Query psy12252
Match_columns 356
No_of_seqs 278 out of 1999
Neff 8.2
Searched_HMMs 46136
Date Fri Aug 16 22:38:34 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12252.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12252hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2272|consensus 100.0 8.8E-36 1.9E-40 259.8 -7.8 270 17-337 8-311 (332)
2 KOG1701|consensus 100.0 2.8E-33 6E-38 261.2 -0.2 200 3-342 255-466 (468)
3 KOG1044|consensus 99.9 2.8E-24 6.1E-29 207.3 4.6 226 20-330 15-242 (670)
4 KOG2272|consensus 99.9 1.9E-25 4.2E-30 195.2 -4.2 231 50-348 14-262 (332)
5 KOG1703|consensus 99.9 1E-23 2.2E-28 210.5 4.6 178 18-335 300-478 (479)
6 KOG1701|consensus 99.8 3.8E-23 8.2E-28 193.5 -3.2 126 171-347 275-401 (468)
7 KOG1703|consensus 99.7 2.6E-18 5.7E-23 171.7 5.6 182 24-346 246-428 (479)
8 KOG4577|consensus 99.7 1.5E-19 3.2E-24 161.1 -5.5 134 6-229 18-153 (383)
9 KOG4577|consensus 99.7 1.6E-19 3.5E-24 160.9 -5.6 125 169-343 32-158 (383)
10 KOG1044|consensus 99.6 1E-16 2.2E-21 155.4 4.3 173 171-347 17-199 (670)
11 KOG1700|consensus 99.5 1.4E-14 2.9E-19 128.2 2.7 167 171-351 8-180 (200)
12 PF00412 LIM: LIM domain; Int 99.5 2.9E-14 6.3E-19 101.0 2.8 57 24-80 1-58 (58)
13 PF00412 LIM: LIM domain; Int 99.4 8E-14 1.7E-18 98.8 1.8 57 282-339 1-58 (58)
14 KOG1700|consensus 99.4 3.9E-13 8.4E-18 118.9 3.8 152 19-222 5-159 (200)
15 smart00132 LIM Zinc-binding do 98.6 3.5E-08 7.5E-13 63.5 3.1 37 23-59 1-38 (39)
16 smart00132 LIM Zinc-binding do 98.6 5.3E-08 1.1E-12 62.6 2.9 37 281-317 1-38 (39)
17 KOG1702|consensus 97.6 6.3E-06 1.4E-10 71.2 -1.9 60 281-341 6-65 (264)
18 KOG1702|consensus 97.3 2.4E-05 5.2E-10 67.6 -1.8 61 21-81 4-64 (264)
19 KOG0490|consensus 96.4 0.00047 1E-08 62.5 -1.8 114 176-338 2-119 (235)
20 KOG0490|consensus 95.9 0.0013 2.8E-08 59.5 -1.4 52 26-78 1-54 (235)
21 PF14446 Prok-RING_1: Prokaryo 88.8 0.25 5.4E-06 34.0 1.4 37 280-316 6-51 (54)
22 PF14446 Prok-RING_1: Prokaryo 84.9 0.52 1.1E-05 32.4 1.3 39 20-58 4-51 (54)
23 PF10367 Vps39_2: Vacuolar sor 82.3 1.4 3E-05 34.4 3.1 32 19-50 76-108 (109)
24 PF13240 zinc_ribbon_2: zinc-r 73.3 2 4.3E-05 24.1 1.1 10 24-33 2-11 (23)
25 PF08394 Arc_trans_TRASH: Arch 72.9 3.1 6.8E-05 26.2 2.0 32 24-58 1-33 (37)
26 PF09943 DUF2175: Uncharacteri 72.0 1.3 2.9E-05 34.5 0.2 29 281-309 4-33 (101)
27 PF09943 DUF2175: Uncharacteri 66.3 1.7 3.8E-05 33.8 -0.2 30 22-51 3-33 (101)
28 PF11781 RRN7: RNA polymerase 63.6 3.4 7.3E-05 25.9 0.8 26 49-78 9-34 (36)
29 PF01258 zf-dskA_traR: Prokary 55.1 1.6 3.4E-05 27.3 -1.9 28 51-78 6-33 (36)
30 PF06677 Auto_anti-p27: Sjogre 54.8 7 0.00015 25.3 1.1 22 50-75 19-40 (41)
31 COG2191 Formylmethanofuran deh 54.0 6.3 0.00014 34.7 1.1 31 49-79 173-203 (206)
32 smart00531 TFIIE Transcription 52.4 2.7 5.8E-05 35.3 -1.5 56 2-60 79-135 (147)
33 PRK14890 putative Zn-ribbon RN 50.5 14 0.0003 25.9 2.1 27 171-206 8-34 (59)
34 PF10367 Vps39_2: Vacuolar sor 49.9 8.7 0.00019 29.8 1.2 29 280-308 79-108 (109)
35 PF14471 DUF4428: Domain of un 48.9 6.1 0.00013 26.9 0.1 29 50-79 1-30 (51)
36 PF07754 DUF1610: Domain of un 48.8 11 0.00023 21.4 1.1 11 24-34 1-11 (24)
37 PF00645 zf-PARP: Poly(ADP-rib 48.7 5.8 0.00013 29.5 0.0 20 17-36 3-22 (82)
38 COG1645 Uncharacterized Zn-fin 47.0 9.7 0.00021 31.2 1.1 24 50-78 30-53 (131)
39 PF12773 DZR: Double zinc ribb 45.3 24 0.00051 23.4 2.6 9 51-59 15-23 (50)
40 PF14835 zf-RING_6: zf-RING of 42.7 23 0.0005 25.3 2.2 41 49-89 8-48 (65)
41 PF02069 Metallothio_Pro: Prok 40.7 14 0.0003 25.2 0.9 29 50-78 9-38 (52)
42 COG4847 Uncharacterized protei 39.3 11 0.00023 29.0 0.2 35 19-53 4-39 (103)
43 COG2191 Formylmethanofuran deh 39.0 16 0.00034 32.3 1.2 31 307-338 173-203 (206)
44 cd00162 RING RING-finger (Real 38.0 16 0.00035 22.7 0.9 26 24-49 2-27 (45)
45 PF12677 DUF3797: Domain of un 37.2 25 0.00055 23.5 1.7 28 21-48 13-42 (49)
46 PF10235 Cript: Microtubule-as 37.2 24 0.00053 27.0 1.8 11 281-291 71-81 (90)
47 TIGR00373 conserved hypothetic 32.9 9.9 0.00021 32.4 -1.0 33 19-59 107-139 (158)
48 COG4847 Uncharacterized protei 31.4 19 0.00041 27.7 0.4 31 281-311 8-39 (103)
49 PRK06266 transcription initiat 30.8 14 0.0003 32.2 -0.5 50 3-60 98-148 (178)
50 KOG2593|consensus 30.7 12 0.00027 36.7 -0.8 58 2-61 108-166 (436)
51 PF14634 zf-RING_5: zinc-RING 30.3 29 0.00063 22.3 1.2 30 51-80 2-33 (44)
52 PF12674 Zn_ribbon_2: Putative 30.0 26 0.00056 26.3 0.9 29 309-337 3-35 (81)
53 PF04570 DUF581: Protein of un 30.0 26 0.00056 24.5 0.8 26 50-75 18-46 (58)
54 PF13639 zf-RING_2: Ring finge 29.5 13 0.00028 23.9 -0.7 27 23-49 2-30 (44)
55 PF10886 DUF2685: Protein of u 29.3 35 0.00076 23.4 1.4 24 23-46 3-26 (54)
56 PF13834 DUF4193: Domain of un 29.2 20 0.00044 27.9 0.2 31 305-335 69-99 (99)
57 smart00249 PHD PHD zinc finger 28.6 70 0.0015 19.9 2.8 27 23-49 1-29 (47)
58 COG4357 Zinc finger domain con 28.0 6.4 0.00014 30.3 -2.6 59 281-344 37-95 (105)
59 COG2888 Predicted Zn-ribbon RN 27.8 42 0.00091 23.5 1.6 29 21-58 9-37 (61)
60 COG1675 TFA1 Transcription ini 26.5 14 0.0003 32.1 -1.2 47 3-60 98-144 (176)
61 PF07191 zinc-ribbons_6: zinc- 25.1 46 0.001 24.2 1.5 9 281-289 32-40 (70)
62 cd02249 ZZ Zinc finger, ZZ typ 25.1 34 0.00075 22.4 0.8 11 68-78 22-32 (46)
63 PHA02929 N1R/p28-like protein; 25.1 34 0.00075 31.2 1.0 40 20-59 173-227 (238)
64 PF01286 XPA_N: XPA protein N- 24.0 47 0.001 20.5 1.2 26 50-75 5-30 (34)
65 PRK00420 hypothetical protein; 24.0 44 0.00096 26.7 1.3 26 49-78 24-49 (112)
66 PF13248 zf-ribbon_3: zinc-rib 23.8 44 0.00095 19.0 1.0 10 172-181 4-13 (26)
67 KOG3579|consensus 23.2 69 0.0015 29.9 2.6 59 268-332 257-315 (352)
68 PF02591 DUF164: Putative zinc 23.0 8.3 0.00018 26.5 -2.7 16 18-33 19-34 (56)
69 KOG2114|consensus 22.2 30 0.00065 37.0 0.1 56 3-58 821-882 (933)
70 PF08746 zf-RING-like: RING-li 21.3 26 0.00055 22.8 -0.4 27 282-308 1-29 (43)
71 PF00628 PHD: PHD-finger; Int 21.2 89 0.0019 20.5 2.3 26 24-49 2-29 (51)
72 smart00291 ZnF_ZZ Zinc-binding 20.9 47 0.001 21.5 0.8 10 69-78 27-36 (44)
73 PF14255 Cys_rich_CPXG: Cystei 20.7 55 0.0012 22.3 1.1 34 23-59 2-35 (52)
74 cd02341 ZZ_ZZZ3 Zinc finger, Z 20.2 67 0.0015 21.4 1.4 8 231-238 27-34 (48)
No 1
>KOG2272|consensus
Probab=99.98 E-value=8.8e-36 Score=259.82 Aligned_cols=270 Identities=22% Similarity=0.423 Sum_probs=212.3
Q ss_pred CCCCCCCCCCCCCccccceEEE-eCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCCccCC---Ccc
Q psy12252 17 VPAENPKCPACGKSVYAAEERV-AGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGG---GAG 92 (356)
Q Consensus 17 ~~~~~~~C~~C~~~I~~~~~i~-~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~~c~~---~~~ 92 (356)
+..++..|..|......++.++ .+|..||..||.|+.|-.||.++.||+.+|+.||+.++..+|+|-|.+|++ +..
T Consensus 8 ~g~~~~~C~RC~~gF~~~e~~vns~ge~wH~~CFvCAQCf~pf~~g~~~efEgRkYCEhDF~~LfaPcC~kC~EFiiGrV 87 (332)
T KOG2272|consen 8 SGLANMVCERCRDGFEPAEKIVNSNGELWHEQCFVCAQCFRPFPDGIFYEFEGRKYCEHDFHVLFAPCCGKCGEFIIGRV 87 (332)
T ss_pred hHHHHHHHHHHhccCCchhhhhccCchhhHHHHHHHHHhcCcCCCceeEEecCcccccccchhhhchhhcccccchhhHH
Confidence 3456678999999998888665 688999999999999999999999999999999999999999999999998 234
Q ss_pred eeeccc---------ccccccCCCCcccccCCceecccCcCcccCCCC--CCCCCCCCcCCCCcccccccC---------
Q psy12252 93 CLSMDA---------GMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKG--YGFGGGAGCLSMDAGEHLTEN--------- 152 (356)
Q Consensus 93 ~~~~~~---------~~c~~~l~~~~~~~~~~~~~C~~c~~~~~~p~~--~~~~~g~~~~~~d~~~~~~~~--------- 152 (356)
+.+|+. ..|++.|.+..|.-..|+..|..|.++.-+..- ..+......+..+...+-+.+
T Consensus 88 ikamnnSwHp~CF~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~~~l~fr~d~yH~yHFkCt 167 (332)
T KOG2272|consen 88 IKAMNNSWHPACFRCDLCNKHLADQGFYRNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDEQPLTFRGDPYHPYHFKCT 167 (332)
T ss_pred HHhhccccCcccchhHHHHHHHhhhhhHhhcchHHhhhhhhhhcccccceeehhhhhhhcccccccccCCCCCccceecc
Confidence 555553 388899999999988999999998876321100 000001112222222221111
Q ss_pred -------CCCCc---cccccccccCCCCCCCCCCCceEecceeeccCCCcccccccccccCcCcCCCCccccCCCCceec
Q psy12252 153 -------NAPRT---TVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYC 222 (356)
Q Consensus 153 -------~~~~~---~~~~~~~~~~~~~~~C~~C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C 222 (356)
+..+. .+++..+......++|..|++||. +.+|.++|+.||+++|+|+.|.+|+-+-..+ ++.|..||
T Consensus 168 ~C~keL~sdaRevk~eLyClrChD~mgipiCgaC~rpIe-ervi~amgKhWHveHFvCa~CekPFlGHrHY-EkkGlaYC 245 (332)
T KOG2272|consen 168 TCGKELTSDAREVKGELYCLRCHDKMGIPICGACRRPIE-ERVIFAMGKHWHVEHFVCAKCEKPFLGHRHY-EKKGLAYC 245 (332)
T ss_pred cccccccchhhhhccceeccccccccCCcccccccCchH-HHHHHHhccccchhheeehhcCCcccchhhh-hhcCchhH
Confidence 00000 244455555566789999999997 4567899999999999999999998776654 59999999
Q ss_pred ccccccCCcccccccccccCCCcccCCCCCceeecCCCCccccCCCCCCCCCCCCCCCCCCCCCceeecceEEEeCCccc
Q psy12252 223 KTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIW 302 (356)
Q Consensus 223 ~~c~~~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e~v~~~g~~~ 302 (356)
+.+|.++||. .|..|+.+|. |+++.+.++.|
T Consensus 246 -----------e~h~~qLfG~-------------------------------------~CF~C~~~i~-G~vv~al~Kaw 276 (332)
T KOG2272|consen 246 -----------ETHYHQLFGN-------------------------------------LCFICNRVIG-GDVVSALNKAW 276 (332)
T ss_pred -----------HHHHHHHhhh-------------------------------------hheecCCccC-ccHHHHhhhhh
Confidence 8889999985 7999999996 78899999999
Q ss_pred ccCcccccccCCCCCCCCCccCCCCcccccccccc
Q psy12252 303 HRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGK 337 (356)
Q Consensus 303 H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~ 337 (356)
-++||+|+.|.+.|+..+.+++.|.+|.|++||++
T Consensus 277 Cv~cf~Cs~Cdkkl~~K~Kf~E~DmkP~CKkCy~r 311 (332)
T KOG2272|consen 277 CVECFSCSTCDKKLTQKNKFYEFDMKPVCKKCYDR 311 (332)
T ss_pred ccccccccccccccccccceeeeccchHHHHHHhh
Confidence 99999999999999999877789999999999984
No 2
>KOG1701|consensus
Probab=99.97 E-value=2.8e-33 Score=261.19 Aligned_cols=200 Identities=25% Similarity=0.564 Sum_probs=166.5
Q ss_pred hhhhhcccccc-CCCCCCCCCCCCCCCCccccce-EEEeCCceeccCCcccccccccccCCCccccCCcccCcccccccc
Q psy12252 3 VKQYKKKLDII-MPFVPAENPKCPACGKSVYAAE-ERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKY 80 (356)
Q Consensus 3 ~~~~~~~~~~~-~~~~~~~~~~C~~C~~~I~~~~-~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~ 80 (356)
++..+.+|+.. .+-......+|.+|+|.|++++ .+.|+++.||..||+|..|++.|.+..||..|+++||+.||++..
T Consensus 255 ~~~~e~el~~t~~~p~~~~~~iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~tl 334 (468)
T KOG1701|consen 255 LWPVEAELEPTEAEPVEDYFGICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDTL 334 (468)
T ss_pred CcchhhhcCCCCCChhhhhhhhhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccccCCcccchHHHHHHH
Confidence 34444555531 1112345679999999999877 466999999999999999999999999999999999999998732
Q ss_pred CCCCCccCCCcceeecccccccccCCCCcccccCCceecccCcCcccCCCCCCCCCCCCcCCCCcccccccCCCCCcccc
Q psy12252 81 GPKGYGFGGGAGCLSMDAGMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVI 160 (356)
Q Consensus 81 ~~~c~~c~~~~~~~~~~~~~c~~~l~~~~~~~~~~~~~C~~c~~~~~~p~~~~~~~g~~~~~~d~~~~~~~~~~~~~~~~ 160 (356)
T Consensus 335 -------------------------------------------------------------------------------- 334 (468)
T KOG1701|consen 335 -------------------------------------------------------------------------------- 334 (468)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred ccccccCCCCCCCCCCCceEecceeeccCCCcccccccccccCcCcCCCCccccCCCCceecccccccCCcccccccccc
Q psy12252 161 DTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKN 240 (356)
Q Consensus 161 ~~~~~~~~~~~~C~~C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~ 240 (356)
.+|..|+++|++ .++.|+|+.||+.||+|..|++.|++..|....++.+|| ..||.+.
T Consensus 335 ----------ekC~~Cg~~I~d-~iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~C-----------v~dfh~k 392 (468)
T KOG1701|consen 335 ----------EKCNKCGEPIMD-RILRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYC-----------VPDFHKK 392 (468)
T ss_pred ----------HHHhhhhhHHHH-HHHHhcccccCCCceEEEEeccccCCccccccCCCceee-----------ehhhhhh
Confidence 268889999985 457899999999999999999999999888889999999 7788888
Q ss_pred cCCCcccCCCCCceeecCCCCccccCCCCCCCCCCCCCCCCCCCCCceeecce------EEEeCCcccccCcccccccCC
Q psy12252 241 FGPKGFGYGHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAE------QMISKNRIWHRRCFSCADCHR 314 (356)
Q Consensus 241 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e------~v~~~g~~~H~~CF~C~~C~~ 314 (356)
|++ +|+.|+++|.+.+ .|+++|+.||.+|++|..|+.
T Consensus 393 fAP-------------------------------------rCs~C~~PI~P~~G~~etvRvvamdr~fHv~CY~CEDCg~ 435 (468)
T KOG1701|consen 393 FAP-------------------------------------RCSVCGNPILPRDGKDETVRVVAMDRDFHVNCYKCEDCGL 435 (468)
T ss_pred cCc-------------------------------------chhhccCCccCCCCCcceEEEEEccccccccceehhhcCc
Confidence 887 7999999998533 356899999999999999999
Q ss_pred CCCCCC----CccCCCCccccccccccccCCC
Q psy12252 315 SLDSTN----LNDGPDNDIYCRGCYGKNFGPK 342 (356)
Q Consensus 315 ~L~~~~----~~~~~~g~~yC~~c~~~~f~~~ 342 (356)
.|..+. -| -.||.++|+.|..++....
T Consensus 436 ~LS~e~e~qgCy-Pld~HllCk~Ch~~Rl~~~ 466 (468)
T KOG1701|consen 436 LLSSEEEGQGCY-PLDGHLLCKTCHLKRLQAG 466 (468)
T ss_pred cccccCCCCcce-eccCceeechhhhhhhccc
Confidence 998332 33 5799999999998876554
No 3
>KOG1044|consensus
Probab=99.89 E-value=2.8e-24 Score=207.28 Aligned_cols=226 Identities=24% Similarity=0.505 Sum_probs=152.2
Q ss_pred CCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCC-CCCccCCCcceeeccc
Q psy12252 20 ENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGP-KGYGFGGGAGCLSMDA 98 (356)
Q Consensus 20 ~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~-~c~~c~~~~~~~~~~~ 98 (356)
....|.+|.+...+ +++.+.++.||..||+|..|+..|+.+.||.++++ +++++ .|..+.+++.+..+
T Consensus 15 ~~i~c~~c~~kc~g-evlrv~d~~fhi~cf~c~~cg~~la~~gff~k~~~--------~~ygt~~c~~~~~gevvsa~-- 83 (670)
T KOG1044|consen 15 QGIKCDKCRKKCSG-EVLRVNDNHFHINCFQCKKCGRNLAEGGFFTKPEN--------RLYGTDDCRAFVEGEVVSTL-- 83 (670)
T ss_pred cceehhhhCCcccc-ceeEeeccccceeeeeccccCCCcccccceecccc--------eeecccchhhhccceeEecc--
Confidence 35689999999885 88999999999999999999999999999998875 33333 22333333333322
Q ss_pred ccccccCCCCcccccCCceecccCcCccc-CCCCCCCCCCCCcCCCCcccccccCCCCCccccccccccCCCCCCCCCCC
Q psy12252 99 GMCSKFLDSTNCTEHEKELYCRQCHGRKY-GPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCG 177 (356)
Q Consensus 99 ~~c~~~l~~~~~~~~~~~~~C~~c~~~~~-~p~~~~~~~g~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~ 177 (356)
..++|.+.++|..|-...- +.+.. ..|+..+..-+ ..+.+ .+.........|++|+
T Consensus 84 ----------gktyh~~cf~cs~ck~pf~~g~~vt--~~gk~~~c~~c-------~~~~~----~~p~~~~~ps~cagc~ 140 (670)
T KOG1044|consen 84 ----------GKTYHPKCFSCSTCKSPFKSGDKVT--FSGKECLCQTC-------SQPMP----VSPAESYGPSTCAGCG 140 (670)
T ss_pred ----------cceeccccceecccCCCCCCCCeee--ecchhhhhhhh-------cCccc----CCcccccCCccccchh
Confidence 2334555555555543211 00000 00100000000 00111 0011112345899999
Q ss_pred ceEecceeeccCCCcccccccccccCcCcCCCCccccCCCCceecccccccCCcccccccccccCCCcccCCCCCceeec
Q psy12252 178 GVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVST 257 (356)
Q Consensus 178 ~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~ 257 (356)
+.|..+..+.|+++.||+.||+|..|...|.++++ ..+|.+|| ..+|...||.
T Consensus 141 ~~lk~gq~llald~qwhv~cfkc~~c~~vL~gey~--skdg~pyc-----------e~dy~~~fgv-------------- 193 (670)
T KOG1044|consen 141 EELKNGQALLALDKQWHVSCFKCKSCSAVLNGEYM--SKDGVPYC-----------EKDYQAKFGV-------------- 193 (670)
T ss_pred hhhhccceeeeeccceeeeeeehhhhcccccceee--ccCCCcch-----------hhhhhhhcCe--------------
Confidence 99999999999999999999999999999988765 48999999 6667666765
Q ss_pred CCCCccccCCCCCCCCCCCCCCCCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccc
Q psy12252 258 SGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIY 330 (356)
Q Consensus 258 ~~~~~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~y 330 (356)
+|..|.+-|. |.++.|.|++||+.|-+|+.|+.++..+.-++.....+|
T Consensus 194 -----------------------kc~~c~~fis-gkvLqag~kh~HPtCARCsRCgqmF~eGEEMYlQGs~iW 242 (670)
T KOG1044|consen 194 -----------------------KCEECEKFIS-GKVLQAGDKHFHPTCARCSRCGQMFGEGEEMYLQGSEIW 242 (670)
T ss_pred -----------------------ehHHhhhhhh-hhhhhccCcccCcchhhhhhhccccccchheeecccccc
Confidence 5888888886 567778888888888888888888887765443334444
No 4
>KOG2272|consensus
Probab=99.89 E-value=1.9e-25 Score=195.21 Aligned_cols=231 Identities=21% Similarity=0.433 Sum_probs=168.1
Q ss_pred ccccccccccCC-CccccCCcccCccccccccCCCCCccCCCcceeecccccccccCCCCcccccCCceecccCcCcccC
Q psy12252 50 KCSMCSKFLDST-NCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGMCSKFLDSTNCTEHEKELYCRQCHGRKYG 128 (356)
Q Consensus 50 ~C~~C~~~L~~~-~~~~~~g~~yC~~cy~~~~~~~c~~c~~~~~~~~~~~~~c~~~l~~~~~~~~~~~~~C~~c~~~~~~ 128 (356)
.|..|...++.. .++..+|++|..+|+. ++.|-.||.+..|+..+++.||+.+++.+|+
T Consensus 14 ~C~RC~~gF~~~e~~vns~ge~wH~~CFv--------------------CAQCf~pf~~g~~~efEgRkYCEhDF~~Lfa 73 (332)
T KOG2272|consen 14 VCERCRDGFEPAEKIVNSNGELWHEQCFV--------------------CAQCFRPFPDGIFYEFEGRKYCEHDFHVLFA 73 (332)
T ss_pred HHHHHhccCCchhhhhccCchhhHHHHHH--------------------HHHhcCcCCCceeEEecCcccccccchhhhc
Confidence 567777777655 6888899999888874 2347788999999999999999999999998
Q ss_pred CCCCCCCCCCCcCCCCcccccccCCCCCccccccccccCCCCCCCCCCCceEecceeeccCCCcccccccccccCcCcCC
Q psy12252 129 PKGYGFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLD 208 (356)
Q Consensus 129 p~~~~~~~g~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~ 208 (356)
| .|+.|++-|. |.+|.+++.+||+.||+|..|++.|.
T Consensus 74 P------------------------------------------cC~kC~EFii-GrVikamnnSwHp~CF~Cd~Cn~~La 110 (332)
T KOG2272|consen 74 P------------------------------------------CCGKCGEFII-GRVIKAMNNSWHPACFRCDLCNKHLA 110 (332)
T ss_pred h------------------------------------------hhcccccchh-hHHHHhhccccCcccchhHHHHHHHh
Confidence 6 5888899888 67789999999999999999999999
Q ss_pred CCccccCCCCceecccccccCC------cccccccccccCCCcccC----CCCCceeecCCCCccccCCCCCCCC-----
Q psy12252 209 SINACDGPDKDIYCKTCYGKKH------KYCKACYGKNFGPKGFGY----GHSPTLVSTSGESTMQFYDARPTSG----- 273 (356)
Q Consensus 209 ~~~~~~~~~g~~~C~~c~~~~~------~~C~~c~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~p~~g----- 273 (356)
+..|+ ...|..+|..|..+.. ..|..|..-+-.. -..+ =|+-+...+.-..- ....++...|
T Consensus 111 d~gf~-rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~~-~l~fr~d~yH~yHFkCt~C~ke-L~sdaRevk~eLyCl 187 (332)
T KOG2272|consen 111 DQGFY-RNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDEQ-PLTFRGDPYHPYHFKCTTCGKE-LTSDAREVKGELYCL 187 (332)
T ss_pred hhhhH-hhcchHHhhhhhhhhcccccceeehhhhhhhcccc-cccccCCCCCccceeccccccc-ccchhhhhccceecc
Confidence 87765 4799999988887743 3444443221100 0000 01111111110000 0000111111
Q ss_pred --CCCCCCCCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCCccccCC
Q psy12252 274 --LKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCGFGL 348 (356)
Q Consensus 274 --~~~~~~~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~~~~~ 348 (356)
....+..+|..|.+||. +..|.++|+.||.++|+|+.|.+++-+-..+ ++.|.+||+.+|.+|||..|..+..
T Consensus 188 rChD~mgipiCgaC~rpIe-ervi~amgKhWHveHFvCa~CekPFlGHrHY-EkkGlaYCe~h~~qLfG~~CF~C~~ 262 (332)
T KOG2272|consen 188 RCHDKMGIPICGACRRPIE-ERVIFAMGKHWHVEHFVCAKCEKPFLGHRHY-EKKGLAYCETHYHQLFGNLCFICNR 262 (332)
T ss_pred ccccccCCcccccccCchH-HHHHHHhccccchhheeehhcCCcccchhhh-hhcCchhHHHHHHHHhhhhheecCC
Confidence 01245568999999997 3556799999999999999999999888776 6999999999999999999886665
No 5
>KOG1703|consensus
Probab=99.88 E-value=1e-23 Score=210.47 Aligned_cols=178 Identities=26% Similarity=0.614 Sum_probs=154.7
Q ss_pred CCCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCCccCCCcceeecc
Q psy12252 18 PAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMD 97 (356)
Q Consensus 18 ~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~~c~~~~~~~~~~ 97 (356)
....++|..|+..|.+...++++++.||+.+|.|..|...|....+...+|.+||.+||.+.+.+.
T Consensus 300 ~~~~p~c~~c~~~i~~~~~i~~~~~~~h~~~~~c~~~~~~~~~~~~~~~~g~~~c~~~~~~~~~p~-------------- 365 (479)
T KOG1703|consen 300 NVTRPLCLSCNQKIRSVKVIVALGKEWHPEHFSCEVCAIVILDGGPRELDGKILCHECFHAPFRPN-------------- 365 (479)
T ss_pred ccccccccccccCcccceeEeeccccccccceeeccccccccCCCccccCCCccHHHHHHHhhCcc--------------
Confidence 356699999999999768889999999999999999999999998999999999999998877654
Q ss_pred cccccccCCCCcccccCCceecccCcCcccCCCCCCCCCCCCcCCCCcccccccCCCCCccccccccccCCCCCCCCCCC
Q psy12252 98 AGMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCG 177 (356)
Q Consensus 98 ~~~c~~~l~~~~~~~~~~~~~C~~c~~~~~~p~~~~~~~g~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~ 177 (356)
|.+|.
T Consensus 366 ---------------------------------------------------------------------------C~~C~ 370 (479)
T KOG1703|consen 366 ---------------------------------------------------------------------------CKRCL 370 (479)
T ss_pred ---------------------------------------------------------------------------ccccC
Confidence 66677
Q ss_pred ceEecceeeccCCCcccccccccccCcCcCCCCccccCCCCceecccccccCCcccccccccccCCCcccCCCCCceeec
Q psy12252 178 GVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVST 257 (356)
Q Consensus 178 ~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~ 257 (356)
.+|. ++.|.|++..||++||.|..|+++|....++ ..++.+|| ..||..++++
T Consensus 371 ~~i~-~~~v~a~~~~wH~~cf~C~~C~~~~~~~~~~-~~~~~pyc-----------e~~~~~~~~~-------------- 423 (479)
T KOG1703|consen 371 LPIL-EEGVCALGRLWHPECFVCADCGKPLKNSSFF-ESDGEPYC-----------EDHYKKLFTT-------------- 423 (479)
T ss_pred CchH-HhHhhhccCeechhceeeecccCCCCCCccc-ccCCccch-----------hhhHhhhccc--------------
Confidence 7777 4567888999999999999999999988776 48999999 6666666654
Q ss_pred CCCCccccCCCCCCCCCCCCCCCCCCCCCceeecceE-EEeCCcccccCcccccccCCCCCCCCCccCCCCcccccccc
Q psy12252 258 SGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQ-MISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCY 335 (356)
Q Consensus 258 ~~~~~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e~-v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~ 335 (356)
.|..|.++|..+.. +.+++..||..||+|+.|.+.|.++.|+ ...++|+|.+|+
T Consensus 424 -----------------------~~~~~~~p~~~~~~~ie~~~~~~h~~~F~c~~c~~~l~~~~~~-~~~~~p~c~~~~ 478 (479)
T KOG1703|consen 424 -----------------------KCDYCKKPVEFGSRQIEADGSPFHGDCFRCANCMKKLTKKTFF-ETLDKPLCQKHF 478 (479)
T ss_pred -----------------------cchhccchhHhhhhHhhccCccccccceehhhhhccccCCcee-ecCCccccccCC
Confidence 68999998876554 5799999999999999999999999988 589999999986
No 6
>KOG1701|consensus
Probab=99.85 E-value=3.8e-23 Score=193.53 Aligned_cols=126 Identities=28% Similarity=0.661 Sum_probs=109.8
Q ss_pred CCCCCCCceEecce-eeccCCCcccccccccccCcCcCCCCccccCCCCceecccccccCCcccccccccccCCCcccCC
Q psy12252 171 KGCPRCGGVVFAAE-QVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYG 249 (356)
Q Consensus 171 ~~C~~C~~~I~~~~-~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~~~~~ 249 (356)
.+|.+|++.|.... .+.|+++.||..||+|..|++.|.+..|+. .++++||+. ||....
T Consensus 275 ~iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~-v~~k~~CE~-----------cyq~tl-------- 334 (468)
T KOG1701|consen 275 GICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQ-VDGKPYCEG-----------CYQDTL-------- 334 (468)
T ss_pred hhhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccc-cCCcccchH-----------HHHHHH--------
Confidence 48999999999654 468999999999999999999999988875 899999954 444322
Q ss_pred CCCceeecCCCCccccCCCCCCCCCCCCCCCCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCcc
Q psy12252 250 HSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDI 329 (356)
Q Consensus 250 ~~~~~~~~~~~~~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~ 329 (356)
.+|..|+++|.+ ..|+|+|+.||+.||+|..|++.|++..|..+.++++
T Consensus 335 ------------------------------ekC~~Cg~~I~d-~iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v 383 (468)
T KOG1701|consen 335 ------------------------------EKCNKCGEPIMD-RILRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNV 383 (468)
T ss_pred ------------------------------HHHhhhhhHHHH-HHHHhcccccCCCceEEEEeccccCCccccccCCCce
Confidence 269999999983 4468999999999999999999999999998889999
Q ss_pred ccccccccccCCCccccC
Q psy12252 330 YCRGCYGKNFGPKGCGFG 347 (356)
Q Consensus 330 yC~~c~~~~f~~~~~~~~ 347 (356)
||..||.++||+||.-++
T Consensus 384 ~Cv~dfh~kfAPrCs~C~ 401 (468)
T KOG1701|consen 384 YCVPDFHKKFAPRCSVCG 401 (468)
T ss_pred eeehhhhhhcCcchhhcc
Confidence 999999999999987554
No 7
>KOG1703|consensus
Probab=99.73 E-value=2.6e-18 Score=171.66 Aligned_cols=182 Identities=23% Similarity=0.422 Sum_probs=151.3
Q ss_pred CCCCCCccccceEEEeCCceeccCCcccc-cccccccCCCccccCCcccCccccccccCCCCCccCCCcceeeccccccc
Q psy12252 24 CPACGKSVYAAEERVAGGYKFHKMCFKCS-MCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGMCS 102 (356)
Q Consensus 24 C~~C~~~I~~~~~i~~~~~~~H~~CF~C~-~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~~c~~~~~~~~~~~~~c~ 102 (356)
|+.+..+|.. ..+.+....||...|+|. .+...|....++.+.+..++..+|...+.
T Consensus 246 ~~~~~~p~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------------- 303 (479)
T KOG1703|consen 246 SASMDSPECQ-PLVSAPRPASEGLHMKVEKELPLLLVESEALKKLREEEKPAEYHNVTR--------------------- 303 (479)
T ss_pred CcccCCCccC-cceecccccccccccccccccchhhccccccccccccccccccccccc---------------------
Confidence 6777777765 455677888999998888 78888888888888888877776654222
Q ss_pred ccCCCCcccccCCceecccCcCcccCCCCCCCCCCCCcCCCCcccccccCCCCCccccccccccCCCCCCCCCCCceEec
Q psy12252 103 KFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFA 182 (356)
Q Consensus 103 ~~l~~~~~~~~~~~~~C~~c~~~~~~p~~~~~~~g~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~ 182 (356)
+.|..|.+.|..
T Consensus 304 --------------------------------------------------------------------p~c~~c~~~i~~ 315 (479)
T KOG1703|consen 304 --------------------------------------------------------------------PLCLSCNQKIRS 315 (479)
T ss_pred --------------------------------------------------------------------ccccccccCccc
Confidence 367888888885
Q ss_pred ceeeccCCCcccccccccccCcCcCCCCccccCCCCceecccccccCCcccccccccccCCCcccCCCCCceeecCCCCc
Q psy12252 183 AEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVSTSGEST 262 (356)
Q Consensus 183 ~~~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~~~ 262 (356)
...+.++++.||+.+|.|..|...+....+. ..+|.+|| ..|+.+.+.+
T Consensus 316 ~~~i~~~~~~~h~~~~~c~~~~~~~~~~~~~-~~~g~~~c-----------~~~~~~~~~p------------------- 364 (479)
T KOG1703|consen 316 VKVIVALGKEWHPEHFSCEVCAIVILDGGPR-ELDGKILC-----------HECFHAPFRP------------------- 364 (479)
T ss_pred ceeEeeccccccccceeeccccccccCCCcc-ccCCCccH-----------HHHHHHhhCc-------------------
Confidence 4778999999999999999999999887764 58999999 6676666655
Q ss_pred cccCCCCCCCCCCCCCCCCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCC
Q psy12252 263 MQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPK 342 (356)
Q Consensus 263 ~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~ 342 (356)
.|.+|.++|. ++.|.+.++.||++||.|..|++.|.+..|+ ..+|.|||+.||.++|+++
T Consensus 365 ------------------~C~~C~~~i~-~~~v~a~~~~wH~~cf~C~~C~~~~~~~~~~-~~~~~pyce~~~~~~~~~~ 424 (479)
T KOG1703|consen 365 ------------------NCKRCLLPIL-EEGVCALGRLWHPECFVCADCGKPLKNSSFF-ESDGEPYCEDHYKKLFTTK 424 (479)
T ss_pred ------------------cccccCCchH-HhHhhhccCeechhceeeecccCCCCCCccc-ccCCccchhhhHhhhcccc
Confidence 6999999998 5888888999999999999999999999988 5999999999999999988
Q ss_pred cccc
Q psy12252 343 GCGF 346 (356)
Q Consensus 343 ~~~~ 346 (356)
|..+
T Consensus 425 ~~~~ 428 (479)
T KOG1703|consen 425 CDYC 428 (479)
T ss_pred chhc
Confidence 7544
No 8
>KOG4577|consensus
Probab=99.71 E-value=1.5e-19 Score=161.13 Aligned_cols=134 Identities=23% Similarity=0.419 Sum_probs=110.4
Q ss_pred hhccccccCCCCCCCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCC
Q psy12252 6 YKKKLDIIMPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGY 85 (356)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~ 85 (356)
+..-|-...+|...+.++|+.|.+.|.+.-++.++++.||..|++|+.|..+|.+. .|.++|.+||+++|.++|+++|.
T Consensus 18 ~~~lLs~~~df~~~eip~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~dr-CFsR~~s~yCkedFfKrfGTKCs 96 (383)
T KOG4577|consen 18 LPGLLSPQEDFSNVEIPICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLADR-CFSREGSVYCKEDFFKRFGTKCS 96 (383)
T ss_pred ChhhccccccccccccccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHHHH-HhhcCCceeehHHHHHHhCCcch
Confidence 33445555567777899999999999976677799999999999999999999976 68899999999999999988765
Q ss_pred ccCCCcceeecccccccccCCCCcccccCCceecccCcCcccCCCCCCCCCCCCcCCCCcccccccCCCCCccccccccc
Q psy12252 86 GFGGGAGCLSMDAGMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKI 165 (356)
Q Consensus 86 ~c~~~~~~~~~~~~~c~~~l~~~~~~~~~~~~~C~~c~~~~~~p~~~~~~~g~~~~~~d~~~~~~~~~~~~~~~~~~~~~ 165 (356)
+|.
T Consensus 97 aC~----------------------------------------------------------------------------- 99 (383)
T KOG4577|consen 97 ACQ----------------------------------------------------------------------------- 99 (383)
T ss_pred hhc-----------------------------------------------------------------------------
Confidence 554
Q ss_pred cCCCCCCCCCCCceEecceee-ccCCCcccccccccccCcCcCCCC-ccccCCCCceecccccccC
Q psy12252 166 KAAPGKGCPRCGGVVFAAEQV-LAKGSEWHRKCFKCRDCNKTLDSI-NACDGPDKDIYCKTCYGKK 229 (356)
Q Consensus 166 ~~~~~~~C~~C~~~I~~~~~i-~a~~~~~H~~CF~C~~C~~~l~~~-~~~~~~~g~~~C~~c~~~~ 229 (356)
..|.+..+| .|.+.+||..||.|..|++.|..+ .|+...|++++|+++|..-
T Consensus 100 ------------~GIpPtqVVRkAqd~VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLvCK~DYE~A 153 (383)
T KOG4577|consen 100 ------------EGIPPTQVVRKAQDFVYHLHCFACFICKRQLATGDEFYLMEDARLVCKDDYETA 153 (383)
T ss_pred ------------CCCChHHHHHHhhcceeehhhhhhHhhhcccccCCeeEEeccceeehhhhHHHH
Confidence 444555656 488999999999999999999876 5666689999998877653
No 9
>KOG4577|consensus
Probab=99.71 E-value=1.6e-19 Score=160.90 Aligned_cols=125 Identities=22% Similarity=0.523 Sum_probs=111.3
Q ss_pred CCCCCCCCCceEecceeeccCCCcccccccccccCcCcCCCCccccCCCCceecccccccCCcccccccccccCCCcccC
Q psy12252 169 PGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGY 248 (356)
Q Consensus 169 ~~~~C~~C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~~~~ 248 (356)
..++|++|.+.|.+..++.++++.||..|++|+.|..+|.+..| .+++.+|| +.+|.+.||+
T Consensus 32 eip~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~drCF--sR~~s~yC-----------kedFfKrfGT----- 93 (383)
T KOG4577|consen 32 EIPICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLADRCF--SREGSVYC-----------KEDFFKRFGT----- 93 (383)
T ss_pred ccccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHHHHHh--hcCCceee-----------hHHHHHHhCC-----
Confidence 44799999999999888899999999999999999999999877 48999999 8899999997
Q ss_pred CCCCceeecCCCCccccCCCCCCCCCCCCCCCCCCCCCceeecceEEE-eCCcccccCcccccccCCCCCCCC-CccCCC
Q psy12252 249 GHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMI-SKNRIWHRRCFSCADCHRSLDSTN-LNDGPD 326 (356)
Q Consensus 249 ~~~~~~~~~~~~~~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e~v~-~~g~~~H~~CF~C~~C~~~L~~~~-~~~~~~ 326 (356)
+|..|...|.+.++|+ |.+..||.+||.|..|+++|..++ |+.+.|
T Consensus 94 --------------------------------KCsaC~~GIpPtqVVRkAqd~VYHl~CF~C~iC~R~L~TGdEFYLmeD 141 (383)
T KOG4577|consen 94 --------------------------------KCSACQEGIPPTQVVRKAQDFVYHLHCFACFICKRQLATGDEFYLMED 141 (383)
T ss_pred --------------------------------cchhhcCCCChHHHHHHhhcceeehhhhhhHhhhcccccCCeeEEecc
Confidence 5999999999988884 899999999999999999999887 666678
Q ss_pred CccccccccccccCCCc
Q psy12252 327 NDIYCRGCYGKNFGPKG 343 (356)
Q Consensus 327 g~~yC~~c~~~~f~~~~ 343 (356)
+++.|+.+|+..=...|
T Consensus 142 ~rLvCK~DYE~Ak~k~~ 158 (383)
T KOG4577|consen 142 ARLVCKDDYETAKQKHC 158 (383)
T ss_pred ceeehhhhHHHHHhccc
Confidence 99999999997533333
No 10
>KOG1044|consensus
Probab=99.64 E-value=1e-16 Score=155.37 Aligned_cols=173 Identities=23% Similarity=0.475 Sum_probs=115.5
Q ss_pred CCCCCCCceEecceeeccCCCcccccccccccCcCcCCCCccccCCCCceecccccccCCccccc--ccccccCCCcccC
Q psy12252 171 KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKA--CYGKNFGPKGFGY 248 (356)
Q Consensus 171 ~~C~~C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C~~c~~~~~~~C~~--c~~~~~~~~~~~~ 248 (356)
..|..|.+.-. ++++.+.++.||..||.|..|+..|+.+-|+...+..+|+.....+ +..++. =..+.+.++++..
T Consensus 17 i~c~~c~~kc~-gevlrv~d~~fhi~cf~c~~cg~~la~~gff~k~~~~~ygt~~c~~-~~~gevvsa~gktyh~~cf~c 94 (670)
T KOG1044|consen 17 IKCDKCRKKCS-GEVLRVNDNHFHINCFQCKKCGRNLAEGGFFTKPENRLYGTDDCRA-FVEGEVVSTLGKTYHPKCFSC 94 (670)
T ss_pred eehhhhCCccc-cceeEeeccccceeeeeccccCCCcccccceecccceeecccchhh-hccceeEecccceecccccee
Confidence 46889998876 7889999999999999999999999988776555667787411100 000000 0001112222211
Q ss_pred CC------CCceeecCCCCccccCC--CCCCCCCCCCCCCCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCC
Q psy12252 249 GH------SPTLVSTSGESTMQFYD--ARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTN 320 (356)
Q Consensus 249 ~~------~~~~~~~~~~~~~~~~~--~~p~~g~~~~~~~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~ 320 (356)
.- +-..++.++........ ..|.+.....+...|++|++.|..|+.+.|+++.||..||+|..|...|.+++
T Consensus 95 s~ck~pf~~g~~vt~~gk~~~c~~c~~~~~~~p~~~~~ps~cagc~~~lk~gq~llald~qwhv~cfkc~~c~~vL~gey 174 (670)
T KOG1044|consen 95 STCKSPFKSGDKVTFSGKECLCQTCSQPMPVSPAESYGPSTCAGCGEELKNGQALLALDKQWHVSCFKCKSCSAVLNGEY 174 (670)
T ss_pred cccCCCCCCCCeeeecchhhhhhhhcCcccCCcccccCCccccchhhhhhccceeeeeccceeeeeeehhhhccccccee
Confidence 10 11122333333222221 11111111224568999999999999999999999999999999999999885
Q ss_pred CccCCCCccccccccccccCCCccccC
Q psy12252 321 LNDGPDNDIYCRGCYGKNFGPKGCGFG 347 (356)
Q Consensus 321 ~~~~~~g~~yC~~c~~~~f~~~~~~~~ 347 (356)
. .+||.|||+.||++.||.||+.+.
T Consensus 175 ~--skdg~pyce~dy~~~fgvkc~~c~ 199 (670)
T KOG1044|consen 175 M--SKDGVPYCEKDYQAKFGVKCEECE 199 (670)
T ss_pred e--ccCCCcchhhhhhhhcCeehHHhh
Confidence 3 599999999999999999987543
No 11
>KOG1700|consensus
Probab=99.48 E-value=1.4e-14 Score=128.22 Aligned_cols=167 Identities=28% Similarity=0.595 Sum_probs=123.1
Q ss_pred CCCCCCCceEecceeeccCCCcccccccccccCcCcCCCCccccCCCCceecccccccCCcccccccccccCCCcccCCC
Q psy12252 171 KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGH 250 (356)
Q Consensus 171 ~~C~~C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~~~~~~ 250 (356)
..|..|++.++..+.+...|..||..||.|..|.+.|....+. ..++.+|| ..++..++++++.+.+.
T Consensus 8 ~kc~~c~k~vy~~e~~~~~g~~~hk~c~~c~~~~k~l~~~~~~-~~e~~~yc-----------~~~~~~~~~~~~~~~~~ 75 (200)
T KOG1700|consen 8 DKCNACGKTVYFVEKVQKDGVDFHKECFKCEKCKKTLTLSGYS-EHEGVPYC-----------KNCHVAQFGPKGGGFGK 75 (200)
T ss_pred chhhhccCcchHHHHHhccCcchhhhHHhcccccccccccccc-cccccccc-----------ccchHhhhCcccccccc
Confidence 4799999999988888888999999999999999999987765 48999999 66677788887655443
Q ss_pred C----CceeecCCCC-ccccCCCCCCCCCCCCCCCCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCC
Q psy12252 251 S----PTLVSTSGES-TMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGP 325 (356)
Q Consensus 251 ~----~~~~~~~~~~-~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~ 325 (356)
. ..+..+..+. .... ..........+....|.+|.+.+++.|.++..+..||..||+|+.|+..|..+.+. ..
T Consensus 76 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~g~~~~c~~c~k~vy~~Ek~~~~~~~~hk~cfrc~~~~~~ls~~~~~-~~ 153 (200)
T KOG1700|consen 76 GFQKAGGLGKDGKSLNESKP-NQSAKFQVFAGEKEKCARCQKTVYPLEKVTGNGLEFHKSCFRCTHCGKKLSPKNYA-AL 153 (200)
T ss_pred cccccCCCCccccccccccc-ccchhHHhhhccccccccccceeeehHHHhhhhhhhhhhheeecccccccCCcchh-hc
Confidence 1 1111111100 0000 00011122345667999999999999999999999999999999999999999987 57
Q ss_pred CCcccccc-ccccccCCCccccCCCCC
Q psy12252 326 DNDIYCRG-CYGKNFGPKGCGFGLGAG 351 (356)
Q Consensus 326 ~g~~yC~~-c~~~~f~~~~~~~~~~~~ 351 (356)
++.+||.. +++..+++..++..+.++
T Consensus 154 ~g~l~~~~~~~~~~~~~~~~~~~~~~~ 180 (200)
T KOG1700|consen 154 EGVLYCKHHFAQLFKGKGNYNEGFGAR 180 (200)
T ss_pred CCccccchhhheeecCCCcccccchhh
Confidence 88888765 555577888888776544
No 12
>PF00412 LIM: LIM domain; InterPro: IPR001781 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 LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=99.46 E-value=2.9e-14 Score=101.05 Aligned_cols=57 Identities=37% Similarity=0.853 Sum_probs=53.1
Q ss_pred CCCCCCccccceEE-EeCCceeccCCcccccccccccCCCccccCCcccCcccccccc
Q psy12252 24 CPACGKSVYAAEER-VAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKY 80 (356)
Q Consensus 24 C~~C~~~I~~~~~i-~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~ 80 (356)
|.+|+++|.+++.+ .++|+.||++||+|+.|+++|.+..|++.+|++||.+||.++|
T Consensus 1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~f 58 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKAMGKFWHPECFKCSKCGKPLNDGDFYEKDGKPYCKDCYQKRF 58 (58)
T ss_dssp BTTTSSBESSSSEEEEETTEEEETTTSBETTTTCBTTTSSEEEETTEEEEHHHHHHHT
T ss_pred CCCCCCCccCcEEEEEeCCcEEEccccccCCCCCccCCCeeEeECCEEECHHHHhhhC
Confidence 78999999988766 5999999999999999999999999999999999999998865
No 13
>PF00412 LIM: LIM domain; InterPro: IPR001781 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 LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=99.40 E-value=8e-14 Score=98.79 Aligned_cols=57 Identities=35% Similarity=1.005 Sum_probs=52.5
Q ss_pred CCCCCceeecceEE-EeCCcccccCcccccccCCCCCCCCCccCCCCcccccccccccc
Q psy12252 282 CPRCGFVVYAAEQM-ISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNF 339 (356)
Q Consensus 282 C~~C~~~I~~~e~v-~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f 339 (356)
|++|+++|.+++.+ .+.|+.||++||+|+.|+++|.++.++ ..+|++||+.||.++|
T Consensus 1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~-~~~~~~~C~~c~~~~f 58 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKAMGKFWHPECFKCSKCGKPLNDGDFY-EKDGKPYCKDCYQKRF 58 (58)
T ss_dssp BTTTSSBESSSSEEEEETTEEEETTTSBETTTTCBTTTSSEE-EETTEEEEHHHHHHHT
T ss_pred CCCCCCCccCcEEEEEeCCcEEEccccccCCCCCccCCCeeE-eECCEEECHHHHhhhC
Confidence 78999999987776 599999999999999999999999866 5999999999999987
No 14
>KOG1700|consensus
Probab=99.36 E-value=3.9e-13 Score=118.95 Aligned_cols=152 Identities=38% Similarity=0.792 Sum_probs=113.5
Q ss_pred CCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCCccCCC---cceee
Q psy12252 19 AENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGG---AGCLS 95 (356)
Q Consensus 19 ~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~~c~~~---~~~~~ 95 (356)
.....|..|++.|+-.+.+...|..||+.||.|..|.+.|....+..+++.+||+.+|...++++-...+++ .+...
T Consensus 5 ~~~~kc~~c~k~vy~~e~~~~~g~~~hk~c~~c~~~~k~l~~~~~~~~e~~~yc~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (200)
T KOG1700|consen 5 GTTDKCNACGKTVYFVEKVQKDGVDFHKECFKCEKCKKTLTLSGYSEHEGVPYCKNCHVAQFGPKGGGFGKGFQKAGGLG 84 (200)
T ss_pred cccchhhhccCcchHHHHHhccCcchhhhHHhccccccccccccccccccccccccchHhhhCcccccccccccccCCCC
Confidence 345689999999998888888999999999999999999999999999999999999888888864433321 00000
Q ss_pred cccccccccCCCCcccccCCceecccCcCcccCCCCCCCCCCCCcCCCCcccccccCCCCCccccccccccCCCCCCCCC
Q psy12252 96 MDAGMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPR 175 (356)
Q Consensus 96 ~~~~~c~~~l~~~~~~~~~~~~~C~~c~~~~~~p~~~~~~~g~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~ 175 (356)
....+.+... +. ......+.......|..
T Consensus 85 ------------------------------------------~~~~~~~~~~-----~~----~~~~~~~~~g~~~~c~~ 113 (200)
T KOG1700|consen 85 ------------------------------------------KDGKSLNESK-----PN----QSAKFQVFAGEKEKCAR 113 (200)
T ss_pred ------------------------------------------cccccccccc-----cc----cchhHHhhhcccccccc
Confidence 0000000000 00 00112234455678999
Q ss_pred CCceEecceeeccCCCcccccccccccCcCcCCCCccccCCCCceec
Q psy12252 176 CGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYC 222 (356)
Q Consensus 176 C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C 222 (356)
|.+.+++.+.+...+..||..||+|+.|+..|+.+.+. ...+.+||
T Consensus 114 c~k~vy~~Ek~~~~~~~~hk~cfrc~~~~~~ls~~~~~-~~~g~l~~ 159 (200)
T KOG1700|consen 114 CQKTVYPLEKVTGNGLEFHKSCFRCTHCGKKLSPKNYA-ALEGVLYC 159 (200)
T ss_pred ccceeeehHHHhhhhhhhhhhheeecccccccCCcchh-hcCCcccc
Confidence 99999998888999999999999999999999988775 47888888
No 15
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=98.60 E-value=3.5e-08 Score=63.46 Aligned_cols=37 Identities=43% Similarity=0.791 Sum_probs=33.5
Q ss_pred CCCCCCCccccc-eEEEeCCceeccCCccccccccccc
Q psy12252 23 KCPACGKSVYAA-EERVAGGYKFHKMCFKCSMCSKFLD 59 (356)
Q Consensus 23 ~C~~C~~~I~~~-~~i~~~~~~~H~~CF~C~~C~~~L~ 59 (356)
+|..|+++|.++ ..+.++++.||++||+|..|+++|.
T Consensus 1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence 589999999987 5677899999999999999999986
No 16
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=98.55 E-value=5.3e-08 Score=62.58 Aligned_cols=37 Identities=27% Similarity=0.855 Sum_probs=33.0
Q ss_pred CCCCCCceeecc-eEEEeCCcccccCcccccccCCCCC
Q psy12252 281 GCPRCGFVVYAA-EQMISKNRIWHRRCFSCADCHRSLD 317 (356)
Q Consensus 281 ~C~~C~~~I~~~-e~v~~~g~~~H~~CF~C~~C~~~L~ 317 (356)
+|.+|+++|.++ ..+.+.++.||++||+|..|+++|.
T Consensus 1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence 489999999976 5567899999999999999999985
No 17
>KOG1702|consensus
Probab=97.61 E-value=6.3e-06 Score=71.17 Aligned_cols=60 Identities=32% Similarity=0.778 Sum_probs=54.4
Q ss_pred CCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCC
Q psy12252 281 GCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGP 341 (356)
Q Consensus 281 ~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~ 341 (356)
.|..|++.+++.|.|..+++.||..||+|..|+..|+...+- ..|.+|||..+|.+..++
T Consensus 6 n~~~cgk~vYPvE~v~cldk~whk~cfkce~c~mtlnmKnyK-gy~kkpycn~hYpkq~at 65 (264)
T KOG1702|consen 6 NREDCGKTVYPVEEVKCLDKVWHKQCFKCEVCGMTLNMKNYK-GYDKKPYCNPHYPKQVAT 65 (264)
T ss_pred hhhhhccccccHHHHhhHHHHHHHHhheeeeccCChhhhhcc-ccccCCCcCcccccceee
Confidence 589999999999999999999999999999999999998876 379999999999987654
No 18
>KOG1702|consensus
Probab=97.34 E-value=2.4e-05 Score=67.65 Aligned_cols=61 Identities=31% Similarity=0.596 Sum_probs=55.1
Q ss_pred CCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccC
Q psy12252 21 NPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYG 81 (356)
Q Consensus 21 ~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~ 81 (356)
+..|..|++.++..+.+.-+++.||..||+|..|+-+|.-..|--.+.++||..+|....+
T Consensus 4 k~n~~~cgk~vYPvE~v~cldk~whk~cfkce~c~mtlnmKnyKgy~kkpycn~hYpkq~a 64 (264)
T KOG1702|consen 4 KCNREDCGKTVYPVEEVKCLDKVWHKQCFKCEVCGMTLNMKNYKGYDKKPYCNPHYPKQVA 64 (264)
T ss_pred cchhhhhccccccHHHHhhHHHHHHHHhheeeeccCChhhhhccccccCCCcCccccccee
Confidence 4568899999999888889999999999999999999998888888999999999987654
No 19
>KOG0490|consensus
Probab=96.37 E-value=0.00047 Score=62.46 Aligned_cols=114 Identities=23% Similarity=0.526 Sum_probs=82.2
Q ss_pred CCceEecceeeccCCCcccccccccccCcCcCC--CCccccCCCCceecccccccCCcccccccccccCCCcccCCCCCc
Q psy12252 176 CGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLD--SINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPT 253 (356)
Q Consensus 176 C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~--~~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~~~~~~~~~ 253 (356)
|+..|.+...+.+.+..||..|..|..|...+. ...+ ..+|..|| ...+...+.
T Consensus 2 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~g~~~~-----------~~d~~~~~~----------- 57 (235)
T KOG0490|consen 2 CGRQILDRYLLRVLDRYWHASCLKCAECDNPLGVGDTCF--SKDGSIYC-----------KRDYQREFK----------- 57 (235)
T ss_pred CCccccchHHhhcccHHHHHHHHhhhhhcchhccCCCcc--cCCCcccc-----------cccchhhhh-----------
Confidence 566677666666779999999999999999997 3333 34999999 444443111
Q ss_pred eeecCCCCccccCCCCCCCCCCCCCCCCCCCCCceeecceEE-EeCCcccccCcccccccCCCCCCCC-CccCCCCcccc
Q psy12252 254 LVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQM-ISKNRIWHRRCFSCADCHRSLDSTN-LNDGPDNDIYC 331 (356)
Q Consensus 254 ~~~~~~~~~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e~v-~~~g~~~H~~CF~C~~C~~~L~~~~-~~~~~~g~~yC 331 (356)
...+|.+|...+...|.| .+..+. |..||.|..|...+.... +.+...-+.+|
T Consensus 58 ------------------------~~~rr~rt~~~~~ql~~ler~f~~~-h~Pd~~~r~~la~~~~~~e~rVqvwFqnrr 112 (235)
T KOG0490|consen 58 ------------------------FSKRCARCKFTISQLDELERAFEKV-HLPCFACRECLALLLTGDEFRVQVWFQNRR 112 (235)
T ss_pred ------------------------ccccccCCCCCcCHHHHHHHhhcCC-CcCccchHHHHhhcCCCCeeeeehhhhhhc
Confidence 113799999999766665 467777 999999999999766555 44334558888
Q ss_pred ccccccc
Q psy12252 332 RGCYGKN 338 (356)
Q Consensus 332 ~~c~~~~ 338 (356)
.+++.+.
T Consensus 113 ak~r~~~ 119 (235)
T KOG0490|consen 113 AKDRKEE 119 (235)
T ss_pred Hhhhhhh
Confidence 8887543
No 20
>KOG0490|consensus
Probab=95.88 E-value=0.0013 Score=59.52 Aligned_cols=52 Identities=23% Similarity=0.537 Sum_probs=43.2
Q ss_pred CCCCccccceEEEeCCceeccCCccccccccccc--CCCccccCCcccCcccccc
Q psy12252 26 ACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLD--STNCTEHEKELYCRQCHGR 78 (356)
Q Consensus 26 ~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~--~~~~~~~~g~~yC~~cy~~ 78 (356)
.|+..|.+...+.+.+..||..|..|..|...|. ...|.. +|..||..+|.+
T Consensus 1 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~d~~~ 54 (235)
T KOG0490|consen 1 GCGRQILDRYLLRVLDRYWHASCLKCAECDNPLGVGDTCFSK-DGSIYCKRDYQR 54 (235)
T ss_pred CCCccccchHHhhcccHHHHHHHHhhhhhcchhccCCCcccC-CCcccccccchh
Confidence 3677787766666779999999999999999997 445555 999999999987
No 21
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=88.82 E-value=0.25 Score=33.96 Aligned_cols=37 Identities=24% Similarity=0.749 Sum_probs=27.9
Q ss_pred CCCCCCCceeecceEEE---eCCcccccCcc----cccc--cCCCC
Q psy12252 280 DGCPRCGFVVYAAEQMI---SKNRIWHRRCF----SCAD--CHRSL 316 (356)
Q Consensus 280 ~~C~~C~~~I~~~e~v~---~~g~~~H~~CF----~C~~--C~~~L 316 (356)
.+|..|+++|.+++.++ .-+..||.+|. .|.. |+..+
T Consensus 6 ~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~g~C~~~~c~~~~ 51 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKAGGCINYSCGTGF 51 (54)
T ss_pred ccChhhCCcccCCCCEEECCCCCCcccHHHHhhCCceEeccCCCCc
Confidence 38999999998665543 56889999998 5666 66544
No 22
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=84.88 E-value=0.52 Score=32.38 Aligned_cols=39 Identities=33% Similarity=0.745 Sum_probs=27.9
Q ss_pred CCCCCCCCCCccccce-EEE--eCCceeccCCc----cccc--ccccc
Q psy12252 20 ENPKCPACGKSVYAAE-ERV--AGGYKFHKMCF----KCSM--CSKFL 58 (356)
Q Consensus 20 ~~~~C~~C~~~I~~~~-~i~--~~~~~~H~~CF----~C~~--C~~~L 58 (356)
...+|..|+++|..++ .++ .-+-.||.+|- .|.. |+.++
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~g~C~~~~c~~~~ 51 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKAGGCINYSCGTGF 51 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhhCCceEeccCCCCc
Confidence 4578999999997444 343 46888999996 5665 65544
No 23
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=82.35 E-value=1.4 Score=34.42 Aligned_cols=32 Identities=34% Similarity=0.580 Sum_probs=24.0
Q ss_pred CCCCCCCCCCCccccceEEE-eCCceeccCCcc
Q psy12252 19 AENPKCPACGKSVYAAEERV-AGGYKFHKMCFK 50 (356)
Q Consensus 19 ~~~~~C~~C~~~I~~~~~i~-~~~~~~H~~CF~ 50 (356)
.....|..|+++|.....++ ..|..+|..|++
T Consensus 76 ~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 34677999999998755444 467789999864
No 24
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=73.28 E-value=2 Score=24.07 Aligned_cols=10 Identities=40% Similarity=1.225 Sum_probs=5.6
Q ss_pred CCCCCCcccc
Q psy12252 24 CPACGKSVYA 33 (356)
Q Consensus 24 C~~C~~~I~~ 33 (356)
|+.|+..|..
T Consensus 2 Cp~CG~~~~~ 11 (23)
T PF13240_consen 2 CPNCGAEIED 11 (23)
T ss_pred CcccCCCCCC
Confidence 5556665543
No 25
>PF08394 Arc_trans_TRASH: Archaeal TRASH domain; InterPro: IPR013603 This region is found in the C terminus of a number of archaeal transcriptional regulators. It is thought to function as a metal-sensing regulatory module [].
Probab=72.90 E-value=3.1 Score=26.25 Aligned_cols=32 Identities=19% Similarity=0.437 Sum_probs=22.1
Q ss_pred CCCCCCccccceEE-EeCCceeccCCcccccccccc
Q psy12252 24 CPACGKSVYAAEER-VAGGYKFHKMCFKCSMCSKFL 58 (356)
Q Consensus 24 C~~C~~~I~~~~~i-~~~~~~~H~~CF~C~~C~~~L 58 (356)
|.-|+++|.+...+ ...++.||--| ..|.+.|
T Consensus 1 Cd~CG~~I~~eP~~~k~~~~~y~fCC---~tC~~~f 33 (37)
T PF08394_consen 1 CDYCGGEITGEPIVVKIGNKVYYFCC---PTCLSQF 33 (37)
T ss_pred CCccCCcccCCEEEEEECCeEEEEEC---HHHHHHH
Confidence 67899999975543 37899998544 5554444
No 26
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=72.03 E-value=1.3 Score=34.52 Aligned_cols=29 Identities=28% Similarity=0.521 Sum_probs=24.0
Q ss_pred CCCCCCceeecceEEEe-CCcccccCcccc
Q psy12252 281 GCPRCGFVVYAAEQMIS-KNRIWHRRCFSC 309 (356)
Q Consensus 281 ~C~~C~~~I~~~e~v~~-~g~~~H~~CF~C 309 (356)
+|..|+++|+.|+..+. .+..-|-+||+=
T Consensus 4 kC~iCg~~I~~gqlFTF~~kG~VH~~C~~~ 33 (101)
T PF09943_consen 4 KCYICGKPIYEGQLFTFTKKGPVHYECFRE 33 (101)
T ss_pred EEEecCCeeeecceEEEecCCcEeHHHHHH
Confidence 69999999999998874 445679999973
No 27
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=66.25 E-value=1.7 Score=33.85 Aligned_cols=30 Identities=30% Similarity=0.541 Sum_probs=22.1
Q ss_pred CCCCCCCCccccceEEE-eCCceeccCCccc
Q psy12252 22 PKCPACGKSVYAAEERV-AGGYKFHKMCFKC 51 (356)
Q Consensus 22 ~~C~~C~~~I~~~~~i~-~~~~~~H~~CF~C 51 (356)
..|..|+++|+.++... ..+..-|..||.=
T Consensus 3 WkC~iCg~~I~~gqlFTF~~kG~VH~~C~~~ 33 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTKKGPVHYECFRE 33 (101)
T ss_pred eEEEecCCeeeecceEEEecCCcEeHHHHHH
Confidence 46888888888877665 4556788888763
No 28
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=63.63 E-value=3.4 Score=25.92 Aligned_cols=26 Identities=19% Similarity=0.520 Sum_probs=18.8
Q ss_pred cccccccccccCCCccccCCcccCcccccc
Q psy12252 49 FKCSMCSKFLDSTNCTEHEKELYCRQCHGR 78 (356)
Q Consensus 49 F~C~~C~~~L~~~~~~~~~g~~yC~~cy~~ 78 (356)
+.|..|+.. -|...||..||..|...
T Consensus 9 ~~C~~C~~~----~~~~~dG~~yC~~cG~~ 34 (36)
T PF11781_consen 9 EPCPVCGSR----WFYSDDGFYYCDRCGHQ 34 (36)
T ss_pred CcCCCCCCe----EeEccCCEEEhhhCceE
Confidence 347778766 36778899999887653
No 29
>PF01258 zf-dskA_traR: Prokaryotic dksA/traR C4-type zinc finger; InterPro: IPR000962 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 domains identified in zinc finger-containing members of the DksA/TraR family. DksA is a critical component of the rRNA transcription initiation machinery that potentiates the regulation of rRNA promoters by ppGpp and the initiating NTP. In delta-dksA mutants, rRNA promoters are unresponsive to changes in amino acid availability, growth rate, or growth phase. In vitro, DksA binds to RNAP, reduces open complex lifetime, inhibits rRNA promoter activity, and amplifies effects of ppGpp and the initiating NTP on rRNA transcription [, ]. The dksA gene product suppresses the temperature-sensitive growth and filamentation of a dnaK deletion mutant of Escherichia coli. Gene knockout [] and deletion [] experiments have shown the gene to be non-essential, mutations causing a mild sensitivity to UV light, but not affecting DNA recombination []. In Pseudomonas aeruginosa, dksA is a novel regulator involved in the post-transcriptional control of extracellular virulence factor production []. The proteins contain a C-terminal region thought to fold into a 4-cysteine zinc finger. Other proteins found to contain a similar zinc finger domain include: the traR gene products encoded on the E. coli F and R100 plasmids [, ] the traR gene products encoded on Salmonella spp. plasmids pED208 and pSLT the dnaK suppressor hypothetical proteins from bacteria and bacteriophage FHL4, LIM proteins from Homo sapiens (Human) and Mus musculus (Mouse) [] More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2GVI_A 2KQ9_A 2KGO_A 1TJL_I.
Probab=55.12 E-value=1.6 Score=27.27 Aligned_cols=28 Identities=18% Similarity=0.500 Sum_probs=17.4
Q ss_pred cccccccccCCCccccCCcccCcccccc
Q psy12252 51 CSMCSKFLDSTNCTEHEKELYCRQCHGR 78 (356)
Q Consensus 51 C~~C~~~L~~~~~~~~~g~~yC~~cy~~ 78 (356)
|..|+.++........++..+|.+|+..
T Consensus 6 C~~CGe~I~~~Rl~~~p~~~~C~~C~~~ 33 (36)
T PF01258_consen 6 CEDCGEPIPEERLVAVPGATLCVECQER 33 (36)
T ss_dssp -TTTSSBEEHHHHHHCTTECS-HHHHHH
T ss_pred ccccCChHHHHHHHhCCCcEECHHHhCc
Confidence 6677777766666666777777776543
No 30
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=54.78 E-value=7 Score=25.28 Aligned_cols=22 Identities=27% Similarity=0.854 Sum_probs=13.1
Q ss_pred ccccccccccCCCccccCCcccCccc
Q psy12252 50 KCSMCSKFLDSTNCTEHEKELYCRQC 75 (356)
Q Consensus 50 ~C~~C~~~L~~~~~~~~~g~~yC~~c 75 (356)
.|..|+.||- ..++|+.||..|
T Consensus 19 ~Cp~C~~PL~----~~k~g~~~Cv~C 40 (41)
T PF06677_consen 19 HCPDCGTPLM----RDKDGKIYCVSC 40 (41)
T ss_pred ccCCCCCeeE----EecCCCEECCCC
Confidence 3556666663 245677777655
No 31
>COG2191 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]
Probab=54.05 E-value=6.3 Score=34.74 Aligned_cols=31 Identities=19% Similarity=0.580 Sum_probs=27.8
Q ss_pred cccccccccccCCCccccCCcccCccccccc
Q psy12252 49 FKCSMCSKFLDSTNCTEHEKELYCRQCHGRK 79 (356)
Q Consensus 49 F~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~ 79 (356)
-+|+.|+.......-...+|++.|..||.+.
T Consensus 173 v~C~kCGE~~~e~~~~~~ng~~vC~~C~~~~ 203 (206)
T COG2191 173 VRCSKCGELFMEPRAVVLNGKPVCKPCAEKK 203 (206)
T ss_pred eeccccCcccccchhhhcCCceecccccccc
Confidence 7899999999888778999999999999764
No 32
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=52.41 E-value=2.7 Score=35.32 Aligned_cols=56 Identities=20% Similarity=0.351 Sum_probs=34.9
Q ss_pred hhhhhhccccccCCCC-CCCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccC
Q psy12252 2 RVKQYKKKLDIIMPFV-PAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDS 60 (356)
Q Consensus 2 ~~~~~~~~~~~~~~~~-~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~ 60 (356)
|+.++.++|...+.+. ....-.|+.|+..+...+.....+. ..=|.|..|+..|..
T Consensus 79 r~~~~~~~L~~~l~~e~~~~~Y~Cp~C~~~y~~~ea~~~~d~---~~~f~Cp~Cg~~l~~ 135 (147)
T smart00531 79 KLDKMRKRLEDKLEDETNNAYYKCPNCQSKYTFLEANQLLDM---DGTFTCPRCGEELEE 135 (147)
T ss_pred HHHHHHHHHHHHHhcccCCcEEECcCCCCEeeHHHHHHhcCC---CCcEECCCCCCEEEE
Confidence 3455555555554432 2345689999988876554333231 344999999999853
No 33
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=50.48 E-value=14 Score=25.93 Aligned_cols=27 Identities=26% Similarity=0.651 Sum_probs=17.7
Q ss_pred CCCCCCCceEecceeeccCCCcccccccccccCcCc
Q psy12252 171 KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKT 206 (356)
Q Consensus 171 ~~C~~C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~ 206 (356)
..|.+|+.+|.+.+. ..-|.|-.|+..
T Consensus 8 ~~CtSCg~~i~~~~~---------~~~F~CPnCG~~ 34 (59)
T PRK14890 8 PKCTSCGIEIAPREK---------AVKFLCPNCGEV 34 (59)
T ss_pred ccccCCCCcccCCCc---------cCEeeCCCCCCe
Confidence 478888888876541 123677777665
No 34
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=49.87 E-value=8.7 Score=29.80 Aligned_cols=29 Identities=17% Similarity=0.418 Sum_probs=20.9
Q ss_pred CCCCCCCceeecceEEE-eCCcccccCccc
Q psy12252 280 DGCPRCGFVVYAAEQMI-SKNRIWHRRCFS 308 (356)
Q Consensus 280 ~~C~~C~~~I~~~e~v~-~~g~~~H~~CF~ 308 (356)
..|+.|+++|.....+. ..|..+|..|+.
T Consensus 79 ~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 79 TKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 48999999997544333 456778888863
No 35
>PF14471 DUF4428: Domain of unknown function (DUF4428)
Probab=48.86 E-value=6.1 Score=26.87 Aligned_cols=29 Identities=21% Similarity=0.596 Sum_probs=22.7
Q ss_pred ccccccccccCCC-ccccCCcccCccccccc
Q psy12252 50 KCSMCSKFLDSTN-CTEHEKELYCRQCHGRK 79 (356)
Q Consensus 50 ~C~~C~~~L~~~~-~~~~~g~~yC~~cy~~~ 79 (356)
.|+.|+..++-.. +-..|| ..|.+|+.+.
T Consensus 1 ~C~iCg~kigl~~~~k~~DG-~iC~~C~~Kl 30 (51)
T PF14471_consen 1 KCAICGKKIGLFKRFKIKDG-YICKDCLKKL 30 (51)
T ss_pred CCCccccccccccceeccCc-cchHHHHHHh
Confidence 4889999887653 667777 6899999875
No 36
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=48.78 E-value=11 Score=21.43 Aligned_cols=11 Identities=27% Similarity=1.044 Sum_probs=5.7
Q ss_pred CCCCCCccccc
Q psy12252 24 CPACGKSVYAA 34 (356)
Q Consensus 24 C~~C~~~I~~~ 34 (356)
|.+|+..|.+.
T Consensus 1 C~sC~~~i~~r 11 (24)
T PF07754_consen 1 CTSCGRPIAPR 11 (24)
T ss_pred CccCCCcccCc
Confidence 45555555543
No 37
>PF00645 zf-PARP: Poly(ADP-ribose) polymerase and DNA-Ligase Zn-finger region; InterPro: IPR001510 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 PARP (Poly(ADP) polymerase) type zinc finger domains. NAD(+) ADP-ribosyltransferase(2.4.2.30 from EC) [, ] is a eukaryotic enzyme that catalyses the covalent attachment of ADP-ribose units from NAD(+) to various nuclear acceptor proteins. This post-translational modification of nuclear proteins is dependent on DNA. It appears to be involved in the regulation of various important cellular processes such as differentiation, proliferation and tumour transformation as well as in the regulation of the molecular events involved in the recovery of the cell from DNA damage. Structurally, NAD(+) ADP-ribosyltransferase consists of three distinct domains: an N-terminal zinc-dependent DNA-binding domain, a central automodification domain and a C-terminal NAD-binding domain. The DNA-binding region contains a pair of PARP-type zinc finger domains which have been shown to bind DNA in a zinc-dependent manner. The PARP-type zinc finger domains seem to bind specifically to single-stranded DNA and to act as a DNA nick sensor. DNA ligase III [] contains, in its N-terminal section, a single copy of a zinc finger highly similar to those of PARP. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding; PDB: 1UW0_A 3OD8_D 3ODA_A 4AV1_A 2DMJ_A 4DQY_D 2L30_A 2CS2_A 2L31_A 3ODE_B ....
Probab=48.74 E-value=5.8 Score=29.53 Aligned_cols=20 Identities=25% Similarity=0.509 Sum_probs=14.3
Q ss_pred CCCCCCCCCCCCCccccceE
Q psy12252 17 VPAENPKCPACGKSVYAAEE 36 (356)
Q Consensus 17 ~~~~~~~C~~C~~~I~~~~~ 36 (356)
.++....|..|++.|.-++.
T Consensus 3 Aks~Ra~Ck~C~~~I~kg~l 22 (82)
T PF00645_consen 3 AKSGRAKCKGCKKKIAKGEL 22 (82)
T ss_dssp -SSSTEBETTTSCBE-TTSE
T ss_pred CCCCCccCcccCCcCCCCCE
Confidence 34566789999999987663
No 38
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=47.02 E-value=9.7 Score=31.25 Aligned_cols=24 Identities=29% Similarity=0.751 Sum_probs=19.3
Q ss_pred ccccccccccCCCccccCCcccCcccccc
Q psy12252 50 KCSMCSKFLDSTNCTEHEKELYCRQCHGR 78 (356)
Q Consensus 50 ~C~~C~~~L~~~~~~~~~g~~yC~~cy~~ 78 (356)
.|..||.|| |.++|.+||.-|-.+
T Consensus 30 hCp~Cg~PL-----F~KdG~v~CPvC~~~ 53 (131)
T COG1645 30 HCPKCGTPL-----FRKDGEVFCPVCGYR 53 (131)
T ss_pred hCcccCCcc-----eeeCCeEECCCCCce
Confidence 378899987 449999999999743
No 39
>PF12773 DZR: Double zinc ribbon
Probab=45.26 E-value=24 Score=23.37 Aligned_cols=9 Identities=33% Similarity=0.818 Sum_probs=4.1
Q ss_pred ccccccccc
Q psy12252 51 CSMCSKFLD 59 (356)
Q Consensus 51 C~~C~~~L~ 59 (356)
|..|+.+|.
T Consensus 15 C~~CG~~l~ 23 (50)
T PF12773_consen 15 CPHCGTPLP 23 (50)
T ss_pred ChhhcCChh
Confidence 344444444
No 40
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=42.69 E-value=23 Score=25.33 Aligned_cols=41 Identities=20% Similarity=0.494 Sum_probs=19.0
Q ss_pred cccccccccccCCCccccCCcccCccccccccCCCCCccCC
Q psy12252 49 FKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGG 89 (356)
Q Consensus 49 F~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~~c~~ 89 (356)
++|+.|...|...-....=+..||..|-.+.++..|..|..
T Consensus 8 LrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~ 48 (65)
T PF14835_consen 8 LRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGSECPVCHT 48 (65)
T ss_dssp TS-SSS-S--SS-B---SSS--B-TTTGGGGTTTB-SSS--
T ss_pred cCCcHHHHHhcCCceeccCccHHHHHHhHHhcCCCCCCcCC
Confidence 57888887776543334446788888888777766665544
No 41
>PF02069 Metallothio_Pro: Prokaryotic metallothionein; InterPro: IPR000518 Metallothioneins (MT) are small proteins that bind heavy metals, such as zinc, copper, cadmium and nickel. They have a high content of cysteine residues that bind the metal ions through clusters of thiolate bonds [, , ]. An empirical classification into three classes was proposed by Kojima [], with class III MTs including atypical polypeptides composed of gamma-glutamylcysteinyl units. Class I and class II MTs (the proteinaceous sequences) have now been grouped into families of phylogenetically-related and thus alignable sequences. The MT superfamily is subdivided into families, subfamilies, subgroups, and isolated isoforms and alleles. The metallothionein superfamily comprises all polypeptides that resemble equine renal metallothionein in several respects [], e.g., low molecular weight; high metal content; amino acid composition with high Cys and low aromatic residue content; unique sequence with characteristic distribution of cysteines, and spectroscopic manifestations indicative of metal thiolate clusters. A MT family subsumes MTs that share particular sequence-specific features and are thought to be evolutionarily related. Fifteen MT families have been characterised, each family being identified by its number and its taxonomic range. Family 14 consists of prokaryota MTs. Its members are recognised by the sequence pattern K-C-A-C-x(2)-C-L-C.The taxonomic range of the members extends to cyanobacteria. Known characteristics are: 53 to 56 AAs; 9 conserved Cys; one conserved tyrosine residue; one conserved histidine residue; contain other unusual residues. ; GO: 0046872 metal ion binding; PDB: 1JJD_A.
Probab=40.73 E-value=14 Score=25.24 Aligned_cols=29 Identities=21% Similarity=0.672 Sum_probs=16.6
Q ss_pred ccccccccccCCCccccCCcccCc-ccccc
Q psy12252 50 KCSMCSKFLDSTNCTEHEKELYCR-QCHGR 78 (356)
Q Consensus 50 ~C~~C~~~L~~~~~~~~~g~~yC~-~cy~~ 78 (356)
-|..|...++...-+.+||+.||. .|...
T Consensus 9 aC~~C~C~V~~~~Ai~~dGk~YCS~aCA~g 38 (52)
T PF02069_consen 9 ACPSCSCVVSEEEAIQKDGKYYCSEACANG 38 (52)
T ss_dssp SSTT----B-TTTSEESSS-EESSHHHHHT
T ss_pred cCCCCEeEECchHhHHhCCEeeecHHHhcc
Confidence 367788888766678999999995 55543
No 42
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=39.33 E-value=11 Score=29.03 Aligned_cols=35 Identities=20% Similarity=0.345 Sum_probs=21.8
Q ss_pred CCCCCCCCCCCccccceEEE-eCCceeccCCccccc
Q psy12252 19 AENPKCPACGKSVYAAEERV-AGGYKFHKMCFKCSM 53 (356)
Q Consensus 19 ~~~~~C~~C~~~I~~~~~i~-~~~~~~H~~CF~C~~ 53 (356)
.....|..|+++|..++... .....-|.+||.=+.
T Consensus 4 lkewkC~VCg~~iieGqkFTF~~kGsVH~eCl~~s~ 39 (103)
T COG4847 4 LKEWKCYVCGGTIIEGQKFTFTKKGSVHYECLAESK 39 (103)
T ss_pred cceeeEeeeCCEeeeccEEEEeeCCcchHHHHHHHH
Confidence 34567777777777666554 344567777765443
No 43
>COG2191 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]
Probab=38.97 E-value=16 Score=32.33 Aligned_cols=31 Identities=16% Similarity=0.394 Sum_probs=22.2
Q ss_pred ccccccCCCCCCCCCccCCCCccccccccccc
Q psy12252 307 FSCADCHRSLDSTNLNDGPDNDIYCRGCYGKN 338 (356)
Q Consensus 307 F~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~ 338 (356)
-+|+.|+..+-...-. ..+|++.|..||.+.
T Consensus 173 v~C~kCGE~~~e~~~~-~~ng~~vC~~C~~~~ 203 (206)
T COG2191 173 VRCSKCGELFMEPRAV-VLNGKPVCKPCAEKK 203 (206)
T ss_pred eeccccCcccccchhh-hcCCceecccccccc
Confidence 4677777766555544 478999999998854
No 44
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=38.00 E-value=16 Score=22.66 Aligned_cols=26 Identities=23% Similarity=0.535 Sum_probs=12.1
Q ss_pred CCCCCCccccceEEEeCCceeccCCc
Q psy12252 24 CPACGKSVYAAEERVAGGYKFHKMCF 49 (356)
Q Consensus 24 C~~C~~~I~~~~~i~~~~~~~H~~CF 49 (356)
|+.|.+.+.....+..-+..||..|+
T Consensus 2 C~iC~~~~~~~~~~~~C~H~~c~~C~ 27 (45)
T cd00162 2 CPICLEEFREPVVLLPCGHVFCRSCI 27 (45)
T ss_pred CCcCchhhhCceEecCCCChhcHHHH
Confidence 56666665221122224555555554
No 45
>PF12677 DUF3797: Domain of unknown function (DUF3797); InterPro: IPR024256 This presumed domain is functionally uncharacterised. This domain family is found in bacteria and viruses, and is approximately 50 amino acids in length. There is a conserved CGN sequence motif.
Probab=37.22 E-value=25 Score=23.52 Aligned_cols=28 Identities=25% Similarity=0.610 Sum_probs=22.5
Q ss_pred CCCCCCCCCccccce--EEEeCCceeccCC
Q psy12252 21 NPKCPACGKSVYAAE--ERVAGGYKFHKMC 48 (356)
Q Consensus 21 ~~~C~~C~~~I~~~~--~i~~~~~~~H~~C 48 (356)
-..|+.|+....++. .+.+.+.+|++.|
T Consensus 13 Y~~Cp~CGN~~vGngEG~liV~edtfkRtC 42 (49)
T PF12677_consen 13 YCKCPKCGNDKVGNGEGTLIVEEDTFKRTC 42 (49)
T ss_pred hccCcccCCcEeecCcceEEEeccceeeee
Confidence 357999999887654 5678899999988
No 46
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=37.21 E-value=24 Score=26.99 Aligned_cols=11 Identities=27% Similarity=0.652 Sum_probs=9.3
Q ss_pred CCCCCCceeec
Q psy12252 281 GCPRCGFVVYA 291 (356)
Q Consensus 281 ~C~~C~~~I~~ 291 (356)
+|+.|++.|.+
T Consensus 71 iCamCGKki~d 81 (90)
T PF10235_consen 71 ICAMCGKKILD 81 (90)
T ss_pred cccccCCeecc
Confidence 79999999864
No 47
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=32.94 E-value=9.9 Score=32.36 Aligned_cols=33 Identities=24% Similarity=0.389 Sum_probs=24.4
Q ss_pred CCCCCCCCCCCccccceEEEeCCceeccCCccccccccccc
Q psy12252 19 AENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLD 59 (356)
Q Consensus 19 ~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~ 59 (356)
..--.|+.|+......+.+. .=|+|..||.+|.
T Consensus 107 ~~~Y~Cp~c~~r~tf~eA~~--------~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 107 NMFFICPNMCVRFTFNEAME--------LNFTCPRCGAMLD 139 (158)
T ss_pred CCeEECCCCCcEeeHHHHHH--------cCCcCCCCCCEee
Confidence 34567999998877655443 1399999999985
No 48
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=31.39 E-value=19 Score=27.68 Aligned_cols=31 Identities=19% Similarity=0.419 Sum_probs=23.9
Q ss_pred CCCCCCceeecceEEEe-CCcccccCcccccc
Q psy12252 281 GCPRCGFVVYAAEQMIS-KNRIWHRRCFSCAD 311 (356)
Q Consensus 281 ~C~~C~~~I~~~e~v~~-~g~~~H~~CF~C~~ 311 (356)
.|..|+++|..|+..+. ..-.-|-+||.=+.
T Consensus 8 kC~VCg~~iieGqkFTF~~kGsVH~eCl~~s~ 39 (103)
T COG4847 8 KCYVCGGTIIEGQKFTFTKKGSVHYECLAESK 39 (103)
T ss_pred eEeeeCCEeeeccEEEEeeCCcchHHHHHHHH
Confidence 69999999999998763 33357999987544
No 49
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=30.82 E-value=14 Score=32.18 Aligned_cols=50 Identities=22% Similarity=0.307 Sum_probs=32.1
Q ss_pred hhhhhccccccCCCCC-CCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccC
Q psy12252 3 VKQYKKKLDIIMPFVP-AENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDS 60 (356)
Q Consensus 3 ~~~~~~~~~~~~~~~~-~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~ 60 (356)
+.++.++|...+.+.. ...-.|+.|+......+.+. .=|.|..||..|..
T Consensus 98 ~~~~~~klk~~l~~e~~~~~Y~Cp~C~~rytf~eA~~--------~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 98 KMEELKKLKEQLEEEENNMFFFCPNCHIRFTFDEAME--------YGFRCPQCGEMLEE 148 (178)
T ss_pred HHHHHHHHHHHhhhccCCCEEECCCCCcEEeHHHHhh--------cCCcCCCCCCCCee
Confidence 3444455555544332 34567999998877655332 13999999999964
No 50
>KOG2593|consensus
Probab=30.70 E-value=12 Score=36.68 Aligned_cols=58 Identities=21% Similarity=0.283 Sum_probs=38.6
Q ss_pred hhhhhhccccccCC-CCCCCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCC
Q psy12252 2 RVKQYKKKLDIIMP-FVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDST 61 (356)
Q Consensus 2 ~~~~~~~~~~~~~~-~~~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~ 61 (356)
||++|.++|+..+. -.....-.|+.|++.-..-+.+..++ .-..=|.|..|+..|...
T Consensus 108 Klh~m~krled~~~d~t~~~~Y~Cp~C~kkyt~Lea~~L~~--~~~~~F~C~~C~gelveD 166 (436)
T KOG2593|consen 108 KLHQMRKRLEDRLRDDTNVAGYVCPNCQKKYTSLEALQLLD--NETGEFHCENCGGELVED 166 (436)
T ss_pred HHHHHHHHHHHHhhhccccccccCCccccchhhhHHHHhhc--ccCceEEEecCCCchhcc
Confidence 68899999988755 23446789999999976554322111 001227899999998644
No 51
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=30.33 E-value=29 Score=22.35 Aligned_cols=30 Identities=13% Similarity=0.486 Sum_probs=18.1
Q ss_pred ccccccccc-CCCccccC-CcccCcccccccc
Q psy12252 51 CSMCSKFLD-STNCTEHE-KELYCRQCHGRKY 80 (356)
Q Consensus 51 C~~C~~~L~-~~~~~~~~-g~~yC~~cy~~~~ 80 (356)
|..|.+.+. ...++... |..+|..|..+..
T Consensus 2 C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~ 33 (44)
T PF14634_consen 2 CNICFEKYSEERRPRLTSCGHIFCEKCLKKLK 33 (44)
T ss_pred CcCcCccccCCCCeEEcccCCHHHHHHHHhhc
Confidence 566666662 22333333 7888888877665
No 52
>PF12674 Zn_ribbon_2: Putative zinc ribbon domain
Probab=30.02 E-value=26 Score=26.30 Aligned_cols=29 Identities=28% Similarity=0.761 Sum_probs=17.6
Q ss_pred ccccCCCCCCCC-CccCCCC---cccccccccc
Q psy12252 309 CADCHRSLDSTN-LNDGPDN---DIYCRGCYGK 337 (356)
Q Consensus 309 C~~C~~~L~~~~-~~~~~~g---~~yC~~c~~~ 337 (356)
|..|+.||.... +..+.|| .-||.-||+.
T Consensus 3 CQSCGMPl~~~~~~Gte~dGs~s~~YC~yCy~~ 35 (81)
T PF12674_consen 3 CQSCGMPLSKDEDFGTEADGSKSEDYCSYCYQN 35 (81)
T ss_pred CCcCcCccCCccccccccCCCCchhHHHHHhcC
Confidence 566777776555 2222333 5688888875
No 53
>PF04570 DUF581: Protein of unknown function (DUF581); InterPro: IPR007650 This is a family of uncharacterised proteins.
Probab=29.97 E-value=26 Score=24.55 Aligned_cols=26 Identities=27% Similarity=0.666 Sum_probs=19.6
Q ss_pred ccccccccccCC--CccccCCcccCc-cc
Q psy12252 50 KCSMCSKFLDST--NCTEHEKELYCR-QC 75 (356)
Q Consensus 50 ~C~~C~~~L~~~--~~~~~~g~~yC~-~c 75 (356)
.|..|++.|..+ .|..+.++.+|. +|
T Consensus 18 ~C~~C~k~L~~~~DiymYrGd~aFCS~EC 46 (58)
T PF04570_consen 18 FCYLCKKKLDPGKDIYMYRGDKAFCSEEC 46 (58)
T ss_pred HHHccCCCCCCCCCeeeeccccccccHHH
Confidence 377889999743 677888899995 44
No 54
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=29.52 E-value=13 Score=23.90 Aligned_cols=27 Identities=33% Similarity=0.736 Sum_probs=16.7
Q ss_pred CCCCCCCccccceEEE--eCCceeccCCc
Q psy12252 23 KCPACGKSVYAAEERV--AGGYKFHKMCF 49 (356)
Q Consensus 23 ~C~~C~~~I~~~~~i~--~~~~~~H~~CF 49 (356)
.|+.|.+.+..++.++ .-+..||.+|+
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci 30 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCI 30 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHH
Confidence 4778888876544333 24666777664
No 55
>PF10886 DUF2685: Protein of unknown function (DUF2685); InterPro: IPR024362 This is a family of uncharacterised bacteriophage proteins. Their function in unknown.
Probab=29.32 E-value=35 Score=23.45 Aligned_cols=24 Identities=17% Similarity=0.209 Sum_probs=12.4
Q ss_pred CCCCCCCccccceEEEeCCceecc
Q psy12252 23 KCPACGKSVYAAEERVAGGYKFHK 46 (356)
Q Consensus 23 ~C~~C~~~I~~~~~i~~~~~~~H~ 46 (356)
+|..|+.||.....+...+..-|+
T Consensus 3 ~CvVCKqpi~~a~~v~T~~G~VH~ 26 (54)
T PF10886_consen 3 ICVVCKQPIDDALVVETESGPVHP 26 (54)
T ss_pred eeeeeCCccCcceEEEcCCCccCc
Confidence 466666666554444444444444
No 56
>PF13834 DUF4193: Domain of unknown function (DUF4193)
Probab=29.24 E-value=20 Score=27.85 Aligned_cols=31 Identities=26% Similarity=0.617 Sum_probs=20.7
Q ss_pred CcccccccCCCCCCCCCccCCCCcccccccc
Q psy12252 305 RCFSCADCHRSLDSTNLNDGPDNDIYCRGCY 335 (356)
Q Consensus 305 ~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~ 335 (356)
.=|+|+.|=-.-.........+|++||..|.
T Consensus 69 DEFTCssCFLV~HRSqLa~~~~g~~iC~DCa 99 (99)
T PF13834_consen 69 DEFTCSSCFLVHHRSQLAREKDGQPICRDCA 99 (99)
T ss_pred CceeeeeeeeEechhhhccccCCCEeccccC
Confidence 3478888865544444433578999999883
No 57
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=28.04 E-value=6.4 Score=30.31 Aligned_cols=59 Identities=15% Similarity=0.276 Sum_probs=40.1
Q ss_pred CCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCCcc
Q psy12252 281 GCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGC 344 (356)
Q Consensus 281 ~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~ 344 (356)
.|..|...+..--.+...-..+++.+-.|.+|.+.|+-..+. +... |..| +..|.++|-
T Consensus 37 aCy~CHdel~~Hpf~p~~~~~~~~~~iiCGvC~~~LT~~EY~-~~~~---Cp~C-~spFNp~Ck 95 (105)
T COG4357 37 ACYHCHDELEDHPFEPWGLQEFNPKAIICGVCRKLLTRAEYG-MCGS---CPYC-QSPFNPGCK 95 (105)
T ss_pred hHHHHHhHHhcCCCccCChhhcCCccEEhhhhhhhhhHHHHh-hcCC---CCCc-CCCCCcccc
Confidence 588888776543334455577899999999999999877665 2444 4444 335777663
No 59
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=27.79 E-value=42 Score=23.54 Aligned_cols=29 Identities=31% Similarity=0.836 Sum_probs=20.2
Q ss_pred CCCCCCCCCccccceEEEeCCceeccCCcccccccccc
Q psy12252 21 NPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFL 58 (356)
Q Consensus 21 ~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L 58 (356)
.+.|.+|+..|..++..+. |.|-.|+..+
T Consensus 9 ~~~CtSCg~~i~p~e~~v~---------F~CPnCGe~~ 37 (61)
T COG2888 9 PPVCTSCGREIAPGETAVK---------FPCPNCGEVE 37 (61)
T ss_pred CceeccCCCEeccCCceeE---------eeCCCCCcee
Confidence 4789999999865553332 7788888544
No 60
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=26.51 E-value=14 Score=32.10 Aligned_cols=47 Identities=23% Similarity=0.429 Sum_probs=33.0
Q ss_pred hhhhhccccccCCCCCCCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccC
Q psy12252 3 VKQYKKKLDIIMPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDS 60 (356)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~ 60 (356)
|++|+.+++...+ ...-.|+.|.-....++.. +-+ |+|..||..|..
T Consensus 98 le~Lk~~le~~~~---~~~y~C~~~~~r~sfdeA~-------~~~-F~Cp~Cg~~L~~ 144 (176)
T COG1675 98 LEKLKRKLEKETE---NNYYVCPNCHVKYSFDEAM-------ELG-FTCPKCGEDLEE 144 (176)
T ss_pred HHHHHHHHHhhcc---CCceeCCCCCCcccHHHHH-------HhC-CCCCCCCchhhh
Confidence 5677777777655 4567898888877654422 222 999999999853
No 61
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=25.12 E-value=46 Score=24.21 Aligned_cols=9 Identities=44% Similarity=1.077 Sum_probs=2.9
Q ss_pred CCCCCCcee
Q psy12252 281 GCPRCGFVV 289 (356)
Q Consensus 281 ~C~~C~~~I 289 (356)
.|+-|++++
T Consensus 32 ~CPdC~~~L 40 (70)
T PF07191_consen 32 FCPDCGQPL 40 (70)
T ss_dssp E-TTT-SB-
T ss_pred cCCCcccHH
Confidence 355555544
No 62
>cd02249 ZZ Zinc finger, ZZ type. Zinc finger present in dystrophin, CBP/p300 and many other proteins. The ZZ motif coordinates one or two zinc ions and most likely participates in ligand binding or molecular scaffolding. Many proteins containing ZZ motifs have other zinc-binding motifs as well, and the majority serve as scaffolds in pathways involving acetyltransferase, protein kinase, or ubiqitin-related activity. ZZ proteins can be grouped into the following functional classes: chromatin modifying, cytoskeletal scaffolding, ubiquitin binding or conjugating, and membrane receptor or ion-channel modifying proteins.
Probab=25.10 E-value=34 Score=22.35 Aligned_cols=11 Identities=18% Similarity=0.504 Sum_probs=6.8
Q ss_pred CcccCcccccc
Q psy12252 68 KELYCRQCHGR 78 (356)
Q Consensus 68 g~~yC~~cy~~ 78 (356)
+--+|.+||..
T Consensus 22 d~dLC~~Cf~~ 32 (46)
T cd02249 22 DFDLCSSCYAK 32 (46)
T ss_pred CCcCHHHHHCc
Confidence 34467777764
No 63
>PHA02929 N1R/p28-like protein; Provisional
Probab=25.08 E-value=34 Score=31.19 Aligned_cols=40 Identities=23% Similarity=0.502 Sum_probs=27.1
Q ss_pred CCCCCCCCCCccccce-------EEEeCCceeccCCc--------cccccccccc
Q psy12252 20 ENPKCPACGKSVYAAE-------ERVAGGYKFHKMCF--------KCSMCSKFLD 59 (356)
Q Consensus 20 ~~~~C~~C~~~I~~~~-------~i~~~~~~~H~~CF--------~C~~C~~~L~ 59 (356)
....|+.|.+.+...+ .+..-+..||..|+ +|-.|+.++.
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 4578999999887543 12235777888887 5777766654
No 64
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=24.04 E-value=47 Score=20.54 Aligned_cols=26 Identities=23% Similarity=0.488 Sum_probs=8.3
Q ss_pred ccccccccccCCCccccCCcccCccc
Q psy12252 50 KCSMCSKFLDSTNCTEHEKELYCRQC 75 (356)
Q Consensus 50 ~C~~C~~~L~~~~~~~~~g~~yC~~c 75 (356)
.|..|++++.++-+...=+...|..|
T Consensus 5 ~C~eC~~~f~dSyL~~~F~~~VCD~C 30 (34)
T PF01286_consen 5 KCDECGKPFMDSYLLNNFDLPVCDKC 30 (34)
T ss_dssp E-TTT--EES-SSCCCCTS-S--TTT
T ss_pred hHhHhCCHHHHHHHHHhCCccccccc
Confidence 34555555554433333344444443
No 65
>PRK00420 hypothetical protein; Validated
Probab=24.00 E-value=44 Score=26.72 Aligned_cols=26 Identities=19% Similarity=0.299 Sum_probs=16.3
Q ss_pred cccccccccccCCCccccCCcccCcccccc
Q psy12252 49 FKCSMCSKFLDSTNCTEHEKELYCRQCHGR 78 (356)
Q Consensus 49 F~C~~C~~~L~~~~~~~~~g~~yC~~cy~~ 78 (356)
-.|..|+.+|- -.++|+.||..|...
T Consensus 24 ~~CP~Cg~pLf----~lk~g~~~Cp~Cg~~ 49 (112)
T PRK00420 24 KHCPVCGLPLF----ELKDGEVVCPVHGKV 49 (112)
T ss_pred CCCCCCCCcce----ecCCCceECCCCCCe
Confidence 34667776652 236777888777653
No 66
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=23.78 E-value=44 Score=19.03 Aligned_cols=10 Identities=40% Similarity=0.982 Sum_probs=5.3
Q ss_pred CCCCCCceEe
Q psy12252 172 GCPRCGGVVF 181 (356)
Q Consensus 172 ~C~~C~~~I~ 181 (356)
.|..|+..|.
T Consensus 4 ~Cp~Cg~~~~ 13 (26)
T PF13248_consen 4 FCPNCGAEID 13 (26)
T ss_pred CCcccCCcCC
Confidence 4556665443
No 67
>KOG3579|consensus
Probab=23.22 E-value=69 Score=29.86 Aligned_cols=59 Identities=20% Similarity=0.428 Sum_probs=39.4
Q ss_pred CCCCCCCCCCCCCCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccc
Q psy12252 268 ARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCR 332 (356)
Q Consensus 268 ~~p~~g~~~~~~~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~ 332 (356)
..|.++......-.|.-|++.+.+...|..-.-.-|+-||-|+. ..|..+. ..|.+||.
T Consensus 257 ~~~~s~~A~~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSR--esIK~Qg----~sgevYCP 315 (352)
T KOG3579|consen 257 SLPDSGAAPSAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSR--ESIKQQG----ASGEVYCP 315 (352)
T ss_pred cCcccccCCCCceeehhhhhhhccCceeecCCCcccceecccCH--HHHHhhc----CCCceeCC
Confidence 33344443444458999999998777777666678999999986 3333321 34578885
No 68
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=23.04 E-value=8.3 Score=26.54 Aligned_cols=16 Identities=19% Similarity=0.459 Sum_probs=8.3
Q ss_pred CCCCCCCCCCCCcccc
Q psy12252 18 PAENPKCPACGKSVYA 33 (356)
Q Consensus 18 ~~~~~~C~~C~~~I~~ 33 (356)
+.....|..|+-.|..
T Consensus 19 ~v~~~~C~gC~~~l~~ 34 (56)
T PF02591_consen 19 RVEGGTCSGCHMELPP 34 (56)
T ss_pred EeeCCccCCCCEEcCH
Confidence 3444555555555543
No 69
>KOG2114|consensus
Probab=22.20 E-value=30 Score=37.00 Aligned_cols=56 Identities=20% Similarity=0.454 Sum_probs=33.8
Q ss_pred hhhhhccccccCC-CCCCCCCCCCCCCCccccceEEEeCCceeccCCcc-----cccccccc
Q psy12252 3 VKQYKKKLDIIMP-FVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFK-----CSMCSKFL 58 (356)
Q Consensus 3 ~~~~~~~~~~~~~-~~~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~-----C~~C~~~L 58 (356)
+.+++++|+.... .......+|..|.-++.-.-+-..-+..||.+||. |-.|.-.+
T Consensus 821 i~e~r~~l~~lr~sa~i~q~skCs~C~~~LdlP~VhF~CgHsyHqhC~e~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 821 IEEKRQELETLRTSAQIFQVSKCSACEGTLDLPFVHFLCGHSYHQHCLEDKEDKCPKCLPEL 882 (933)
T ss_pred HHHHHHHHHHhhcccceeeeeeecccCCccccceeeeecccHHHHHhhccCcccCCccchhh
Confidence 3444555544333 11122368999999987533333579999999987 55555433
No 70
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=21.33 E-value=26 Score=22.81 Aligned_cols=27 Identities=26% Similarity=0.528 Sum_probs=12.7
Q ss_pred CCCCCceeecceEEE--eCCcccccCccc
Q psy12252 282 CPRCGFVVYAAEQMI--SKNRIWHRRCFS 308 (356)
Q Consensus 282 C~~C~~~I~~~e~v~--~~g~~~H~~CF~ 308 (356)
|..|++.++-|+.=. .-+..||..|+.
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~ 29 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFK 29 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHH
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHH
Confidence 567888877654322 234569988875
No 71
>PF00628 PHD: PHD-finger; InterPro: IPR019787 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 the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=21.18 E-value=89 Score=20.45 Aligned_cols=26 Identities=27% Similarity=0.625 Sum_probs=14.1
Q ss_pred CCCCCCccccceEEE--eCCceeccCCc
Q psy12252 24 CPACGKSVYAAEERV--AGGYKFHKMCF 49 (356)
Q Consensus 24 C~~C~~~I~~~~~i~--~~~~~~H~~CF 49 (356)
|..|++.-..++.|. .-++.||..|.
T Consensus 2 C~vC~~~~~~~~~i~C~~C~~~~H~~C~ 29 (51)
T PF00628_consen 2 CPVCGQSDDDGDMIQCDSCNRWYHQECV 29 (51)
T ss_dssp BTTTTSSCTTSSEEEBSTTSCEEETTTS
T ss_pred CcCCCCcCCCCCeEEcCCCChhhCcccC
Confidence 566776433333443 23567777773
No 72
>smart00291 ZnF_ZZ Zinc-binding domain, present in Dystrophin, CREB-binding protein. Putative zinc-binding domain present in dystrophin-like proteins, and CREB-binding protein/p300 homologues. The ZZ in dystrophin appears to bind calmodulin. A missense mutation of one of the conserved cysteines in dystrophin results in a patient with Duchenne muscular dystrophy [3].
Probab=20.90 E-value=47 Score=21.50 Aligned_cols=10 Identities=20% Similarity=0.703 Sum_probs=6.7
Q ss_pred cccCcccccc
Q psy12252 69 ELYCRQCHGR 78 (356)
Q Consensus 69 ~~yC~~cy~~ 78 (356)
--+|.+||.+
T Consensus 27 ~dlC~~Cf~~ 36 (44)
T smart00291 27 YDLCQSCFAK 36 (44)
T ss_pred ccchHHHHhC
Confidence 3468888765
No 73
>PF14255 Cys_rich_CPXG: Cysteine-rich CPXCG
Probab=20.68 E-value=55 Score=22.33 Aligned_cols=34 Identities=24% Similarity=0.662 Sum_probs=22.8
Q ss_pred CCCCCCCccccceEEEeCCceeccCCccccccccccc
Q psy12252 23 KCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLD 59 (356)
Q Consensus 23 ~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~ 59 (356)
.|+-|+++|...--..+.++.|=.+|-.| -+|+.
T Consensus 2 ~CPyCge~~~~~iD~s~~~Q~yiEDC~vC---C~PI~ 35 (52)
T PF14255_consen 2 QCPYCGEPIEILIDPSAGDQEYIEDCQVC---CRPIE 35 (52)
T ss_pred CCCCCCCeeEEEEecCCCCeeEEeehhhc---CCccE
Confidence 58899999875323335677888888554 46664
No 74
>cd02341 ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present in ZZZ3 (ZZ finger containing 3) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=20.21 E-value=67 Score=21.45 Aligned_cols=8 Identities=25% Similarity=0.845 Sum_probs=4.0
Q ss_pred cccccccc
Q psy12252 231 KYCKACYG 238 (356)
Q Consensus 231 ~~C~~c~~ 238 (356)
.+|..||.
T Consensus 27 DlC~~C~~ 34 (48)
T cd02341 27 DLCQDCVV 34 (48)
T ss_pred ccCHHHHh
Confidence 34455554
Done!