 122 FYARTERGFFES 133 (648)
T ss_pred HHHhhccccccc
Confidence 888888888874
No 5
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=98.07 E-value=1.7e-06 Score=71.68 Aligned_cols=32 Identities=25% Similarity=0.374 Sum_probs=28.3
Q ss_pred cCcchhhHHHHHHHHHHHHhhccccccccccc
Q 004439 426 KGLEGVELLDTLITYLWRIHGVDYYGMVETSE 457 (753)
Q Consensus 426 eg~e~~e~LDllI~YLRrVHsvDYY~~~E~de 457 (753)
..+...++|+++|.|||.+|+|||||+++|++
T Consensus 8 ~~l~~~e~L~~l~~YLR~~~~YC~~Cg~~Y~d 39 (55)
T PF13821_consen 8 EELSPEERLDKLLSYLREEHNYCFWCGTKYDD 39 (55)
T ss_pred hccCHHHHHHHHHHHHHhhCceeeeeCCccCC
Confidence 34556789999999999999999999999975
No 6
>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=88.35 E-value=0.35 Score=31.79 Aligned_cols=24 Identities=25% Similarity=0.695 Sum_probs=19.9
Q ss_pred cccCCCCccccccchhHHHHHHhhhC
Q 004439 531 YGCGAKGCTKLFHAAEFVHKHLKLKH 556 (753)
Q Consensus 531 ~rC~v~gCtKLFKgpEFV~KHI~nKH 556 (753)
|.|.+ |++.|....=+++|+.+.|
T Consensus 1 ~~C~~--C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPI--CGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SS--TS-EESSHHHHHHHHHHHS
T ss_pred CCCcC--CCCcCCcHHHHHHHHHhhC
Confidence 67985 9999999999999999877
No 7
>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=87.64 E-value=0.28 Score=32.96 Aligned_cols=23 Identities=30% Similarity=0.704 Sum_probs=20.6
Q ss_pred cccCCCCccccccchhHHHHHHhhhC
Q 004439 531 YGCGAKGCTKLFHAAEFVHKHLKLKH 556 (753)
Q Consensus 531 ~rC~v~gCtKLFKgpEFV~KHI~nKH 556 (753)
|.|. .|+|.|....-+.+||++ |
T Consensus 1 y~C~--~C~~~f~~~~~l~~H~~~-H 23 (23)
T PF00096_consen 1 YKCP--ICGKSFSSKSNLKRHMRR-H 23 (23)
T ss_dssp EEET--TTTEEESSHHHHHHHHHH-H
T ss_pred CCCC--CCCCccCCHHHHHHHHhH-C
Confidence 5787 599999999999999987 5
No 8
>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=84.06 E-value=0.79 Score=33.53 Aligned_cols=30 Identities=33% Similarity=0.464 Sum_probs=25.4
Q ss_pred ccccCCCCccccccchhHHHHHHh-hhChHHHH
Q 004439 530 KYGCGAKGCTKLFHAAEFVHKHLK-LKHPELVI 561 (753)
Q Consensus 530 K~rC~v~gCtKLFKgpEFV~KHI~-nKH~E~Ve 561 (753)
+|.|.+ |++-|....-+..|+. .||.+.|+
T Consensus 3 ~~~C~~--C~~~~~~~~~~~~H~~gk~H~~~~~ 33 (35)
T smart00451 3 GFYCKL--CNVTFTDEISVEAHLKGKKHKKNVK 33 (35)
T ss_pred CeEccc--cCCccCCHHHHHHHHChHHHHHHHH
Confidence 688985 9999999999999998 67776654
No 9
>KOG1994 consensus Predicted RNA binding protein, contains G-patch and Zn-finger domains [RNA processing and modification]
Probab=82.47 E-value=1.2 Score=47.14 Aligned_cols=82 Identities=13% Similarity=0.121 Sum_probs=50.6
Q ss_pred CchhHHHHhHHHHHHHHHHHhhhcccc-ccccCCCCcccccccccCCCCCCceeecccc--cccCcchhhHHHHHHHHHH
Q 004439 366 SEPRRIQVDIEQAQALVRKLDSEKGIT-ENILCGSDNDKMNREKSHGSTGPVIIIRGLT--SVKGLEGVELLDTLITYLW 442 (753)
Q Consensus 366 S~peRI~~DLeqAr~LV~kLDaEkGIe-~N~L~~~d~~~~d~dksh~s~gp~~i~rg~~--~veg~e~~e~LDllI~YLR 442 (753)
+.-.++..|+.-|++....|+-++|.- ...|.--+ +++.+ ..+..++. +++.+-..+.|-.+.-|||
T Consensus 167 ~~kk~~i~~vr~~~~a~~~l~~~~g~~~ps~~kk~e--~~~~e--------~~~~k~~e~~E~eeei~Ee~lt~in~~LR 236 (268)
T KOG1994|consen 167 EDKKNMIPMVRESLEASPALKGEKGFGRPSTLKKCE--TSIIE--------SRITKDTELAELEEEIIEERLTKINIFLR 236 (268)
T ss_pred hhhhhhHHHHHHHHHhhHHhcCccccCCcchhhhcc--ccchh--------hhccCccchhHHHHHHHHHHHHHHHHHHh
Confidence 556799999999999999999887752 11121111 00000 00011111 1111222477999999999
Q ss_pred HHhhccccccccccc
Q 004439 443 RIHGVDYYGMVETSE 457 (753)
Q Consensus 443 rVHsvDYY~~~E~de 457 (753)
--|-|||||++.|..
T Consensus 237 ~eh~YC~fCG~~y~~ 251 (268)
T KOG1994|consen 237 SEHYYCFFCGIKYKD 251 (268)
T ss_pred ccceEEEEeccccCC
Confidence 999999999999864
No 10
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=81.95 E-value=1.3 Score=50.84 Aligned_cols=43 Identities=33% Similarity=0.425 Sum_probs=37.9
Q ss_pred cCcccccCCCCccccccchhHHHHHHh-hhChHHHHHHHhhHHHHH
Q 004439 527 YGWKYGCGAKGCTKLFHAAEFVHKHLK-LKHPELVIELTSKVREEL 571 (753)
Q Consensus 527 ~g~K~rC~v~gCtKLFKgpEFV~KHI~-nKH~E~Veev~~kv~E~~ 571 (753)
+|.-+-|.| |+|.||..-=+..|+. +||-+.|.++++++.|..
T Consensus 289 ~ge~lyC~v--CnKsFKseKq~kNHEnSKKHkenv~eLrqemEEEe 332 (508)
T KOG0717|consen 289 EGEVLYCVV--CNKSFKSEKQLKNHENSKKHKENVAELRQEMEEEE 332 (508)
T ss_pred cCCceEEee--ccccccchHHHHhhHHHHHHHHHHHHHHHHHHHhh
Confidence 454589997 9999999999999998 899999999999877665
No 11
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=80.39 E-value=0.83 Score=39.46 Aligned_cols=31 Identities=29% Similarity=0.603 Sum_probs=23.7
Q ss_pred ccccCCCCccccccchhHHHHHHhhh-ChHHHHH
Q 004439 530 KYGCGAKGCTKLFHAAEFVHKHLKLK-HPELVIE 562 (753)
Q Consensus 530 K~rC~v~gCtKLFKgpEFV~KHI~nK-H~E~Vee 562 (753)
+|.|.+ |+|.|+..+=+.+||..+ |..+..+
T Consensus 50 ~~~C~~--C~~~f~s~~~l~~Hm~~~~H~~~~~~ 81 (100)
T PF12756_consen 50 SFRCPY--CNKTFRSREALQEHMRSKHHKKRNSE 81 (100)
T ss_dssp SEEBSS--SS-EESSHHHHHHHHHHTTTTC-S--
T ss_pred CCCCCc--cCCCCcCHHHHHHHHcCccCCCcccc
Confidence 699985 999999999999999965 7776543
No 12
>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=78.58 E-value=0.81 Score=32.36 Aligned_cols=24 Identities=33% Similarity=0.757 Sum_probs=20.5
Q ss_pred ccccCCCCccccccchhHHHHHHhhh
Q 004439 530 KYGCGAKGCTKLFHAAEFVHKHLKLK 555 (753)
Q Consensus 530 K~rC~v~gCtKLFKgpEFV~KHI~nK 555 (753)
+|.|.+ |.|-|+...-+..|++.|
T Consensus 1 q~~C~~--C~k~f~~~~~~~~H~~sk 24 (27)
T PF12171_consen 1 QFYCDA--CDKYFSSENQLKQHMKSK 24 (27)
T ss_dssp -CBBTT--TTBBBSSHHHHHCCTTSH
T ss_pred CCCccc--CCCCcCCHHHHHHHHccC
Confidence 478985 999999999999999853
No 13
>KOG3973 consensus Uncharacterized conserved glycine-rich protein [Function unknown]
Probab=77.24 E-value=7 Score=43.86 Aligned_cols=24 Identities=25% Similarity=0.506 Sum_probs=15.0
Q ss_pred ccCCCCCCCCCCCCCCCCCCCCCCCC
Q 004439 172 REMGGRPGYGDERPHGRFAGRSSGGY 197 (753)
Q Consensus 172 ~~~gg~~~~~~~~~~g~~~~~~~~g~ 197 (753)
++.||+++|. +|++....|.+++|
T Consensus 376 gG~GGGggyq--qp~~~~~~hqn~~y 399 (465)
T KOG3973|consen 376 GGRGGGGGYQ--QPQQQQQQHQNQSY 399 (465)
T ss_pred CCCCCCCCCc--Cchhhhhccccccc
Confidence 4456667777 67766666655444
No 14
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=77.15 E-value=1.3 Score=30.36 Aligned_cols=22 Identities=27% Similarity=0.689 Sum_probs=19.9
Q ss_pred cccCCCCccccccchhHHHHHHhh
Q 004439 531 YGCGAKGCTKLFHAAEFVHKHLKL 554 (753)
Q Consensus 531 ~rC~v~gCtKLFKgpEFV~KHI~n 554 (753)
|.|.+ |.+.|....-+..|+.-
T Consensus 1 ~~C~~--C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDI--CNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETT--TTEEESSHHHHHHHHTT
T ss_pred CCCCC--CCCCcCCHHHHHHHHCc
Confidence 67985 99999999999999984
No 15
>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=72.02 E-value=0.92 Score=47.41 Aligned_cols=39 Identities=15% Similarity=0.162 Sum_probs=25.5
Q ss_pred hhhhHHHhhhhcccCcccccCCCCccccccchhHHHHHHh
Q 004439 514 ALDPFVRKIRDEKYGWKYGCGAKGCTKLFHAAEFVHKHLK 553 (753)
Q Consensus 514 ~le~fVkk~~DEk~g~K~rC~v~gCtKLFKgpEFV~KHI~ 553 (753)
+|+++|+++.+.||.- =.|.-+.=+--|.-.+...||-.
T Consensus 65 ~v~~~~~e~~~~K~~C-~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 65 FVQKNTKEEDEDKWRC-PLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp GEEEEE-SSSSEEEEE--SSS-EESSHHHHHHHHHHH-HH
T ss_pred HHHHHHHHHcCCEECC-CCCCcccCChHHHHHHHhhcCHH
Confidence 7778888877777764 34655555578888888888865
No 16
>smart00355 ZnF_C2H2 zinc finger.
Probab=70.10 E-value=3.6 Score=26.96 Aligned_cols=24 Identities=29% Similarity=0.830 Sum_probs=20.3
Q ss_pred cccCCCCccccccchhHHHHHHhhhCh
Q 004439 531 YGCGAKGCTKLFHAAEFVHKHLKLKHP 557 (753)
Q Consensus 531 ~rC~v~gCtKLFKgpEFV~KHI~nKH~ 557 (753)
|.|. .|.|.|....-+..|+. +|.
T Consensus 1 ~~C~--~C~~~f~~~~~l~~H~~-~H~ 24 (26)
T smart00355 1 YRCP--ECGKVFKSKSALKEHMR-THX 24 (26)
T ss_pred CCCC--CCcchhCCHHHHHHHHH-Hhc
Confidence 4687 49999999999999998 554
No 17
>PHA00616 hypothetical protein
Probab=69.07 E-value=2.2 Score=34.69 Aligned_cols=26 Identities=31% Similarity=0.548 Sum_probs=23.8
Q ss_pred cccCCCCccccccchhHHHHHHhhhChH
Q 004439 531 YGCGAKGCTKLFHAAEFVHKHLKLKHPE 558 (753)
Q Consensus 531 ~rC~v~gCtKLFKgpEFV~KHI~nKH~E 558 (753)
|.|. .|+|.|.-.--+.+||++.|.+
T Consensus 2 YqC~--~CG~~F~~~s~l~~H~r~~hg~ 27 (44)
T PHA00616 2 YQCL--RCGGIFRKKKEVIEHLLSVHKQ 27 (44)
T ss_pred Cccc--hhhHHHhhHHHHHHHHHHhcCC
Confidence 5787 6999999999999999998888
No 18
>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=60.19 E-value=5.8 Score=27.55 Aligned_cols=25 Identities=20% Similarity=0.531 Sum_probs=21.2
Q ss_pred cccCCCCccccccchhHHHHHHhhhCh
Q 004439 531 YGCGAKGCTKLFHAAEFVHKHLKLKHP 557 (753)
Q Consensus 531 ~rC~v~gCtKLFKgpEFV~KHI~nKH~ 557 (753)
|.|. .|.|.|....=+.+|++..|.
T Consensus 2 ~~C~--~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 2 FECD--ECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp EEET--TTTEEESSHHHHHHHHCTTTT
T ss_pred CCCC--ccCCccCChhHHHHHhHHhcC
Confidence 5787 499999999999999976653
No 19
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=58.12 E-value=19 Score=44.17 Aligned_cols=18 Identities=22% Similarity=0.621 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHhhcC
Q 004439 290 NDLARKVAKDFLLDLQSG 307 (753)
Q Consensus 290 nE~~~~aak~Fi~dLesG 307 (753)
+..+....-.|+..|.+|
T Consensus 135 ~ne~~~~s~eyV~~l~~g 152 (1102)
T KOG1924|consen 135 DNEAKGSSPEYVVELRSG 152 (1102)
T ss_pred hhhhccCChHHHHHHHcc
Confidence 335566677899999999
No 20
>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=45.81 E-value=14 Score=28.56 Aligned_cols=27 Identities=37% Similarity=0.597 Sum_probs=19.7
Q ss_pred cccccCCCCccccccc----hhHHHHHHhhhCh
Q 004439 529 WKYGCGAKGCTKLFHA----AEFVHKHLKLKHP 557 (753)
Q Consensus 529 ~K~rC~v~gCtKLFKg----pEFV~KHI~nKH~ 557 (753)
.+..|. .|.|.|++ ..=+..||.++||
T Consensus 15 ~~a~C~--~C~~~~~~~~~~ts~l~~HL~~~hp 45 (45)
T PF02892_consen 15 KKAKCK--YCGKVIKYSSGGTSNLKRHLKKKHP 45 (45)
T ss_dssp S-EEET--TTTEE-----SSTHHHHHHHHHTTH
T ss_pred CeEEeC--CCCeEEeeCCCcHHHHHHhhhhhCc
Confidence 478998 59999997 4788999999996
No 21
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=43.94 E-value=22 Score=41.44 Aligned_cols=42 Identities=26% Similarity=0.560 Sum_probs=32.6
Q ss_pred hhhHHHhhhhcccCcc-cccCCCCccccccchhHHHHHHhhhChHHHHH
Q 004439 515 LDPFVRKIRDEKYGWK-YGCGAKGCTKLFHAAEFVHKHLKLKHPELVIE 562 (753)
Q Consensus 515 le~fVkk~~DEk~g~K-~rC~v~gCtKLFKgpEFV~KHI~nKH~E~Vee 562 (753)
+..|++++ -. |+ |.|+. |.|+|...+=...||.++|...+..
T Consensus 45 al~fak~n--~s--WrFWiCp~--CskkF~d~~~~~~H~~~eH~~~l~P 87 (466)
T PF04780_consen 45 ALSFAKEN--KS--WRFWICPR--CSKKFSDAESCLSHMEQEHPAGLKP 87 (466)
T ss_pred HHHHHHhc--Cc--eeEeeCCc--ccceeCCHHHHHHHHHHhhhhhcCh
Confidence 34677763 22 33 78885 9999999999999999999987744
No 22
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=42.68 E-value=1.1e+02 Score=38.81 Aligned_cols=19 Identities=37% Similarity=0.545 Sum_probs=9.4
Q ss_pred CCCCCCCCCCCCCccCccCCCC
Q 004439 122 DRRHSPPPRRSPPYKRSRRDDG 143 (753)
Q Consensus 122 ~rr~SP~~~~spp~kR~rr~~~ 143 (753)
.+||+=.++ |-|+-|-|||
T Consensus 1156 StrygDGp~---PPKmaryDnG 1174 (1282)
T KOG0921|consen 1156 STRYGDGPG---PPKMARYDNG 1174 (1282)
T ss_pred cccccCCCC---CcccccccCC
Confidence 466664332 3455555554
No 23
>KOG3875 consensus Peroxisomal biogenesis protein peroxin [Intracellular trafficking, secretion, and vesicular transport]
Probab=41.80 E-value=60 Score=36.40 Aligned_cols=15 Identities=40% Similarity=0.767 Sum_probs=7.0
Q ss_pred CCCCCCCCCCCCCCCC
Q 004439 112 SPPPPPLPYRDRRHSP 127 (753)
Q Consensus 112 ~~~~~~~~~~~rr~SP 127 (753)
+||++++|| .-|-+|
T Consensus 4 ~pp~~~~p~-n~~~~p 18 (362)
T KOG3875|consen 4 SPPQDSRPE-NTRTNP 18 (362)
T ss_pred CCCCCCchh-hhcCCC
Confidence 344455555 434444
No 24
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=40.42 E-value=10 Score=43.56 Aligned_cols=27 Identities=22% Similarity=0.535 Sum_probs=23.6
Q ss_pred ccccCCCCccccccchhHHHHHHhhhChH
Q 004439 530 KYGCGAKGCTKLFHAAEFVHKHLKLKHPE 558 (753)
Q Consensus 530 K~rC~v~gCtKLFKgpEFV~KHI~nKH~E 558 (753)
.|-|. .|.|+|+-.-|++||...-|.-
T Consensus 356 i~~C~--~C~KkFrRqAYLrKHqlthq~~ 382 (500)
T KOG3993|consen 356 IFSCH--TCGKKFRRQAYLRKHQLTHQRA 382 (500)
T ss_pred eeecH--HhhhhhHHHHHHHHhHHhhhcc
Confidence 89997 6999999999999998776644
No 25
>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=40.12 E-value=17 Score=25.80 Aligned_cols=24 Identities=38% Similarity=0.610 Sum_probs=18.7
Q ss_pred hhhHHHhhhhcccCcccccCCCCcccccc
Q 004439 515 LDPFVRKIRDEKYGWKYGCGAKGCTKLFH 543 (753)
Q Consensus 515 le~fVkk~~DEk~g~K~rC~v~gCtKLFK 543 (753)
|..+++..+.|+ .|.|. .|.|.|+
T Consensus 2 l~~H~~~H~~~k---~~~C~--~C~k~F~ 25 (26)
T PF13465_consen 2 LRRHMRTHTGEK---PYKCP--YCGKSFS 25 (26)
T ss_dssp HHHHHHHHSSSS---SEEES--SSSEEES
T ss_pred HHHHhhhcCCCC---CCCCC--CCcCeeC
Confidence 345777777785 79998 5999996
No 26
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=38.05 E-value=5.9 Score=44.33 Aligned_cols=59 Identities=19% Similarity=0.330 Sum_probs=46.2
Q ss_pred cccccCCCCccccccchhHHHHHHhhhChHHHHHHHhhHHHHHHHhhhccCCCCCCCCCCCCCC
Q 004439 529 WKYGCGAKGCTKLFHAAEFVHKHLKLKHPELVIELTSKVREELYFQNYMNDPDAPGGTPVMQQP 592 (753)
Q Consensus 529 ~K~rC~v~gCtKLFKgpEFV~KHI~nKH~E~Veev~~kv~E~~yFNNYl~DP~RP~~~pv~~q~ 592 (753)
+.++|- .|.|.|+...-++.|+++|.=-.|.....+ .+.-|.-||+.=++++ ++|.++-
T Consensus 194 ~r~~CL--yCekifrdkntLkeHMrkK~HrrinPknre-YDkfyiINY~ev~ks~--t~~~~e~ 252 (423)
T KOG2482|consen 194 ERLRCL--YCEKIFRDKNTLKEHMRKKRHRRINPKNRE-YDKFYIINYLEVGKSW--TIVHSED 252 (423)
T ss_pred hhheee--eeccccCCcHHHHHHHHhccCcccCCCccc-cceEEEEeHhhcCCcc--chhhhhh
Confidence 478997 699999999999999998876666554432 3456788999999996 6766655
No 27
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=37.77 E-value=65 Score=40.01 Aligned_cols=26 Identities=42% Similarity=0.806 Sum_probs=14.9
Q ss_pred CCCCeeeccCCCCCCCCCCCCCHHHH
Q 004439 676 PPPPVLMPVPGAGPLGPFVPAPPEVA 701 (753)
Q Consensus 676 ~~p~~l~pvpgagplgpfvpapp~~~ 701 (753)
||||-+=|+||.+|+=|=-|.+|.+|
T Consensus 542 pppPppPPlpggag~PPPPpplPg~a 567 (1102)
T KOG1924|consen 542 PPPPPPPPLPGGAGPPPPPPPLPGIA 567 (1102)
T ss_pred CCCCCCCCCCCCCCCCccCCCCCccc
Confidence 34444557888887555444445543
No 28
>KOG2654 consensus Uncharacterized conserved protein [Function unknown]
Probab=34.25 E-value=82 Score=36.44 Aligned_cols=24 Identities=46% Similarity=0.859 Sum_probs=12.1
Q ss_pred hhccCCCCCCCCCCCCCCCCcCCCCCCC
Q 004439 67 ERRDDRDLDRPPPNRRGPDYYDRNRSPP 94 (753)
Q Consensus 67 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (753)
.++ |-|...|..+|. ..|-..|||
T Consensus 105 ~~~-dsd~spprp~rk---r~dsd~spp 128 (461)
T KOG2654|consen 105 QDR-DSDMSPPRPNRK---RTDSDMSPP 128 (461)
T ss_pred ccc-ccCCCCCCCccc---cCCCCCCCC
Confidence 444 556666644442 225555555
No 29
>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=34.00 E-value=32 Score=28.13 Aligned_cols=26 Identities=23% Similarity=0.419 Sum_probs=19.8
Q ss_pred ccccCCCCccccccchhHHHHHHhhhChH
Q 004439 530 KYGCGAKGCTKLFHAAEFVHKHLKLKHPE 558 (753)
Q Consensus 530 K~rC~v~gCtKLFKgpEFV~KHI~nKH~E 558 (753)
.|.|+ .|+|.|.. .-+.+||..+|..
T Consensus 2 ~f~CP--~C~~~~~~-~~L~~H~~~~H~~ 27 (54)
T PF05605_consen 2 SFTCP--YCGKGFSE-SSLVEHCEDEHRS 27 (54)
T ss_pred CcCCC--CCCCccCH-HHHHHHHHhHCcC
Confidence 68898 49996654 4577899999886
No 30
>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=31.69 E-value=33 Score=33.72 Aligned_cols=34 Identities=24% Similarity=0.270 Sum_probs=20.7
Q ss_pred cCcccccCCCCccccccchhHHHHHHhhhChHHHHHHHh
Q 004439 527 YGWKYGCGAKGCTKLFHAAEFVHKHLKLKHPELVIELTS 565 (753)
Q Consensus 527 ~g~K~rC~v~gCtKLFKgpEFV~KHI~nKH~E~Veev~~ 565 (753)
..+...|- .|+|.||. +.+||.+.|.=-.++-++
T Consensus 69 ~~d~i~cl--ecGk~~k~---LkrHL~~~~gltp~eYR~ 102 (132)
T PF05443_consen 69 TPDYIICL--ECGKKFKT---LKRHLRTHHGLTPEEYRA 102 (132)
T ss_dssp -SS-EE-T--BT--EESB---HHHHHHHTT-S-HHHHHH
T ss_pred ccCeeEEc--cCCcccch---HHHHHHHccCCCHHHHHH
Confidence 34688997 69999999 699999998765555433
No 31
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=31.32 E-value=1.6e+02 Score=32.20 Aligned_cols=33 Identities=24% Similarity=0.505 Sum_probs=23.5
Q ss_pred ccccCCCCcc-ccccchhHHHHHHhhhChHHHHHHHh
Q 004439 530 KYGCGAKGCT-KLFHAAEFVHKHLKLKHPELVIELTS 565 (753)
Q Consensus 530 K~rC~v~gCt-KLFKgpEFV~KHI~nKH~E~Veev~~ 565 (753)
-|.|.+ |- |||.|+-.-+ |-..-|.|-|+.+-+
T Consensus 34 hfkchi--chkkl~sgpglsi-hcmqvhketid~ip~ 67 (341)
T KOG2893|consen 34 HFKCHI--CHKKLFSGPGLSI-HCMQVHKETIDKIPA 67 (341)
T ss_pred cceeee--ehhhhccCCCcee-ehhhhhhhhhhcccc
Confidence 578875 65 5788887554 677778888877654
No 32
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=31.12 E-value=50 Score=39.76 Aligned_cols=48 Identities=15% Similarity=0.344 Sum_probs=29.2
Q ss_pred hcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCChhHHh-------------hccCCcchHHH
Q 004439 235 LEDDILPAEAERRYQEYKSEYISTQKRVFFDAHKDEEWLK-------------DKYHPTNLVAV 285 (753)
Q Consensus 235 ~eD~IspeEA~~rY~eYK~ef~~kq~r~FF~~HKdEeWFr-------------EKY~P~~l~~v 285 (753)
+.++|||+||+++ ||-+-...--...+.+--++.+|+ ||+.|...+++
T Consensus 506 y~e~lspeeci~e---~kge~~~s~e~~~v~~D~~edff~vsk~~n~~~s~~~ek~~~~~fe~L 566 (1077)
T COG5192 506 YDESLSPEECIEE---YKGESAKSSESDLVVQDEPEDFFDVSKVANESISSNHEKLMESEFEEL 566 (1077)
T ss_pred ccccCCHHHHHHH---hccccccccccccccccCchhhhhhhhhcccccccchhhhchhHHHHH
Confidence 4678999998654 555554444445555555556665 67777554433
No 33
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=30.82 E-value=26 Score=37.19 Aligned_cols=49 Identities=24% Similarity=0.365 Sum_probs=35.1
Q ss_pred HHHHHHHhhhhHHHhhhhcccCcccccCCCCccccccchhHHHHHHhhhC
Q 004439 507 IDAAAVDALDPFVRKIRDEKYGWKYGCGAKGCTKLFHAAEFVHKHLKLKH 556 (753)
Q Consensus 507 ID~el~e~le~fVkk~~DEk~g~K~rC~v~gCtKLFKgpEFV~KHI~nKH 556 (753)
++.-|.||-++|..+ ..|...+-|.|.|-+||-|||..-=-+.|+--+|
T Consensus 122 Ld~HI~E~HDs~Fqa-~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 122 LDAHILEWHDSLFQA-LVERGQDMYQCLVEGCTEKFKTSRDRKDHMIRMH 170 (253)
T ss_pred hhHHHHHHHHHHHHH-HHHcCccHHHHHHHhhhhhhhhhhhhhhHHHHhc
Confidence 444567777776665 3566567899999999999998766566654444
No 34
>KOG2146 consensus Splicing coactivator SRm160/300, subunit SRm160 (contains PWI domain) [RNA processing and modification; General function prediction only]
Probab=30.59 E-value=1.2e+02 Score=33.66 Aligned_cols=42 Identities=38% Similarity=0.570 Sum_probs=22.6
Q ss_pred cCCCCCC------CCCCCccchhhhhccCCCCCCCCCCCCCCCCCCCCCCCCCCcc
Q 004439 87 YDRNRSP------PPPMPRERDRDYKRRSTVSPPPPPLPYRDRRHSPPPRRSPPYK 136 (753)
Q Consensus 87 ~~~~~~~------~~~~~~~r~~~~~~~~~~~~~~~~~~~~~rr~SP~~~~spp~k 136 (753)
|-||.+| -++-.|...+-|-|.++ | ||+|+ |-|.++.+|+.+
T Consensus 194 ~rRnpsp~~r~s~~~~ggrr~~rs~sRsrs---p----~r~d~-~~p~Rrss~~r~ 241 (354)
T KOG2146|consen 194 PRRNPSPHSRFSGGSRGGRRGGRSYSRSRS---P----PREDR-YRPTRRSSPRRR 241 (354)
T ss_pred CCCCCCcccccCCCCcccccCccccccccC---C----ccccc-cCCcccCCcccc
Confidence 5556555 23445555677776655 2 56665 444444455543
No 35
>PF01715 IPPT: IPP transferase; InterPro: IPR002627 tRNA isopentenyltransferases 2.5.1.8 from EC also known as tRNA delta(2)-isopentenylpyrophosphate transferases or IPP transferases. These enzymes modify both cytoplasmic and mitochondrial tRNAs at A(37) to give isopentenyl A(37) [].; GO: 0005524 ATP binding, 0008033 tRNA processing; PDB: 2ZXU_A 3FOZ_A 2ZM5_B 3D3Q_A 3EXA_B 2QGN_A 3A8T_A 3EPK_B 3EPH_A 3EPJ_A ....
Probab=29.92 E-value=83 Score=33.48 Aligned_cols=48 Identities=29% Similarity=0.575 Sum_probs=37.3
Q ss_pred CCCHHHHHHhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCChhHH
Q 004439 225 LMSYKQFIQELEDDILPAEAERRYQEYKSEYISTQKRVFFDAHKDEEWL 273 (753)
Q Consensus 225 lmsFKqFl~~~eD~IspeEA~~rY~eYK~ef~~kq~r~FF~~HKdEeWF 273 (753)
.+=||||+..+...++-+||......==..|.++|+ ++|....+-.||
T Consensus 203 aIGYkE~~~~l~g~~~~~e~~e~i~~~TrqyAKRQ~-TWfr~~~~~~w~ 250 (253)
T PF01715_consen 203 AIGYKEFIDYLEGEISLEEAIERIKTNTRQYAKRQR-TWFRNQPNIHWI 250 (253)
T ss_dssp STTHHHHHHHHTTSSCHHHHHHHHHHHHHHHHHHHH-HHHHTTSSEEEE
T ss_pred eeehHHHHHhhcCCCCHHHHHHHHHHHHHHHHHHHH-HHhCCCCCCeee
Confidence 678999999999999999998877666666777764 566666555555
No 36
>PHA00733 hypothetical protein
Probab=29.09 E-value=39 Score=32.64 Aligned_cols=26 Identities=27% Similarity=0.382 Sum_probs=23.4
Q ss_pred ccccCCCCccccccchhHHHHHHhhhCh
Q 004439 530 KYGCGAKGCTKLFHAAEFVHKHLKLKHP 557 (753)
Q Consensus 530 K~rC~v~gCtKLFKgpEFV~KHI~nKH~ 557 (753)
.|.|. .|+|.|....-+.+|+..||.
T Consensus 99 ~~~C~--~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 99 SKVCP--VCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred CccCC--CCCCccCCHHHHHHHHHHhcC
Confidence 57897 499999999999999999996
No 37
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=28.81 E-value=86 Score=25.67 Aligned_cols=46 Identities=20% Similarity=0.377 Sum_probs=27.7
Q ss_pred HhhhhHHHhhhhcccCcccccCCCCccccccchhHHHHHHhhhChHHHHHHHhh
Q 004439 513 DALDPFVRKIRDEKYGWKYGCGAKGCTKLFHAAEFVHKHLKLKHPELVIELTSK 566 (753)
Q Consensus 513 e~le~fVkk~~DEk~g~K~rC~v~gCtKLFKgpEFV~KHI~nKH~E~Veev~~k 566 (753)
+.+.+++.++.+. +-.|+| |+--|-..+. .+|..+..+.++.+.++
T Consensus 7 ~~~~k~i~~l~~~----~~~CPl--C~r~l~~e~~--~~li~~~~~~i~~~~~~ 52 (54)
T PF04423_consen 7 EELKKYIEELKEA----KGCCPL--CGRPLDEEHR--QELIKKYKSEIEELPEK 52 (54)
T ss_dssp HHHHHHHHHHTT-----SEE-TT--T--EE-HHHH--HHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHhcC----CCcCCC--CCCCCCHHHH--HHHHHHHHHHHHhhhhc
Confidence 4556666665444 228996 9999999887 67777777777776543
No 38
>PLN02748 tRNA dimethylallyltransferase
Probab=28.45 E-value=65 Score=37.60 Aligned_cols=35 Identities=29% Similarity=0.468 Sum_probs=30.1
Q ss_pred ccccCCCCccc-cccchhHHHHHHh-hhChHHHHHHHhh
Q 004439 530 KYGCGAKGCTK-LFHAAEFVHKHLK-LKHPELVIELTSK 566 (753)
Q Consensus 530 K~rC~v~gCtK-LFKgpEFV~KHI~-nKH~E~Veev~~k 566 (753)
+|.|.+ |.| .|.|.+=|..||+ .+|--.|...+++
T Consensus 418 ~~~Ce~--C~~~~~~G~~eW~~Hlksr~Hk~~~~~~~k~ 454 (468)
T PLN02748 418 QYVCEA--CGNKVLRGAHEWEQHKQGRGHRKRVQRLKQK 454 (468)
T ss_pred cccccC--CCCcccCCHHHHHHHhcchHHHHHHhHHHhh
Confidence 678986 998 7999999999999 8899888777654
No 39
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=27.88 E-value=44 Score=23.80 Aligned_cols=20 Identities=30% Similarity=0.599 Sum_probs=16.7
Q ss_pred ccCCCCccccccchhHHHHHHhh
Q 004439 532 GCGAKGCTKLFHAAEFVHKHLKL 554 (753)
Q Consensus 532 rC~v~gCtKLFKgpEFV~KHI~n 554 (753)
.|. .|+.+| .++-+.||+..
T Consensus 4 ~C~--~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 4 PCP--ICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred cCC--CCCCEE-CHHHHHHHHHh
Confidence 587 599999 88999999863
No 40
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=26.43 E-value=37 Score=23.10 Aligned_cols=24 Identities=33% Similarity=0.675 Sum_probs=17.0
Q ss_pred cccCCCCccccccchhHHHHHHhhhCh
Q 004439 531 YGCGAKGCTKLFHAAEFVHKHLKLKHP 557 (753)
Q Consensus 531 ~rC~v~gCtKLFKgpEFV~KHI~nKH~ 557 (753)
|.|. .|+=... ..-+.+|++.+|+
T Consensus 1 y~C~--~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCP--HCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-S--SSS-EES-HHHHHHHHHHHHS
T ss_pred CCCC--CCCCcCC-HHHHHHHHHhhCc
Confidence 5686 4886666 6679999999885
No 41
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=23.91 E-value=1.1e+02 Score=33.69 Aligned_cols=49 Identities=24% Similarity=0.495 Sum_probs=36.5
Q ss_pred CCCHHHHHHhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCChhHHh
Q 004439 225 LMSYKQFIQELEDDILPAEAERRYQEYKSEYISTQKRVFFDAHKDEEWLK 274 (753)
Q Consensus 225 lmsFKqFl~~~eD~IspeEA~~rY~eYK~ef~~kq~r~FF~~HKdEeWFr 274 (753)
.+=||||+.++...+|-+||...-..=-..|.++|+ ++|....+-.||-
T Consensus 239 aIGykE~~~yl~g~~s~~e~~e~i~~~Tr~yAKRQ~-TWfr~~~~~~w~~ 287 (307)
T PRK00091 239 AIGYKELLAYLDGEISLEEAIEKIKQATRQYAKRQL-TWFRRQPDIHWLD 287 (307)
T ss_pred eecHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHH-HHhCCCCCCeeec
Confidence 677999999999999999988766665666777764 5555555555654
No 42
>KOG4702 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.31 E-value=1.5e+02 Score=26.86 Aligned_cols=35 Identities=20% Similarity=0.429 Sum_probs=29.1
Q ss_pred CHHHHHHhhcCCCCHHHHHHHHHHHHHHHHHHHHH
Q 004439 227 SYKQFIQELEDDILPAEAERRYQEYKSEYISTQKR 261 (753)
Q Consensus 227 sFKqFl~~~eD~IspeEA~~rY~eYK~ef~~kq~r 261 (753)
=|++|+....-.++|-|+-++-+||+.-..+++++
T Consensus 30 ~Fee~v~~~krel~ppe~~~~~EE~~~~lRe~~a~ 64 (77)
T KOG4702|consen 30 IFEEFVRGYKRELSPPEATKRKEEYENFLREQMAF 64 (77)
T ss_pred HHHHHHHhccccCCChHHHhhHHHHHHHHHHHHHH
Confidence 48999988888889999999999998877776543
No 43
>PHA02768 hypothetical protein; Provisional
Probab=22.23 E-value=57 Score=27.85 Aligned_cols=24 Identities=25% Similarity=0.588 Sum_probs=21.2
Q ss_pred cccCCCCccccccchhHHHHHHhhhCh
Q 004439 531 YGCGAKGCTKLFHAAEFVHKHLKLKHP 557 (753)
Q Consensus 531 ~rC~v~gCtKLFKgpEFV~KHI~nKH~ 557 (753)
|.|. .|+|.|.-..-+.+|+++ |.
T Consensus 6 y~C~--~CGK~Fs~~~~L~~H~r~-H~ 29 (55)
T PHA02768 6 YECP--ICGEIYIKRKSMITHLRK-HN 29 (55)
T ss_pred cCcc--hhCCeeccHHHHHHHHHh-cC
Confidence 7897 699999999999999998 44
No 44
>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]
Probab=22.01 E-value=1.7e+02 Score=32.55 Aligned_cols=50 Identities=24% Similarity=0.422 Sum_probs=35.9
Q ss_pred CCCCHHHHHHhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCChhHHh
Q 004439 224 GLMSYKQFIQELEDDILPAEAERRYQEYKSEYISTQKRVFFDAHKDEEWLK 274 (753)
Q Consensus 224 ~lmsFKqFl~~~eD~IspeEA~~rY~eYK~ef~~kq~r~FF~~HKdEeWFr 274 (753)
..+=||||+.+++-.+|-+||..+=..=-..|.++|+ +||..-.+..||.
T Consensus 239 ~~iGy~e~~~yl~g~~~~~ea~~~~~~~TRqyAKRQ~-TWfr~~~~~~w~~ 288 (308)
T COG0324 239 QAIGYKEILAYLDGGISLEEAIERIKTATRQYAKRQL-TWFRNQLGVHWLD 288 (308)
T ss_pred HhcCHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH-HHhccCcccceec
Confidence 3678999999998779999998766555566777764 5555555555543
No 45
>TIGR00174 miaA tRNA isopentenyltransferase (miaA). Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.
Probab=21.68 E-value=1.2e+02 Score=33.07 Aligned_cols=41 Identities=24% Similarity=0.401 Sum_probs=30.4
Q ss_pred CCCHHHHHHhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 004439 225 LMSYKQFIQELEDDILPAEAERRYQEYKSEYISTQKRVFFDA 266 (753)
Q Consensus 225 lmsFKqFl~~~eD~IspeEA~~rY~eYK~ef~~kq~r~FF~~ 266 (753)
.+=||||+.++...++-+||...-..=-..|.++|+ ++|..
T Consensus 235 aIGYkE~~~~l~g~~~~~e~ie~i~~~Tr~yAKRQ~-TWfR~ 275 (287)
T TIGR00174 235 AIGYKEFLLYLEGTVSLEDAIERIKCNTRQYAKRQL-TWFRK 275 (287)
T ss_pred hccHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHH-HHhCC
Confidence 678999999999999999988765555556677664 34443
No 46
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.53 E-value=2.1e+02 Score=31.95 Aligned_cols=87 Identities=22% Similarity=0.326 Sum_probs=55.9
Q ss_pred CCCCHHHHHHhhcC-------CCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCChhHHhhccCCcchHHHHHHHHHH----
Q 004439 224 GLMSYKQFIQELED-------DILPAEAERRYQEYKSEYISTQKRVFFDAHKDEEWLKDKYHPTNLVAVIERRNDL---- 292 (753)
Q Consensus 224 ~lmsFKqFl~~~eD-------~IspeEA~~rY~eYK~ef~~kq~r~FF~~HKdEeWFrEKY~P~~l~~v~erRnE~---- 292 (753)
.+.-|-.||+..+| .|+.++++..-++|+.+++..-.+..-......+||.+.=.=+. +...++|+..
T Consensus 91 ~l~~yNdYLE~vEdii~nL~~~~d~~~te~~l~~y~~~n~~~I~~n~~~~~~e~~~~~~~~~~E~-~~~~~rr~~~~~~e 169 (309)
T TIGR00570 91 SLREYNDYLEEVEDIVYNLTNNIDLENTKKKIETYQKENKDVIQKNKEKSTREQEELEEALEFEK-EEEEQRRLLLQKEE 169 (309)
T ss_pred CHHHHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHHHHHhHHHHHHHHHHHHhHHHHHHHHHHHHH-HHHHHHHHHHHHHH
Confidence 56778888876554 45777888899999999998877777778888888866542111 1111122221
Q ss_pred ------HHHHHHHHHHHhhcCCCCC
Q 004439 293 ------ARKVAKDFLLDLQSGTLDL 311 (753)
Q Consensus 293 ------~~~aak~Fi~dLesGtlD~ 311 (753)
.+..-.+++.+|++|..+.
T Consensus 170 ~ee~~~~~~~~~~~ld~L~~s~~~~ 194 (309)
T TIGR00570 170 EEQQMNKRKNKQALLDELETSTLPA 194 (309)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCH
Confidence 1222347888887766443
No 47
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=20.66 E-value=37 Score=41.60 Aligned_cols=29 Identities=28% Similarity=0.600 Sum_probs=24.5
Q ss_pred cccccCCCCccccccchhHHHHHHhhhChHH
Q 004439 529 WKYGCGAKGCTKLFHAAEFVHKHLKLKHPEL 559 (753)
Q Consensus 529 ~K~rC~v~gCtKLFKgpEFV~KHI~nKH~E~ 559 (753)
-||-|+ +|+|-||=.+-++.||+.--+|+
T Consensus 280 RKFKCt--ECgKAFKfKHHLKEHlRIHSGEK 308 (1007)
T KOG3623|consen 280 RKFKCT--ECGKAFKFKHHLKEHLRIHSGEK 308 (1007)
T ss_pred cccccc--ccchhhhhHHHHHhhheeecCCC
Confidence 489997 89999999999999998765554
No 48
>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=20.44 E-value=1.2e+02 Score=24.78 Aligned_cols=24 Identities=21% Similarity=0.423 Sum_probs=19.2
Q ss_pred ccccCCCCccccccchhHHHHHHhhhCh
Q 004439 530 KYGCGAKGCTKLFHAAEFVHKHLKLKHP 557 (753)
Q Consensus 530 K~rC~v~gCtKLFKgpEFV~KHI~nKH~ 557 (753)
.+.|++ |.+.+.. =+..||...|.
T Consensus 31 ~v~CPi--C~~~~~~--~l~~Hl~~~H~ 54 (54)
T PF05605_consen 31 NVVCPI--CSSRVTD--NLIRHLNSQHR 54 (54)
T ss_pred CccCCC--chhhhhh--HHHHHHHHhcC
Confidence 699996 9998775 56679998873
No 49
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=20.30 E-value=55 Score=32.73 Aligned_cols=45 Identities=24% Similarity=0.188 Sum_probs=32.3
Q ss_pred cccccCCCCccccccchhHHHHHHhhhChHHHHHHHhhHHHHHHHhhhccCCCCCCCCC
Q 004439 529 WKYGCGAKGCTKLFHAAEFVHKHLKLKHPELVIELTSKVREELYFQNYMNDPDAPGGTP 587 (753)
Q Consensus 529 ~K~rC~v~gCtKLFKgpEFV~KHI~nKH~E~Veev~~kv~E~~yFNNYl~DP~RP~~~p 587 (753)
|-..|. +|+|+||. ++.|+.++|.=-.++ |-.-|=+.+.=|-..|
T Consensus 75 D~IicL--EDGkkfKS---LKRHL~t~~gmTPd~---------YR~KW~LP~dYPMvAP 119 (148)
T COG4957 75 DYIICL--EDGKKFKS---LKRHLTTHYGLTPDE---------YRAKWGLPPDYPMVAP 119 (148)
T ss_pred CeEEEe--ccCcchHH---HHHHHhcccCCCHHH---------HHHhcCCCCCCCccch
Confidence 357896 89999999 999999999755555 4444666666654333
Done!