Query 007632
Match_columns 595
No_of_seqs 184 out of 206
Neff 4.4
Searched_HMMs 46136
Date Thu Mar 28 13:15:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007632.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/007632hhsearch_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 8.7E-78 1.9E-82 641.7 9.7 516 43-594 27-569 (648)
2 PF04959 ARS2: Arsenite-resist 100.0 4.7E-35 1E-39 289.0 7.2 129 456-594 2-136 (214)
3 PF12066 DUF3546: Domain of un 99.9 1.1E-25 2.4E-30 202.0 8.9 85 227-311 1-85 (110)
4 KOG2295 C2H2 Zn-finger protein 99.0 4.7E-10 1E-14 122.8 5.9 92 220-311 42-133 (648)
5 PF13821 DUF4187: Domain of un 98.1 1.4E-06 3.1E-11 70.2 2.1 31 427-457 9-39 (55)
6 KOG1924 RhoA GTPase effector D 91.3 0.52 1.1E-05 55.5 7.4 6 93-98 546-551 (1102)
7 PF00096 zf-C2H2: Zinc finger, 89.9 0.16 3.4E-06 33.1 1.1 23 531-556 1-23 (23)
8 PF13894 zf-C2H2_4: C2H2-type 89.8 0.23 4.9E-06 31.7 1.8 24 531-556 1-24 (24)
9 smart00451 ZnF_U1 U1-like zinc 86.0 0.58 1.3E-05 33.2 2.1 30 530-561 3-33 (35)
10 KOG0717 Molecular chaperone (D 83.7 1 2.2E-05 50.4 3.7 43 527-571 289-332 (508)
11 PF12171 zf-C2H2_jaz: Zinc-fin 83.3 0.59 1.3E-05 32.0 1.1 24 530-555 1-24 (27)
12 KOG1994 Predicted RNA binding 82.5 1.3 2.7E-05 45.7 3.5 82 366-457 167-251 (268)
13 KOG3973 Uncharacterized conser 81.1 3.7 8E-05 44.8 6.5 23 173-197 377-399 (465)
14 PF12756 zf-C2H2_2: C2H2 type 80.6 0.78 1.7E-05 38.7 1.1 31 530-562 50-81 (100)
15 PF12874 zf-met: Zinc-finger o 80.2 0.92 2E-05 30.0 1.1 22 531-554 1-22 (25)
16 KOG1924 RhoA GTPase effector D 79.2 3.5 7.5E-05 49.0 5.9 21 368-388 896-916 (1102)
17 smart00355 ZnF_C2H2 zinc finge 74.6 2.4 5.2E-05 26.9 1.9 24 531-557 1-24 (26)
18 PHA00616 hypothetical protein 74.1 1.4 3E-05 34.6 0.7 26 531-558 2-27 (44)
19 PF04959 ARS2: Arsenite-resist 73.9 0.69 1.5E-05 47.1 -1.3 12 477-488 28-39 (214)
20 PF13912 zf-C2H2_6: C2H2-type 65.0 4.1 9E-05 27.4 1.5 25 531-557 2-26 (27)
21 KOG2654 Uncharacterized conser 61.4 18 0.0004 40.3 6.2 24 67-94 105-128 (461)
22 KOG3875 Peroxisomal biogenesis 57.1 26 0.00056 38.0 6.3 8 113-120 5-12 (362)
23 KOG4661 Hsp27-ERE-TATA-binding 56.2 65 0.0014 37.7 9.5 27 119-145 782-814 (940)
24 PF02892 zf-BED: BED zinc fing 52.5 9.4 0.0002 28.7 1.7 27 529-557 15-45 (45)
25 PF04780 DUF629: Protein of un 45.3 20 0.00042 40.7 3.4 47 511-563 42-88 (466)
26 KOG2146 Splicing coactivator S 44.7 44 0.00096 36.0 5.6 13 98-110 211-223 (354)
27 KOG3993 Transcription factor ( 44.3 8.1 0.00017 43.2 0.3 27 530-558 356-382 (500)
28 PF05605 zf-Di19: Drought indu 43.9 18 0.00038 28.7 2.1 26 530-558 2-27 (54)
29 KOG4246 Predicted DNA-binding 40.3 20 0.00043 43.2 2.6 11 62-72 298-308 (1194)
30 PF13465 zf-H2C2_2: Zinc-finge 40.0 17 0.00036 24.9 1.2 24 515-543 2-25 (26)
31 KOG2146 Splicing coactivator S 38.9 81 0.0018 34.0 6.5 10 85-94 216-225 (354)
32 PF13913 zf-C2HC_2: zinc-finge 36.7 25 0.00055 24.1 1.7 19 532-553 4-22 (25)
33 COG5192 BMS1 GTP-binding prote 36.5 37 0.00081 39.8 3.9 48 235-285 506-566 (1077)
34 PHA00733 hypothetical protein 33.8 28 0.00062 32.6 2.1 26 530-557 99-124 (128)
35 PF13909 zf-H2C2_5: C2H2-type 33.6 24 0.00051 23.2 1.1 24 531-557 1-24 (24)
36 PF04423 Rad50_zn_hook: Rad50 32.2 63 0.0014 25.6 3.5 45 514-566 8-52 (54)
37 PF05443 ROS_MUCR: ROS/MUCR tr 30.0 37 0.00079 32.4 2.2 33 528-565 70-102 (132)
38 PHA02768 hypothetical protein; 29.0 36 0.00077 28.1 1.6 24 531-556 6-29 (55)
39 KOG4173 Alpha-SNAP protein [In 28.1 30 0.00066 35.6 1.3 44 508-552 123-166 (253)
40 KOG2482 Predicted C2H2-type Zn 27.5 13 0.00028 40.7 -1.5 52 529-583 194-245 (423)
41 PF01715 IPPT: IPP transferase 27.5 99 0.0021 32.0 5.0 49 224-273 202-250 (253)
42 KOG3623 Homeobox transcription 27.0 25 0.00053 42.0 0.5 29 529-559 280-308 (1007)
43 KOG4702 Uncharacterized conser 26.0 1.3E+02 0.0028 26.3 4.5 35 227-261 30-64 (77)
44 PF05605 zf-Di19: Drought indu 24.6 84 0.0018 24.8 3.0 38 515-557 17-54 (54)
45 PRK00091 miaA tRNA delta(2)-is 22.4 1.2E+02 0.0027 32.4 4.6 50 224-274 238-287 (307)
46 PF04817 Umbravirus_LDM: Umbra 21.1 3.2E+02 0.0069 28.5 7.0 52 43-94 60-112 (231)
47 PF12756 zf-C2H2_2: C2H2 type 20.6 33 0.00072 28.7 0.0 27 533-561 2-28 (100)
48 KOG2192 PolyC-binding hnRNP-K 20.3 3.3E+02 0.0072 29.4 7.1 36 224-261 346-386 (390)
49 COG0324 MiaA tRNA delta(2)-iso 20.0 2E+02 0.0044 31.1 5.7 49 224-273 239-287 (308)
No 1
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=100.00 E-value=8.7e-78 Score=641.68 Aligned_cols=516 Identities=27% Similarity=0.273 Sum_probs=440.3
Q ss_pred CCCCCCCCCCCC---CCcccccchhhhhhccCCCCCCCCCCCCCCCCCCCCCCCCCCCCccchhhhhccCCCCCCCCCCC
Q 007632 43 NNSAPQSSPPPP---PPPARRRERDSRERRDDRDLDRPPPNRRGPDYYDRNRSPPPPMPRERDRDYKRRSTVSPPPPPLP 119 (595)
Q Consensus 43 ~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 119 (595)
.-++|-|++|+- .+++-++.+++|.+++++|+++++..++ |-++..-|++ .+.+++..+.++++ +
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---YNDYKIDPRT------QQNAVFFEAHKDEE---W 94 (648)
T ss_pred CCCCccccCCCccccccCcccchHHHhhcccccccccCCCccc---ccccCCCCch------hhhHHHHHhcCCcc---h
Confidence 334444444444 3455678899999999999999966664 7666665552 26788888777776 9
Q ss_pred CCCCCCCCC--CCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCccccCCCCcccccCCCCCCCCCCCCCCCCCCCCCC
Q 007632 120 YRDRRHSPP--PRRSPPYKRSRRDDGGYEPRRGSPRGGFGP-DRRFGYDYTGGYEREMGGRPGYGDERPHGRFAGRSSGG 196 (595)
Q Consensus 120 ~~~rr~sp~--~~~sPp~kR~rr~~~g~d~~~g~p~~~~~~-d~~~g~~~~~g~~~~~gg~~~~~~~~~~g~~~~r~~~g 196 (595)
||+++|+++ .++++++++.+++..+|+.+.+.|.++++. |.+|+|++.++|++.|++..+++....++..+++..
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 788999999998888999999999999998 999999999999999999999999999988887776
Q ss_pred CCCCCCCcCCCCCCCCCCCCCCCCCCCCCCCHHHHHhhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCChhHHhhc
Q 007632 197 YQSGPSEWDSSRGGYGDASNTGSTQREGLMSYKQFIQELEDDILPAEAERRYQEYKSEYISTQKRVFFDAHKDEEWLKDK 276 (595)
Q Consensus 197 ~~~~p~~~~~~~~g~~~~~~~~~~~~~~lmsFKqFl~~~~D~Itp~eA~~rY~eYK~ef~~~q~~~FF~~HK~eeWFrEK 276 (595)
+ ..+++||.++..++..+....|++|+ +|++++..+...|++| .+|. .|..+||+.||...||..+
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 45678999988888899999999998 9999999999999999 8887 8999999999999999999
Q ss_pred cCCcchHHHHHHH-------------HHHHHHHHHHHHHHhhcCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCCCCccc
Q 007632 277 YHPTNLVAVIERR-------------NDLARKVAKDFLLDLQSGTLDLGPSVNASSSNKLGQTSEPNSDDDVDNGGKRRR 343 (595)
Q Consensus 277 Y~P~~l~~~~erR-------------~e~~~~~ak~F~~dLesG~fD~~pgv~~~~~~ksG~~sdpn~ede~~~~~Kr~R 343 (595)
|+|.++.+.++.. +-+++..+..|+-.+.++++++++.+.+. ++.+-++.++++.+...+++|.|
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 9999998887765 55667778888889999999998765555 23444567788877777888888
Q ss_pred cCCCCCCcccccc-cCCCCCCCCCChhhHHHhHHHHHHHHHHHhhhhcccccccCCCccccccccccC-CCCCCceeecc
Q 007632 344 HGRGPAKETDLLS-AAPKAHPISSEPRRIQVDIEQAQALVRKLDSEKGITENILCGSDNDKMNREKSH-GSTGPVIIIRG 421 (595)
Q Consensus 344 ~Gw~~~k~~D~~s-~aPka~pi~S~p~RI~~DLeqA~~Lv~kLDaEkGIe~n~L~~~d~~~~d~~~s~-~s~gp~~i~rg 421 (595)
++-+-.+...+++ +|+|.+.+.+.+-||..+.+|+..|+.+|+.+.-|..|++.-.....+..++.+ ++.+|+++++|
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 8776555555444 799999999999999999999999999999999998888655444444444444 47889999999
Q ss_pred cccccCcchhhHHHHHHHHHHHHhhcccccccccc------cccccccccCCCCCCCcCCchhhHHHHhHHHHHHHhhcc
Q 007632 422 LTSVKGLEGVELLDTLITYLWRIHGVDYYGMVETS------EAKGLRHVRAEGKSSDITNNGAEWEKKLDFRWQERLRSQ 495 (595)
Q Consensus 422 ~~~v~g~e~~~~LDllI~YLRrVHs~dYY~~~E~~------er~g~~HvR~~~~~~~~~~~~~~W~kkld~~~~~rL~~~ 495 (595)
++.+.++..+++||+||+|||+||++|||+.+||+ ++||++|||+++..+. .++.+|+++|++.|+.+|...
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 3899999999854432 357789999999999999888
Q ss_pred ChHHHhhhhchhHHHHHHhhhhHHHhhhhcccCCccccCCCCccccccchhHHHHHhhhhChHHHHHHHHhHHHHHHHHh
Q 007632 496 DPLEIMTAKDKIDAAAVDALDPFVRKIRDEKYGWKYGCGAKGCTKLFHAAEFVHKHLKLKHPELVIELTSKVREELYFQN 575 (595)
Q Consensus 496 dpl~~l~~kdkid~~l~e~le~~Vkk~~dE~~g~K~rC~~~~CtKLFKg~EFV~KHI~nKH~E~V~ev~~kv~E~~yfnN 575 (595)
++++.+-++.++.+.++++|++||.++++|+++|||+|+|++|+|||||||||+|||++||.|||+++++ |++||||
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 8888777787888889999999999999999999999999999999999999999999999999999996 8999999
Q ss_pred hhcCCCCCCCCCCCCCCCC
Q 007632 576 YMNDPDAPGGTPVMQQPMP 594 (595)
Q Consensus 576 Yl~DP~rP~~~p~~~q~~~ 594 (595)
||+|||||..+++ +||+|
T Consensus 552 Yl~Dp~rp~~pe~-~~q~p 569 (648)
T KOG2295|consen 552 YLLDPCRPMDPEV-VSQSP 569 (648)
T ss_pred hccCccccCCCcc-ccCCC
Confidence 9999999999999 55554
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=4.7e-35 Score=289.00 Aligned_cols=129 Identities=30% Similarity=0.499 Sum_probs=67.3
Q ss_pred ccccccccccCCCCCCCcC-CchhhHHHHhHHHHHHHhhccC-----hHHHhhhhchhHHHHHHhhhhHHHhhhhcccCC
Q 007632 456 SEAKGLRHVRAEGKSSDIT-NNGAEWEKKLDFRWQERLRSQD-----PLEIMTAKDKIDAAAVDALDPFVRKIRDEKYGW 529 (595)
Q Consensus 456 ~er~g~~HvR~~~~~~~~~-~~~~~W~kkld~~~~~rL~~~d-----pl~~l~~kdkid~~l~e~le~~Vkk~~dE~~g~ 529 (595)
.+||||+|||++.+++.++ .++.+|+|+|+++|+.+|+..+ ++.+|+++ .++++|+++|+++|++ ++++
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-DPEEEVEKFVQKNTKE----EDED 76 (214)
T ss_dssp ------------------------HHHHHHHHHHHHHHHS--HHHHHH-HHHHHH-HHHHHHGGGEEEEE-S----SSSE
T ss_pred cccccccccccccccCccCHHHHHHHHHHHHHHHHHHcCCcCcCChHHHHHHccC-cHHHHHHHHHHHHHHH----HcCC
Confidence 3699999999998887655 4678999999999999997643 55666666 4555555555555544 4458
Q ss_pred ccccCCCCccccccchhHHHHHhhhhChHHHHHHHHhHHHHHHHHhhhcCCCCCCCCCCCCCCCC
Q 007632 530 KYGCGAKGCTKLFHAAEFVHKHLKLKHPELVIELTSKVREELYFQNYMNDPDAPGGTPVMQQPMP 594 (595)
Q Consensus 530 K~rC~~~~CtKLFKg~EFV~KHI~nKH~E~V~ev~~kv~E~~yfnNYl~DP~rP~~~p~~~q~~~ 594 (595)
||+|++ |+|||||+|||+|||+|||+|||+++++ |+.||||||+||+||+.+.+++++.|
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 9999999999999999999999999987 67899999999999998887666543
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=1.1e-25 Score=201.96 Aligned_cols=85 Identities=46% Similarity=0.868 Sum_probs=76.6
Q ss_pred CHHHHHhhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCChhHHhhccCCcchHHHHHHHHHHHHHHHHHHHHHhhc
Q 007632 227 SYKQFIQELEDDILPAEAERRYQEYKSEYISTQKRVFFDAHKDEEWLKDKYHPTNLVAVIERRNDLARKVAKDFLLDLQS 306 (595)
Q Consensus 227 sFKqFl~~~~D~Itp~eA~~rY~eYK~ef~~~q~~~FF~~HK~eeWFrEKY~P~~l~~~~erR~e~~~~~ak~F~~dLes 306 (595)
||||||+.++|+|+|++|+++|++||.+|+++|+++||++||+++||+|||||+.+..+.++|++.+++++++|+++|++
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 007632 307 GTLDL 311 (595)
Q Consensus 307 G~fD~ 311 (595)
|+||.
T Consensus 81 G~~d~ 85 (110)
T PF12066_consen 81 GKFDE 85 (110)
T ss_dssp T----
T ss_pred CCCcc
Confidence 99995
No 4
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=98.98 E-value=4.7e-10 Score=122.80 Aligned_cols=92 Identities=27% Similarity=0.490 Sum_probs=80.8
Q ss_pred CCCCCCCCHHHHHhhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCChhHHhhccCCcchHHHHHHHHHHHHHHHHH
Q 007632 220 TQREGLMSYKQFIQELEDDILPAEAERRYQEYKSEYISTQKRVFFDAHKDEEWLKDKYHPTNLVAVIERRNDLARKVAKD 299 (595)
Q Consensus 220 ~~~~~lmsFKqFl~~~~D~Itp~eA~~rY~eYK~ef~~~q~~~FF~~HK~eeWFrEKY~P~~l~~~~erR~e~~~~~ak~ 299 (595)
.+.+.+-|||.|+.+++|+|...++.++|++||.++..+|...||.+||+++||+.||||....+.+.......++....
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 46677889999999999999999999999999999999999999999999999999999988655555555555666788
Q ss_pred HHHHhhcCCCCC
Q 007632 300 FLLDLQSGTLDL 311 (595)
Q Consensus 300 F~~dLesG~fD~ 311 (595)
|....++|.|+.
T Consensus 122 f~~r~e~~~~~~ 133 (648)
T KOG2295|consen 122 FYARTERGFFES 133 (648)
T ss_pred HHHhhccccccc
Confidence 999999998875
No 5
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=98.10 E-value=1.4e-06 Score=70.21 Aligned_cols=31 Identities=26% Similarity=0.373 Sum_probs=27.7
Q ss_pred CcchhhHHHHHHHHHHHHhhccccccccccc
Q 007632 427 GLEGVELLDTLITYLWRIHGVDYYGMVETSE 457 (595)
Q Consensus 427 g~e~~~~LDllI~YLRrVHs~dYY~~~E~~e 457 (595)
.+...+.|+++|.|||.+|++||||++.|++
T Consensus 9 ~l~~~e~L~~l~~YLR~~~~YC~~Cg~~Y~d 39 (55)
T PF13821_consen 9 ELSPEERLDKLLSYLREEHNYCFWCGTKYDD 39 (55)
T ss_pred ccCHHHHHHHHHHHHHhhCceeeeeCCccCC
Confidence 3555789999999999999999999999975
No 6
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=91.35 E-value=0.52 Score=55.46 Aligned_cols=6 Identities=83% Similarity=2.261 Sum_probs=2.7
Q ss_pred CCCCCC
Q 007632 93 PPPPMP 98 (595)
Q Consensus 93 ~~~~~~ 98 (595)
|||||+
T Consensus 546 ppPPlp 551 (1102)
T KOG1924|consen 546 PPPPLP 551 (1102)
T ss_pred CCCCCC
Confidence 344444
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=89.92 E-value=0.16 Score=33.07 Aligned_cols=23 Identities=30% Similarity=0.704 Sum_probs=20.7
Q ss_pred cccCCCCccccccchhHHHHHhhhhC
Q 007632 531 YGCGAKGCTKLFHAAEFVHKHLKLKH 556 (595)
Q Consensus 531 ~rC~~~~CtKLFKg~EFV~KHI~nKH 556 (595)
|.|. .|+|.|....-+.+||.. |
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 5788 599999999999999987 5
No 8
>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=89.84 E-value=0.23 Score=31.72 Aligned_cols=24 Identities=25% Similarity=0.695 Sum_probs=20.0
Q ss_pred cccCCCCccccccchhHHHHHhhhhC
Q 007632 531 YGCGAKGCTKLFHAAEFVHKHLKLKH 556 (595)
Q Consensus 531 ~rC~~~~CtKLFKg~EFV~KHI~nKH 556 (595)
|.|.+ |++.|....=+++|+.+.|
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 9
>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=85.95 E-value=0.58 Score=33.22 Aligned_cols=30 Identities=33% Similarity=0.464 Sum_probs=25.6
Q ss_pred ccccCCCCccccccchhHHHHHhh-hhChHHHH
Q 007632 530 KYGCGAKGCTKLFHAAEFVHKHLK-LKHPELVI 561 (595)
Q Consensus 530 K~rC~~~~CtKLFKg~EFV~KHI~-nKH~E~V~ 561 (595)
+|.|.+ |.+-|....-+..|+. .||.+.|+
T Consensus 3 ~~~C~~--C~~~~~~~~~~~~H~~gk~H~~~~~ 33 (35)
T smart00451 3 GFYCKL--CNVTFTDEISVEAHLKGKKHKKNVK 33 (35)
T ss_pred CeEccc--cCCccCCHHHHHHHHChHHHHHHHH
Confidence 688986 9999999999999998 67777654
No 10
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=83.74 E-value=1 Score=50.41 Aligned_cols=43 Identities=33% Similarity=0.425 Sum_probs=38.0
Q ss_pred cCCccccCCCCccccccchhHHHHHhh-hhChHHHHHHHHhHHHHH
Q 007632 527 YGWKYGCGAKGCTKLFHAAEFVHKHLK-LKHPELVIELTSKVREEL 571 (595)
Q Consensus 527 ~g~K~rC~~~~CtKLFKg~EFV~KHI~-nKH~E~V~ev~~kv~E~~ 571 (595)
+|+-+-|.| |+|.||...=+..|+. +||-+.|.++++++.|..
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 455589997 9999999999999998 899999999999877664
No 11
>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=83.29 E-value=0.59 Score=31.97 Aligned_cols=24 Identities=33% Similarity=0.757 Sum_probs=20.6
Q ss_pred ccccCCCCccccccchhHHHHHhhhh
Q 007632 530 KYGCGAKGCTKLFHAAEFVHKHLKLK 555 (595)
Q Consensus 530 K~rC~~~~CtKLFKg~EFV~KHI~nK 555 (595)
+|.|.+ |.|-|+...-+..|+..|
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 12
>KOG1994 consensus Predicted RNA binding protein, contains G-patch and Zn-finger domains [RNA processing and modification]
Probab=82.52 E-value=1.3 Score=45.74 Aligned_cols=82 Identities=13% Similarity=0.117 Sum_probs=50.4
Q ss_pred CChhhHHHhHHHHHHHHHHHhhhhcc-cccccCCCccccccccccCCCCCCceeeccccc--ccCcchhhHHHHHHHHHH
Q 007632 366 SEPRRIQVDIEQAQALVRKLDSEKGI-TENILCGSDNDKMNREKSHGSTGPVIIIRGLTS--VKGLEGVELLDTLITYLW 442 (595)
Q Consensus 366 S~p~RI~~DLeqA~~Lv~kLDaEkGI-e~n~L~~~d~~~~d~~~s~~s~gp~~i~rg~~~--v~g~e~~~~LDllI~YLR 442 (595)
+.-.+|..|+.-|++....|+-++|. ....|..-+. ++.+ ..+..++.. .+.+-..+.|-.+.-|||
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 EDKKNMIPMVRESLEASPALKGEKGFGRPSTLKKCET--SIIE--------SRITKDTELAELEEEIIEERLTKINIFLR 236 (268)
T ss_pred hhhhhhHHHHHHHHHhhHHhcCccccCCcchhhhccc--cchh--------hhccCccchhHHHHHHHHHHHHHHHHHHh
Confidence 55679999999999999999888774 2222221110 0000 000111111 111112477999999999
Q ss_pred HHhhccccccccccc
Q 007632 443 RIHGVDYYGMVETSE 457 (595)
Q Consensus 443 rVHs~dYY~~~E~~e 457 (595)
--|-+||||++.|..
T Consensus 237 ~eh~YC~fCG~~y~~ 251 (268)
T KOG1994|consen 237 SEHYYCFFCGIKYKD 251 (268)
T ss_pred ccceEEEEeccccCC
Confidence 999999999999864
No 13
>KOG3973 consensus Uncharacterized conserved glycine-rich protein [Function unknown]
Probab=81.10 E-value=3.7 Score=44.78 Aligned_cols=23 Identities=26% Similarity=0.543 Sum_probs=13.7
Q ss_pred ccCCCCCCCCCCCCCCCCCCCCCCC
Q 007632 173 EMGGRPGYGDERPHGRFAGRSSGGY 197 (595)
Q Consensus 173 ~~gg~~~~~~~~~~g~~~~r~~~g~ 197 (595)
+.||+++|. +|++..++|.+++|
T Consensus 377 G~GGGggyq--qp~~~~~~hqn~~y 399 (465)
T KOG3973|consen 377 GRGGGGGYQ--QPQQQQQQHQNQSY 399 (465)
T ss_pred CCCCCCCCc--Cchhhhhccccccc
Confidence 346666776 56666655555444
No 14
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=80.56 E-value=0.78 Score=38.66 Aligned_cols=31 Identities=29% Similarity=0.603 Sum_probs=23.8
Q ss_pred ccccCCCCccccccchhHHHHHhhhh-ChHHHHH
Q 007632 530 KYGCGAKGCTKLFHAAEFVHKHLKLK-HPELVIE 562 (595)
Q Consensus 530 K~rC~~~~CtKLFKg~EFV~KHI~nK-H~E~V~e 562 (595)
+|.|.+ |++.|+..+=+.+||..+ |..+..+
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 6776543
No 15
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=80.19 E-value=0.92 Score=30.03 Aligned_cols=22 Identities=27% Similarity=0.689 Sum_probs=19.9
Q ss_pred cccCCCCccccccchhHHHHHhhh
Q 007632 531 YGCGAKGCTKLFHAAEFVHKHLKL 554 (595)
Q Consensus 531 ~rC~~~~CtKLFKg~EFV~KHI~n 554 (595)
|.|.+ |.+.|....-+..|+.-
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 67986 99999999999999984
No 16
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=79.23 E-value=3.5 Score=48.96 Aligned_cols=21 Identities=19% Similarity=0.491 Sum_probs=14.1
Q ss_pred hhhHHHhHHHHHHHHHHHhhh
Q 007632 368 PRRIQVDIEQAQALVRKLDSE 388 (595)
Q Consensus 368 p~RI~~DLeqA~~Lv~kLDaE 388 (595)
..-|++-+.|...-|++||..
T Consensus 896 ad~ikK~~~~m~~~ik~Le~d 916 (1102)
T KOG1924|consen 896 ADEIKKNLQQMENQIKKLERD 916 (1102)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 346677777777777777664
No 17
>smart00355 ZnF_C2H2 zinc finger.
Probab=74.59 E-value=2.4 Score=26.94 Aligned_cols=24 Identities=29% Similarity=0.830 Sum_probs=20.3
Q ss_pred cccCCCCccccccchhHHHHHhhhhCh
Q 007632 531 YGCGAKGCTKLFHAAEFVHKHLKLKHP 557 (595)
Q Consensus 531 ~rC~~~~CtKLFKg~EFV~KHI~nKH~ 557 (595)
|.|. .|.|.|....-+..|+. +|.
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 654
No 18
>PHA00616 hypothetical protein
Probab=74.14 E-value=1.4 Score=34.59 Aligned_cols=26 Identities=31% Similarity=0.548 Sum_probs=23.9
Q ss_pred cccCCCCccccccchhHHHHHhhhhChH
Q 007632 531 YGCGAKGCTKLFHAAEFVHKHLKLKHPE 558 (595)
Q Consensus 531 ~rC~~~~CtKLFKg~EFV~KHI~nKH~E 558 (595)
|.|. .|+|.|.-.--+.+||++.|.+
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 6999999999999999999988
No 19
>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=73.86 E-value=0.69 Score=47.07 Aligned_cols=12 Identities=25% Similarity=0.202 Sum_probs=5.6
Q ss_pred hhhHHHHhHHHH
Q 007632 477 GAEWEKKLDFRW 488 (595)
Q Consensus 477 ~~~W~kkld~~~ 488 (595)
...|+.+|..+|
T Consensus 28 ~k~~e~kl~~~L 39 (214)
T PF04959_consen 28 VKTFEEKLQQLL 39 (214)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHc
Confidence 344555554444
No 20
>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=65.03 E-value=4.1 Score=27.35 Aligned_cols=25 Identities=20% Similarity=0.542 Sum_probs=21.3
Q ss_pred cccCCCCccccccchhHHHHHhhhhCh
Q 007632 531 YGCGAKGCTKLFHAAEFVHKHLKLKHP 557 (595)
Q Consensus 531 ~rC~~~~CtKLFKg~EFV~KHI~nKH~ 557 (595)
|.|.. |.|.|....=+.+|++..|.
T Consensus 2 ~~C~~--C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 2 FECDE--CGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp EEETT--TTEEESSHHHHHHHHCTTTT
T ss_pred CCCCc--cCCccCChhHHHHHhHHhcC
Confidence 57884 99999999999999976653
No 21
>KOG2654 consensus Uncharacterized conserved protein [Function unknown]
Probab=61.43 E-value=18 Score=40.31 Aligned_cols=24 Identities=46% Similarity=0.859 Sum_probs=11.8
Q ss_pred hhccCCCCCCCCCCCCCCCCCCCCCCCC
Q 007632 67 ERRDDRDLDRPPPNRRGPDYYDRNRSPP 94 (595)
Q Consensus 67 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (595)
.++ |-|...|.++|. ..|-..|||
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 22
>KOG3875 consensus Peroxisomal biogenesis protein peroxin [Intracellular trafficking, secretion, and vesicular transport]
Probab=57.09 E-value=26 Score=38.05 Aligned_cols=8 Identities=38% Similarity=0.725 Sum_probs=3.6
Q ss_pred CCCCCCCC
Q 007632 113 PPPPPLPY 120 (595)
Q Consensus 113 ~~~~~~~~ 120 (595)
||++++|+
T Consensus 5 pp~~~~p~ 12 (362)
T KOG3875|consen 5 PPQDSRPE 12 (362)
T ss_pred CCCCCchh
Confidence 34444455
No 23
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=56.17 E-value=65 Score=37.65 Aligned_cols=27 Identities=41% Similarity=0.717 Sum_probs=16.5
Q ss_pred CCCCCCCCCCCC---CCCC--CCCCCCC-CCCC
Q 007632 119 PYRDRRHSPPPR---RSPP--YKRSRRD-DGGY 145 (595)
Q Consensus 119 ~~~~rr~sp~~~---~sPp--~kR~rr~-~~g~ 145 (595)
-||.-+|-|-.+ -.|+ |+|-.|+ ||||
T Consensus 782 d~regqHyp~~~~~hGGp~erHgrdsrdGwgGy 814 (940)
T KOG4661|consen 782 DYREGQHYPLSGTVHGGPSERHGRDSRDGWGGY 814 (940)
T ss_pred cchhhcccCccCccCCCchhhccCccCCCcccc
Confidence 567777777663 2454 5666666 5555
No 24
>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=52.50 E-value=9.4 Score=28.68 Aligned_cols=27 Identities=37% Similarity=0.619 Sum_probs=19.9
Q ss_pred CccccCCCCccccccc----hhHHHHHhhhhCh
Q 007632 529 WKYGCGAKGCTKLFHA----AEFVHKHLKLKHP 557 (595)
Q Consensus 529 ~K~rC~~~~CtKLFKg----~EFV~KHI~nKH~ 557 (595)
.+..|.. |.|.|++ ..=+..||.++||
T Consensus 15 ~~a~C~~--C~~~~~~~~~~ts~l~~HL~~~hp 45 (45)
T PF02892_consen 15 KKAKCKY--CGKVIKYSSGGTSNLKRHLKKKHP 45 (45)
T ss_dssp S-EEETT--TTEE-----SSTHHHHHHHHHTTH
T ss_pred CeEEeCC--CCeEEeeCCCcHHHHHHhhhhhCc
Confidence 5789984 9999997 4789999999997
No 25
>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=45.34 E-value=20 Score=40.70 Aligned_cols=47 Identities=23% Similarity=0.405 Sum_probs=35.0
Q ss_pred HHHhhhhHHHhhhhcccCCccccCCCCccccccchhHHHHHhhhhChHHHHHH
Q 007632 511 AVDALDPFVRKIRDEKYGWKYGCGAKGCTKLFHAAEFVHKHLKLKHPELVIEL 563 (595)
Q Consensus 511 l~e~le~~Vkk~~dE~~g~K~rC~~~~CtKLFKg~EFV~KHI~nKH~E~V~ev 563 (595)
+.++ ..|++++. .|. =|.|+. |.|+|...+=...||..+|+..+...
T Consensus 42 Lsea-l~fak~n~--sWr-FWiCp~--CskkF~d~~~~~~H~~~eH~~~l~P~ 88 (466)
T PF04780_consen 42 LSEA-LSFAKENK--SWR-FWICPR--CSKKFSDAESCLSHMEQEHPAGLKPK 88 (466)
T ss_pred HHHH-HHHHHhcC--cee-EeeCCc--ccceeCCHHHHHHHHHHhhhhhcChh
Confidence 4443 46888742 221 367885 99999999999999999999987543
No 26
>KOG2146 consensus Splicing coactivator SRm160/300, subunit SRm160 (contains PWI domain) [RNA processing and modification; General function prediction only]
Probab=44.73 E-value=44 Score=35.96 Aligned_cols=13 Identities=31% Similarity=0.552 Sum_probs=6.0
Q ss_pred CccchhhhhccCC
Q 007632 98 PRERDRDYKRRST 110 (595)
Q Consensus 98 ~~~~~~~~~~~~~ 110 (595)
.|...+-|-|+++
T Consensus 211 grr~~rs~sRsrs 223 (354)
T KOG2146|consen 211 GRRGGRSYSRSRS 223 (354)
T ss_pred cccCccccccccC
Confidence 3344455554444
No 27
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=44.29 E-value=8.1 Score=43.19 Aligned_cols=27 Identities=22% Similarity=0.535 Sum_probs=23.7
Q ss_pred ccccCCCCccccccchhHHHHHhhhhChH
Q 007632 530 KYGCGAKGCTKLFHAAEFVHKHLKLKHPE 558 (595)
Q Consensus 530 K~rC~~~~CtKLFKg~EFV~KHI~nKH~E 558 (595)
.|-|. .|.|+|+-.-|++||...-|--
T Consensus 356 i~~C~--~C~KkFrRqAYLrKHqlthq~~ 382 (500)
T KOG3993|consen 356 IFSCH--TCGKKFRRQAYLRKHQLTHQRA 382 (500)
T ss_pred eeecH--HhhhhhHHHHHHHHhHHhhhcc
Confidence 89998 6999999999999998776654
No 28
>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=43.91 E-value=18 Score=28.69 Aligned_cols=26 Identities=23% Similarity=0.442 Sum_probs=19.7
Q ss_pred ccccCCCCccccccchhHHHHHhhhhChH
Q 007632 530 KYGCGAKGCTKLFHAAEFVHKHLKLKHPE 558 (595)
Q Consensus 530 K~rC~~~~CtKLFKg~EFV~KHI~nKH~E 558 (595)
.|.|+. |+|.|- ..-+.+||..+|..
T Consensus 2 ~f~CP~--C~~~~~-~~~L~~H~~~~H~~ 27 (54)
T PF05605_consen 2 SFTCPY--CGKGFS-ESSLVEHCEDEHRS 27 (54)
T ss_pred CcCCCC--CCCccC-HHHHHHHHHhHCcC
Confidence 688884 889555 45588899888886
No 29
>KOG4246 consensus Predicted DNA-binding protein, contains SAP domain [General function prediction only]
Probab=40.31 E-value=20 Score=43.18 Aligned_cols=11 Identities=45% Similarity=0.368 Sum_probs=5.5
Q ss_pred chhhhhhccCC
Q 007632 62 ERDSRERRDDR 72 (595)
Q Consensus 62 ~~~~~~~~~~~ 72 (595)
.|.++.+|-++
T Consensus 298 ~R~s~~~rf~~ 308 (1194)
T KOG4246|consen 298 DRASYLRRFDL 308 (1194)
T ss_pred cccccchhhhc
Confidence 35555555533
No 30
>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=39.98 E-value=17 Score=24.89 Aligned_cols=24 Identities=38% Similarity=0.610 Sum_probs=18.2
Q ss_pred hhhHHHhhhhcccCCccccCCCCcccccc
Q 007632 515 LDPFVRKIRDEKYGWKYGCGAKGCTKLFH 543 (595)
Q Consensus 515 le~~Vkk~~dE~~g~K~rC~~~~CtKLFK 543 (595)
|..+++..+.|+ .|.|. .|.|.|+
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 445777777774 79998 4999996
No 31
>KOG2146 consensus Splicing coactivator SRm160/300, subunit SRm160 (contains PWI domain) [RNA processing and modification; General function prediction only]
Probab=38.85 E-value=81 Score=34.05 Aligned_cols=10 Identities=60% Similarity=1.125 Sum_probs=4.1
Q ss_pred CCCCCCCCCC
Q 007632 85 DYYDRNRSPP 94 (595)
Q Consensus 85 ~~~~~~~~~~ 94 (595)
--|+|.++||
T Consensus 216 rs~sRsrsp~ 225 (354)
T KOG2146|consen 216 RSYSRSRSPP 225 (354)
T ss_pred cccccccCCc
Confidence 3344444443
No 32
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=36.73 E-value=25 Score=24.09 Aligned_cols=19 Identities=32% Similarity=0.581 Sum_probs=16.5
Q ss_pred ccCCCCccccccchhHHHHHhh
Q 007632 532 GCGAKGCTKLFHAAEFVHKHLK 553 (595)
Q Consensus 532 rC~~~~CtKLFKg~EFV~KHI~ 553 (595)
.|+ .|+.+| .++-+.||+.
T Consensus 4 ~C~--~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCP--ICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCC--CCCCEE-CHHHHHHHHH
Confidence 587 599999 8899999986
No 33
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=36.46 E-value=37 Score=39.77 Aligned_cols=48 Identities=15% Similarity=0.344 Sum_probs=28.8
Q ss_pred ccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCChhHHh-------------hccCCcchHHH
Q 007632 235 LEDDILPAEAERRYQEYKSEYISTQKRVFFDAHKDEEWLK-------------DKYHPTNLVAV 285 (595)
Q Consensus 235 ~~D~Itp~eA~~rY~eYK~ef~~~q~~~FF~~HK~eeWFr-------------EKY~P~~l~~~ 285 (595)
+.++|+|+||+++| |-+-...--...+.+--.+.+|+ ||+.|...+++
T Consensus 506 y~e~lspeeci~e~---kge~~~s~e~~~v~~D~~edff~vsk~~n~~~s~~~ek~~~~~fe~L 566 (1077)
T COG5192 506 YDESLSPEECIEEY---KGESAKSSESDLVVQDEPEDFFDVSKVANESISSNHEKLMESEFEEL 566 (1077)
T ss_pred ccccCCHHHHHHHh---ccccccccccccccccCchhhhhhhhhcccccccchhhhchhHHHHH
Confidence 56789999986654 55444443344455555555665 77777554433
No 34
>PHA00733 hypothetical protein
Probab=33.84 E-value=28 Score=32.56 Aligned_cols=26 Identities=27% Similarity=0.425 Sum_probs=23.5
Q ss_pred ccccCCCCccccccchhHHHHHhhhhCh
Q 007632 530 KYGCGAKGCTKLFHAAEFVHKHLKLKHP 557 (595)
Q Consensus 530 K~rC~~~~CtKLFKg~EFV~KHI~nKH~ 557 (595)
.|.|.. |+|-|....-+..|+..||.
T Consensus 99 ~~~C~~--CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 99 SKVCPV--CGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred CccCCC--CCCccCCHHHHHHHHHHhcC
Confidence 578984 99999999999999999996
No 35
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=33.60 E-value=24 Score=23.19 Aligned_cols=24 Identities=33% Similarity=0.683 Sum_probs=17.2
Q ss_pred cccCCCCccccccchhHHHHHhhhhCh
Q 007632 531 YGCGAKGCTKLFHAAEFVHKHLKLKHP 557 (595)
Q Consensus 531 ~rC~~~~CtKLFKg~EFV~KHI~nKH~ 557 (595)
|.|.. |+=... ..-+.+|++.+|+
T Consensus 1 y~C~~--C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPH--CSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SS--SS-EES-HHHHHHHHHHHHS
T ss_pred CCCCC--CCCcCC-HHHHHHHHHhhCc
Confidence 56874 886666 6779999999885
No 36
>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=32.19 E-value=63 Score=25.57 Aligned_cols=45 Identities=20% Similarity=0.366 Sum_probs=26.7
Q ss_pred hhhhHHHhhhhcccCCccccCCCCccccccchhHHHHHhhhhChHHHHHHHHh
Q 007632 514 ALDPFVRKIRDEKYGWKYGCGAKGCTKLFHAAEFVHKHLKLKHPELVIELTSK 566 (595)
Q Consensus 514 ~le~~Vkk~~dE~~g~K~rC~~~~CtKLFKg~EFV~KHI~nKH~E~V~ev~~k 566 (595)
.+..+|....+. +=.|+| |+--|-..+. .+|-.+..+.++.+.++
T Consensus 8 ~~~k~i~~l~~~----~~~CPl--C~r~l~~e~~--~~li~~~~~~i~~~~~~ 52 (54)
T PF04423_consen 8 ELKKYIEELKEA----KGCCPL--CGRPLDEEHR--QELIKKYKSEIEELPEK 52 (54)
T ss_dssp HHHHHHHHHTT-----SEE-TT--T--EE-HHHH--HHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHhcC----CCcCCC--CCCCCCHHHH--HHHHHHHHHHHHhhhhc
Confidence 455566665333 228997 9999998877 77777777777776553
No 37
>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=30.03 E-value=37 Score=32.43 Aligned_cols=33 Identities=24% Similarity=0.297 Sum_probs=21.5
Q ss_pred CCccccCCCCccccccchhHHHHHhhhhChHHHHHHHH
Q 007632 528 GWKYGCGAKGCTKLFHAAEFVHKHLKLKHPELVIELTS 565 (595)
Q Consensus 528 g~K~rC~~~~CtKLFKg~EFV~KHI~nKH~E~V~ev~~ 565 (595)
.+...|- .|+|.||. +.+||...|+=-.++-++
T Consensus 70 ~d~i~cl--ecGk~~k~---LkrHL~~~~gltp~eYR~ 102 (132)
T PF05443_consen 70 PDYIICL--ECGKKFKT---LKRHLRTHHGLTPEEYRA 102 (132)
T ss_dssp SS-EE-T--BT--EESB---HHHHHHHTT-S-HHHHHH
T ss_pred cCeeEEc--cCCcccch---HHHHHHHccCCCHHHHHH
Confidence 3688997 69999999 699999999866555554
No 38
>PHA02768 hypothetical protein; Provisional
Probab=29.00 E-value=36 Score=28.06 Aligned_cols=24 Identities=21% Similarity=0.542 Sum_probs=21.1
Q ss_pred cccCCCCccccccchhHHHHHhhhhC
Q 007632 531 YGCGAKGCTKLFHAAEFVHKHLKLKH 556 (595)
Q Consensus 531 ~rC~~~~CtKLFKg~EFV~KHI~nKH 556 (595)
|.|. .|+|.|.-..-+..|+++-+
T Consensus 6 y~C~--~CGK~Fs~~~~L~~H~r~H~ 29 (55)
T PHA02768 6 YECP--ICGEIYIKRKSMITHLRKHN 29 (55)
T ss_pred cCcc--hhCCeeccHHHHHHHHHhcC
Confidence 7898 59999999999999999833
No 39
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=28.05 E-value=30 Score=35.62 Aligned_cols=44 Identities=25% Similarity=0.421 Sum_probs=30.8
Q ss_pred HHHHHHhhhhHHHhhhhcccCCccccCCCCccccccchhHHHHHh
Q 007632 508 DAAAVDALDPFVRKIRDEKYGWKYGCGAKGCTKLFHAAEFVHKHL 552 (595)
Q Consensus 508 d~~l~e~le~~Vkk~~dE~~g~K~rC~~~~CtKLFKg~EFV~KHI 552 (595)
+.-|.||-+.|.... -|...+-|.|-|-+||-+||..-=-+.|+
T Consensus 123 d~HI~E~HDs~Fqa~-veRG~dMy~ClvEgCt~KFkT~r~RkdH~ 166 (253)
T KOG4173|consen 123 DAHILEWHDSLFQAL-VERGQDMYQCLVEGCTEKFKTSRDRKDHM 166 (253)
T ss_pred hHHHHHHHHHHHHHH-HHcCccHHHHHHHhhhhhhhhhhhhhhHH
Confidence 444667777665554 55545789999999999999865444444
No 40
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=27.51 E-value=13 Score=40.73 Aligned_cols=52 Identities=17% Similarity=0.354 Sum_probs=41.2
Q ss_pred CccccCCCCccccccchhHHHHHhhhhChHHHHHHHHhHHHHHHHHhhhcCCCCC
Q 007632 529 WKYGCGAKGCTKLFHAAEFVHKHLKLKHPELVIELTSKVREELYFQNYMNDPDAP 583 (595)
Q Consensus 529 ~K~rC~~~~CtKLFKg~EFV~KHI~nKH~E~V~ev~~kv~E~~yfnNYl~DP~rP 583 (595)
+.++|- .|.|.|+...-++-|+++|.--.|.....+ .+-.|.-||+.=++++
T Consensus 194 ~r~~CL--yCekifrdkntLkeHMrkK~HrrinPknre-YDkfyiINY~ev~ks~ 245 (423)
T KOG2482|consen 194 ERLRCL--YCEKIFRDKNTLKEHMRKKRHRRINPKNRE-YDKFYIINYLEVGKSW 245 (423)
T ss_pred hhheee--eeccccCCcHHHHHHHHhccCcccCCCccc-cceEEEEeHhhcCCcc
Confidence 478997 599999999999999998876667665543 2445569999988885
No 41
>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=27.48 E-value=99 Score=32.01 Aligned_cols=49 Identities=29% Similarity=0.556 Sum_probs=37.7
Q ss_pred CCCCHHHHHhhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCChhHH
Q 007632 224 GLMSYKQFIQELEDDILPAEAERRYQEYKSEYISTQKRVFFDAHKDEEWL 273 (595)
Q Consensus 224 ~lmsFKqFl~~~~D~Itp~eA~~rY~eYK~ef~~~q~~~FF~~HK~eeWF 273 (595)
..+=||||+..+...++-+||......==..|.++|+ ++|.....-.||
T Consensus 202 ~aIGYkE~~~~l~g~~~~~e~~e~i~~~TrqyAKRQ~-TWfr~~~~~~w~ 250 (253)
T PF01715_consen 202 QAIGYKEFIDYLEGEISLEEAIERIKTNTRQYAKRQR-TWFRNQPNIHWI 250 (253)
T ss_dssp GSTTHHHHHHHHTTSSCHHHHHHHHHHHHHHHHHHHH-HHHHTTSSEEEE
T ss_pred eeeehHHHHHhhcCCCCHHHHHHHHHHHHHHHHHHHH-HHhCCCCCCeee
Confidence 4578999999999999999998887766667777774 556555555554
No 42
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=26.96 E-value=25 Score=41.98 Aligned_cols=29 Identities=28% Similarity=0.600 Sum_probs=24.7
Q ss_pred CccccCCCCccccccchhHHHHHhhhhChHH
Q 007632 529 WKYGCGAKGCTKLFHAAEFVHKHLKLKHPEL 559 (595)
Q Consensus 529 ~K~rC~~~~CtKLFKg~EFV~KHI~nKH~E~ 559 (595)
-||-|+ +|+|-||=.+-++.||+.--+|+
T Consensus 280 RKFKCt--ECgKAFKfKHHLKEHlRIHSGEK 308 (1007)
T KOG3623|consen 280 RKFKCT--ECGKAFKFKHHLKEHLRIHSGEK 308 (1007)
T ss_pred cccccc--ccchhhhhHHHHHhhheeecCCC
Confidence 489998 89999999999999998766654
No 43
>KOG4702 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.99 E-value=1.3e+02 Score=26.26 Aligned_cols=35 Identities=20% Similarity=0.429 Sum_probs=29.2
Q ss_pred CHHHHHhhccCCCCHHHHHHHHHHHHHHHHHHHHH
Q 007632 227 SYKQFIQELEDDILPAEAERRYQEYKSEYISTQKR 261 (595)
Q Consensus 227 sFKqFl~~~~D~Itp~eA~~rY~eYK~ef~~~q~~ 261 (595)
=|++|+....-.++|-|+.++-+||+.-..+++++
T Consensus 30 ~Fee~v~~~krel~ppe~~~~~EE~~~~lRe~~a~ 64 (77)
T KOG4702|consen 30 IFEEFVRGYKRELSPPEATKRKEEYENFLREQMAF 64 (77)
T ss_pred HHHHHHHhccccCCChHHHhhHHHHHHHHHHHHHH
Confidence 48999988888889999999999999877776543
No 44
>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=24.63 E-value=84 Score=24.83 Aligned_cols=38 Identities=16% Similarity=0.245 Sum_probs=24.7
Q ss_pred hhhHHHhhhhcccCCccccCCCCccccccchhHHHHHhhhhCh
Q 007632 515 LDPFVRKIRDEKYGWKYGCGAKGCTKLFHAAEFVHKHLKLKHP 557 (595)
Q Consensus 515 le~~Vkk~~dE~~g~K~rC~~~~CtKLFKg~EFV~KHI~nKH~ 557 (595)
|-.+|...-... ...+.|++ |.+.|.. =+..||...|.
T Consensus 17 L~~H~~~~H~~~-~~~v~CPi--C~~~~~~--~l~~Hl~~~H~ 54 (54)
T PF05605_consen 17 LVEHCEDEHRSE-SKNVVCPI--CSSRVTD--NLIRHLNSQHR 54 (54)
T ss_pred HHHHHHhHCcCC-CCCccCCC--chhhhhh--HHHHHHHHhcC
Confidence 444555432221 23699996 9998875 56779988873
No 45
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=22.38 E-value=1.2e+02 Score=32.37 Aligned_cols=50 Identities=24% Similarity=0.478 Sum_probs=37.2
Q ss_pred CCCCHHHHHhhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCChhHHh
Q 007632 224 GLMSYKQFIQELEDDILPAEAERRYQEYKSEYISTQKRVFFDAHKDEEWLK 274 (595)
Q Consensus 224 ~lmsFKqFl~~~~D~Itp~eA~~rY~eYK~ef~~~q~~~FF~~HK~eeWFr 274 (595)
..+=||||+.++...+|-++|...-..==..|.++|+ ++|....+-.||-
T Consensus 238 ~aIGykE~~~yl~g~~s~~e~~e~i~~~Tr~yAKRQ~-TWfr~~~~~~w~~ 287 (307)
T PRK00091 238 RAIGYKELLAYLDGEISLEEAIEKIKQATRQYAKRQL-TWFRRQPDIHWLD 287 (307)
T ss_pred eeecHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHH-HHhCCCCCCeeec
Confidence 4577999999999999999998877666667777774 4555555555653
No 46
>PF04817 Umbravirus_LDM: Umbravirus long distance movement (LDM) family ; InterPro: IPR006902 The long distance movement protein of Umbraviruses mediates the movement of viral RNA through the phloem of infected plants [].
Probab=21.13 E-value=3.2e+02 Score=28.55 Aligned_cols=52 Identities=25% Similarity=0.362 Sum_probs=32.8
Q ss_pred CCCCCCCCCCCCCCcccccchhhhhhccCCCCCCC-CCCCCCCCCCCCCCCCC
Q 007632 43 NNSAPQSSPPPPPPPARRRERDSRERRDDRDLDRP-PPNRRGPDYYDRNRSPP 94 (595)
Q Consensus 43 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 94 (595)
.+-.++.+.+++|++..++--=-||..-.-...|+ .++|+|++.--|-..++
T Consensus 60 ~~~~~~~~~~~~~H~~h~g~~v~rE~~~gvha~R~~R~~rrgg~m~pRq~~~~ 112 (231)
T PF04817_consen 60 SNKNIRGPKAVPPHKKHRGPAVHREDSSGVHAPRPRRRRRRGGGMAPRQHPPQ 112 (231)
T ss_pred CCCCCCCCCCCCCCccccCCccccCCCCCcCCCCccccccCCCCCCCCCCCCC
Confidence 44455777788888777765556666665566666 44446666666655554
No 47
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=20.64 E-value=33 Score=28.71 Aligned_cols=27 Identities=26% Similarity=0.374 Sum_probs=0.0
Q ss_pred cCCCCccccccchhHHHHHhhhhChHHHH
Q 007632 533 CGAKGCTKLFHAAEFVHKHLKLKHPELVI 561 (595)
Q Consensus 533 C~~~~CtKLFKg~EFV~KHI~nKH~E~V~ 561 (595)
|. .|...|...+-+.+|+.++|.-.+.
T Consensus 2 C~--~C~~~f~~~~~l~~H~~~~H~~~~~ 28 (100)
T PF12756_consen 2 CL--FCDESFSSVDDLLQHMKKKHGFDIP 28 (100)
T ss_dssp -----------------------------
T ss_pred cc--ccccccccccccccccccccccccc
Confidence 76 4999999999999999999987665
No 48
>KOG2192 consensus PolyC-binding hnRNP-K protein HRB57A/hnRNP, contains KH domain [RNA processing and modification; General function prediction only]
Probab=20.28 E-value=3.3e+02 Score=29.40 Aligned_cols=36 Identities=17% Similarity=0.196 Sum_probs=18.1
Q ss_pred CCCCHHHHHhhccCCC-----CHHHHHHHHHHHHHHHHHHHHH
Q 007632 224 GLMSYKQFIQELEDDI-----LPAEAERRYQEYKSEYISTQKR 261 (595)
Q Consensus 224 ~lmsFKqFl~~~~D~I-----tp~eA~~rY~eYK~ef~~~q~~ 261 (595)
..++..|=+.-++|.| |.++++.+ .|...-.-+|.+
T Consensus 346 A~IkidepleGsedrIitItGTqdQIqnA--QYLlQn~Vkq~r 386 (390)
T KOG2192|consen 346 ASIKIDEPLEGSEDRIITITGTQDQIQNA--QYLLQNSVKQYR 386 (390)
T ss_pred ceEEecCcCCCCCceEEEEeccHHHHhhH--HHHHHHHHHhhh
Confidence 3445555555566665 44444432 455554444443
No 49
>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]
Probab=20.00 E-value=2e+02 Score=31.10 Aligned_cols=49 Identities=24% Similarity=0.428 Sum_probs=35.4
Q ss_pred CCCCHHHHHhhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCChhHH
Q 007632 224 GLMSYKQFIQELEDDILPAEAERRYQEYKSEYISTQKRVFFDAHKDEEWL 273 (595)
Q Consensus 224 ~lmsFKqFl~~~~D~Itp~eA~~rY~eYK~ef~~~q~~~FF~~HK~eeWF 273 (595)
..+=||||+.+++-.+|-+||..+=..=-..|.++|+ +||..-....||
T Consensus 239 ~~iGy~e~~~yl~g~~~~~ea~~~~~~~TRqyAKRQ~-TWfr~~~~~~w~ 287 (308)
T COG0324 239 QAIGYKEILAYLDGGISLEEAIERIKTATRQYAKRQL-TWFRNQLGVHWL 287 (308)
T ss_pred HhcCHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH-HHhccCccccee
Confidence 5678999999998779999998766555566777774 455555555553
Done!