Query psy10533
Match_columns 594
No_of_seqs 432 out of 2981
Neff 7.2
Searched_HMMs 46136
Date Fri Aug 16 20:44:03 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10533.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10533hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2272|consensus 100.0 2.6E-59 5.7E-64 446.8 -5.2 302 3-447 10-311 (332)
2 KOG2272|consensus 100.0 2E-52 4.4E-57 399.6 -3.3 276 161-550 30-310 (332)
3 KOG1701|consensus 100.0 3.7E-31 7.9E-36 271.5 1.3 181 134-339 276-467 (468)
4 KOG1701|consensus 100.0 4.3E-30 9.3E-35 263.7 -0.4 181 6-276 275-463 (468)
5 KOG1044|consensus 99.9 1.1E-27 2.4E-32 253.2 5.4 198 152-415 23-230 (670)
6 KOG1703|consensus 99.9 6.8E-27 1.5E-31 257.1 8.4 231 212-549 246-478 (479)
7 KOG1044|consensus 99.9 1.9E-26 4E-31 243.9 4.8 225 5-330 16-246 (670)
8 KOG1703|consensus 99.9 3.2E-25 6.8E-30 244.0 3.6 220 157-445 255-478 (479)
9 KOG4577|consensus 99.7 4.3E-18 9.2E-23 166.8 -2.7 129 272-453 28-158 (383)
10 KOG4577|consensus 99.5 1.2E-15 2.5E-20 149.8 -4.2 121 209-339 33-158 (383)
11 PF00412 LIM: LIM domain; Int 99.4 3E-13 6.4E-18 105.7 5.0 58 8-65 1-58 (58)
12 KOG1700|consensus 99.2 2.1E-12 4.6E-17 126.2 2.0 162 2-201 4-165 (200)
13 PF00412 LIM: LIM domain; Int 99.2 2.6E-11 5.7E-16 94.6 5.6 56 380-449 1-58 (58)
14 KOG1700|consensus 98.9 2E-10 4.4E-15 112.3 1.5 158 277-449 7-167 (200)
15 smart00132 LIM Zinc-binding do 98.3 3.7E-07 8E-12 64.7 3.1 38 7-44 1-38 (39)
16 smart00132 LIM Zinc-binding do 98.0 3.6E-06 7.9E-11 59.5 3.2 36 279-314 1-38 (39)
17 KOG1702|consensus 97.9 1.3E-06 2.8E-11 83.1 -2.6 62 5-67 4-65 (264)
18 KOG1702|consensus 95.6 0.0013 2.8E-08 63.0 -2.7 59 278-336 5-64 (264)
19 KOG0490|consensus 94.9 0.0047 1E-07 61.7 -1.4 111 215-334 2-119 (235)
20 KOG0490|consensus 94.9 0.0043 9.3E-08 61.9 -1.7 111 283-448 2-119 (235)
21 PF13240 zinc_ribbon_2: zinc-r 79.8 1 2.3E-05 28.3 1.2 22 406-427 2-23 (23)
22 PF13248 zf-ribbon_3: zinc-rib 78.1 1.2 2.6E-05 28.8 1.1 22 406-427 5-26 (26)
23 PF14446 Prok-RING_1: Prokaryo 74.7 2.2 4.8E-05 32.7 1.9 43 1-43 1-51 (54)
24 KOG2462|consensus 73.1 0.7 1.5E-05 47.0 -1.4 132 168-320 127-260 (279)
25 PF12773 DZR: Double zinc ribb 68.1 5.3 0.00012 29.7 2.8 10 379-388 14-23 (50)
26 PF12773 DZR: Double zinc ribb 67.8 2.5 5.5E-05 31.5 0.9 23 406-428 1-23 (50)
27 PF08394 Arc_trans_TRASH: Arch 67.1 2.7 5.8E-05 29.7 0.8 29 8-36 1-29 (37)
28 PRK02935 hypothetical protein; 56.7 8 0.00017 33.7 2.1 23 503-538 87-109 (110)
29 KOG2462|consensus 52.4 6.2 0.00013 40.3 0.8 29 301-329 128-156 (279)
30 PF14446 Prok-RING_1: Prokaryo 49.7 9.3 0.0002 29.4 1.2 9 439-447 30-38 (54)
31 PF14835 zf-RING_6: zf-RING of 48.5 18 0.00039 28.8 2.7 50 172-226 8-57 (65)
32 PF08394 Arc_trans_TRASH: Arch 45.6 16 0.00035 25.8 1.8 23 380-402 1-25 (37)
33 KOG0320|consensus 43.4 6.7 0.00015 37.5 -0.4 52 169-223 129-181 (187)
34 PF07754 DUF1610: Domain of un 42.2 16 0.00035 23.3 1.3 8 417-424 16-23 (24)
35 KOG0823|consensus 41.0 16 0.00035 36.4 1.8 59 170-229 46-105 (230)
36 PF09943 DUF2175: Uncharacteri 40.9 12 0.00026 32.6 0.7 27 379-405 4-32 (101)
37 PF10083 DUF2321: Uncharacteri 39.3 9.2 0.0002 35.8 -0.2 50 264-315 27-80 (158)
38 PF10367 Vps39_2: Vacuolar sor 38.8 25 0.00053 30.2 2.4 28 377-404 78-107 (109)
39 PRK14890 putative Zn-ribbon RN 38.1 23 0.00051 27.7 1.9 12 378-389 8-19 (59)
40 PF11023 DUF2614: Protein of u 36.5 18 0.00039 32.0 1.2 27 503-542 86-112 (114)
41 COG2191 Formylmethanofuran deh 36.4 17 0.00037 35.5 1.1 30 172-201 173-202 (206)
42 PF13920 zf-C3HC4_3: Zinc fing 35.4 58 0.0013 24.0 3.7 43 418-461 3-48 (50)
43 cd02249 ZZ Zinc finger, ZZ typ 35.3 26 0.00057 25.7 1.7 19 406-424 3-21 (46)
44 smart00504 Ubox Modified RING 35.2 26 0.00056 26.9 1.8 46 172-221 2-47 (63)
45 PF04216 FdhE: Protein involve 34.5 10 0.00022 39.4 -0.8 74 378-462 173-250 (290)
46 PRK03564 formate dehydrogenase 33.6 41 0.0009 35.3 3.5 74 378-462 188-264 (309)
47 COG1644 RPB10 DNA-directed RNA 33.6 13 0.00027 29.3 -0.2 15 552-566 2-16 (63)
48 PF14634 zf-RING_5: zinc-RING 32.3 44 0.00096 24.1 2.5 39 420-458 2-44 (44)
49 PRK00398 rpoP DNA-directed RNA 32.3 22 0.00049 26.0 0.9 8 452-459 23-30 (46)
50 PF10571 UPF0547: Uncharacteri 32.0 31 0.00067 22.4 1.4 22 406-427 3-24 (26)
51 PF10235 Cript: Microtubule-as 31.9 26 0.00057 29.9 1.4 36 173-221 46-81 (90)
52 PF11781 RRN7: RNA polymerase 31.8 22 0.00048 24.9 0.8 22 35-60 10-31 (36)
53 PF01258 zf-dskA_traR: Prokary 31.4 13 0.00029 25.7 -0.4 28 420-447 6-33 (36)
54 PRK14559 putative protein seri 30.5 47 0.001 38.6 3.6 37 379-429 17-53 (645)
55 COG2888 Predicted Zn-ribbon RN 29.5 35 0.00075 26.8 1.5 10 378-387 10-19 (61)
56 smart00504 Ubox Modified RING 29.2 88 0.0019 23.9 3.9 43 418-461 2-46 (63)
57 PF07191 zinc-ribbons_6: zinc- 29.0 35 0.00076 27.7 1.6 13 210-222 51-63 (70)
58 PRK14559 putative protein seri 27.9 50 0.0011 38.3 3.3 8 452-459 43-50 (645)
59 PRK04016 DNA-directed RNA poly 27.1 20 0.00044 28.3 -0.1 15 552-566 2-16 (62)
60 PF06677 Auto_anti-p27: Sjogre 26.7 40 0.00087 24.4 1.4 21 174-198 20-40 (41)
61 COG1645 Uncharacterized Zn-fin 26.6 30 0.00065 31.6 0.9 21 35-60 30-50 (131)
62 COG2191 Formylmethanofuran deh 26.5 23 0.00051 34.7 0.2 31 418-448 173-203 (206)
63 PF09943 DUF2175: Uncharacteri 26.4 22 0.00048 30.9 0.0 30 6-35 3-32 (101)
64 PLN00032 DNA-directed RNA poly 26.2 21 0.00046 28.9 -0.1 15 552-566 2-16 (71)
65 COG1645 Uncharacterized Zn-fin 26.0 33 0.00071 31.3 1.1 21 419-444 30-50 (131)
66 cd02341 ZZ_ZZZ3 Zinc finger, Z 24.7 60 0.0013 24.3 2.1 33 405-447 2-35 (48)
67 cd00162 RING RING-finger (Real 24.5 67 0.0015 22.0 2.3 40 420-459 2-44 (45)
68 PF10083 DUF2321: Uncharacteri 24.4 31 0.00067 32.4 0.6 48 192-246 28-79 (158)
69 PF14471 DUF4428: Domain of un 23.9 64 0.0014 24.4 2.1 29 35-64 1-30 (51)
70 PF11571 Med27: Mediator compl 22.6 34 0.00074 29.1 0.5 16 549-564 49-64 (90)
71 PF01194 RNA_pol_N: RNA polyme 22.5 35 0.00076 26.9 0.5 15 552-566 2-16 (60)
72 TIGR01562 FdhE formate dehydro 22.3 63 0.0014 34.0 2.4 75 379-462 186-264 (305)
73 smart00291 ZnF_ZZ Zinc-binding 22.3 75 0.0016 23.0 2.2 29 35-63 6-36 (44)
74 COG4847 Uncharacterized protei 21.3 43 0.00093 28.7 0.8 33 372-404 1-35 (103)
75 PF13923 zf-C3HC4_2: Zinc fing 20.9 1E+02 0.0022 21.4 2.6 31 420-450 1-31 (39)
No 1
>KOG2272|consensus
Probab=100.00 E-value=2.6e-59 Score=446.80 Aligned_cols=302 Identities=75% Similarity=1.501 Sum_probs=286.7
Q ss_pred CCCCcccCCCcccccCceeeecCCcccccCCcCCCCCCCCCCCCCeEEeCCccCChhHHHhhccCCcCCCCCCCcccccc
Q psy10533 3 LGNMYCSRCNEGFEPEEKIVNSNGELWHQQCFVCAQCFRPFPGGIFYEFEGRKYCEHDFHVLFAPCCGNGCPSLSTFAIS 82 (594)
Q Consensus 3 ~~~~~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~~y~~~~~p~c~~~c~~~~~~~~~ 82 (594)
++++.|.+|...+.++|++|+.+|..||.+||.|++|-+||.++.||+.+|+.|||.||..||+|-|++
T Consensus 10 ~~~~~C~RC~~gF~~~e~~vns~ge~wH~~CFvCAQCf~pf~~g~~~efEgRkYCEhDF~~LfaPcC~k----------- 78 (332)
T KOG2272|consen 10 LANMVCERCRDGFEPAEKIVNSNGELWHEQCFVCAQCFRPFPDGIFYEFEGRKYCEHDFHVLFAPCCGK----------- 78 (332)
T ss_pred HHHHHHHHHhccCCchhhhhccCchhhHHHHHHHHHhcCcCCCceeEEecCcccccccchhhhchhhcc-----------
Confidence 667899999999999999999999999999999999999999999999999999999999999976554
Q ss_pred cccccCCCCCCcccccccCCCcccccccccccccCCcccccCCCccccCCCCCCcCCCCCCCCceeeeccceEEeeEEEc
Q psy10533 83 LAGEISGWYPPCLKITMSLGNMYCFPLQRRFRARGEDRQTLTGGAWHQQCFVCAQCFRPFPGGIFYEFEGEFVIGRVIKA 162 (594)
Q Consensus 83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~i~g~~v~a 162 (594)
| +++|+|++|.+
T Consensus 79 -------------------------------------------------------C-------------~EFiiGrVika 90 (332)
T KOG2272|consen 79 -------------------------------------------------------C-------------GEFIIGRVIKA 90 (332)
T ss_pred -------------------------------------------------------c-------------ccchhhHHHHh
Confidence 7 77889999999
Q ss_pred CCcccCCCccccCCCCccccccccEecCCceeeccccccccccccCccccccccccccCcceeecCccccccCcccCCCC
Q psy10533 163 MNANWHPKCFRCEHCSKELADLGFIRSQGRALCHECNAQAKAVGFGKHMCHKCHGLIDDKPLKFRGEVYHPYHFNCTSCG 242 (594)
Q Consensus 163 ~~~~~H~~CF~C~~C~~~L~~~~f~~~dg~~~C~~C~~~~~~~~~~~~~C~~C~~~I~~~~i~~~~~~~H~~CF~C~~C~ 242 (594)
|+.+||+.||+|..|.+.|.+..|+...|+.+|..|.++..+.+.+...|.+|+..|+++.|++.+..|||.+|+|..|+
T Consensus 91 mnnSwHp~CF~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~~~l~fr~d~yH~yHFkCt~C~ 170 (332)
T KOG2272|consen 91 MNNSWHPACFRCDLCNKHLADQGFYRNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDEQPLTFRGDPYHPYHFKCTTCG 170 (332)
T ss_pred hccccCcccchhHHHHHHHhhhhhHhhcchHHhhhhhhhhcccccceeehhhhhhhcccccccccCCCCCccceeccccc
Confidence 99999999999999999999999999999999999999988888889999999999999999999999999999999999
Q ss_pred CCCCCCcccccCCCCcccccccccccccccCCCCCCCCCCCCCCcceeEEEEcCccccccCcCCccccCCCCCCcccccC
Q psy10533 243 TELNSDAREVKSRPGYTANDMNELYCLRCHDKMGIPICGACRRPIEERVVTALGKHWHVEHFVCARCEKPFLGHRHYEKK 322 (594)
Q Consensus 243 ~~L~~~~~~~~~~~gy~~~~~g~~yC~~c~~~~~~~~C~~C~~~I~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~ 322 (594)
+.|.++...++ +.+||.+|+++++.|+|..|.+||++++|.++|+.||.++|+|+.|.+|+.+.+.|++.
T Consensus 171 keL~sdaRevk----------~eLyClrChD~mgipiCgaC~rpIeervi~amgKhWHveHFvCa~CekPFlGHrHYEkk 240 (332)
T KOG2272|consen 171 KELTSDAREVK----------GELYCLRCHDKMGIPICGACRRPIEERVIFAMGKHWHVEHFVCAKCEKPFLGHRHYEKK 240 (332)
T ss_pred ccccchhhhhc----------cceeccccccccCCcccccccCchHHHHHHHhccccchhheeehhcCCcccchhhhhhc
Confidence 99999988887 89999999999999999999999999999999999999999999999999999999999
Q ss_pred CeecchhhhhhhhcCCCccccccccCCCCccccccceeccCCCCcCcccccccccccccccCccccCceEEecCceeecc
Q psy10533 323 GLAYCETHYHQLFGNLCFVCNQVIGGDESHYITSRELTYKKGLGYCESHYHQLFGNLCFVCNQVIGGDLFTALNKAWCVH 402 (594)
Q Consensus 323 g~~yC~~cy~~~f~~~C~~C~~~i~~~~~~~i~~~~~~~~~g~~~C~~~~~~~~~~~C~~C~~~I~g~~i~a~~k~~H~~ 402 (594)
|.+||+.+|.++|+..| ..|+.+|.|++++|+++.|.++
T Consensus 241 GlaYCe~h~~qLfG~~C-----------------------------------------F~C~~~i~G~vv~al~KawCv~ 279 (332)
T KOG2272|consen 241 GLAYCETHYHQLFGNLC-----------------------------------------FICNRVIGGDVVSALNKAWCVE 279 (332)
T ss_pred CchhHHHHHHHHhhhhh-----------------------------------------eecCCccCccHHHHhhhhhccc
Confidence 99999999999998666 7778888888999999999999
Q ss_pred cccccccCCccccCcccccccCCCcCCCceeecCCEeecHhHHhh
Q psy10533 403 HFACSTLGKHWHVEHFVCARCEKPFLGHRHYEKKGLAYCETHYHQ 447 (594)
Q Consensus 403 CF~C~~C~~~l~~~~f~C~~C~~~~~~~~~~~~dg~~yC~~~y~~ 447 (594)
||+|+.|++.|+. -+.|++-|-+|.|+.+|.+
T Consensus 280 cf~Cs~Cdkkl~~-------------K~Kf~E~DmkP~CKkCy~r 311 (332)
T KOG2272|consen 280 CFSCSTCDKKLTQ-------------KNKFYEFDMKPVCKKCYDR 311 (332)
T ss_pred ccccccccccccc-------------ccceeeeccchHHHHHHhh
Confidence 9999999999983 5679999999999999984
No 2
>KOG2272|consensus
Probab=100.00 E-value=2e-52 Score=399.58 Aligned_cols=276 Identities=35% Similarity=0.707 Sum_probs=232.4
Q ss_pred EcCCcccCCCccccCCCCccccccccEecCCceeeccccccccccccCccccccccccccCcceeecCccccccCcccCC
Q psy10533 161 KAMNANWHPKCFRCEHCSKELADLGFIRSQGRALCHECNAQAKAVGFGKHMCHKCHGLIDDKPLKFRGEVYHPYHFNCTS 240 (594)
Q Consensus 161 ~a~~~~~H~~CF~C~~C~~~L~~~~f~~~dg~~~C~~C~~~~~~~~~~~~~C~~C~~~I~~~~i~~~~~~~H~~CF~C~~ 240 (594)
...+..||..||.|..|-.|+.+..|++.+|+.||..++.- +++|.|.+|++.|.|++|.+++.+|||.||+|..
T Consensus 30 ns~ge~wH~~CFvCAQCf~pf~~g~~~efEgRkYCEhDF~~-----LfaPcC~kC~EFiiGrVikamnnSwHp~CF~Cd~ 104 (332)
T KOG2272|consen 30 NSNGELWHEQCFVCAQCFRPFPDGIFYEFEGRKYCEHDFHV-----LFAPCCGKCGEFIIGRVIKAMNNSWHPACFRCDL 104 (332)
T ss_pred ccCchhhHHHHHHHHHhcCcCCCceeEEecCcccccccchh-----hhchhhcccccchhhHHHHhhccccCcccchhHH
Confidence 33344444444444444444445556666677888888776 4569999999999999999999999999999999
Q ss_pred CCCCCCCCcccccCCCCcccccccccccccccCCC-----CCCCCCCCCCCcceeEEEEcCccccccCcCCccccCCCCC
Q psy10533 241 CGTELNSDAREVKSRPGYTANDMNELYCLRCHDKM-----GIPICGACRRPIEERVVTALGKHWHVEHFVCARCEKPFLG 315 (594)
Q Consensus 241 C~~~L~~~~~~~~~~~gy~~~~~g~~yC~~c~~~~-----~~~~C~~C~~~I~~~~v~a~g~~wH~~CF~C~~C~~~L~~ 315 (594)
|++.|++..|... .|+.+|..|.++. +..+|.+|+..|..+.|+..|..||+.+|+|+.|++.|++
T Consensus 105 Cn~~Lad~gf~rn---------qgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~~~l~fr~d~yH~yHFkCt~C~keL~s 175 (332)
T KOG2272|consen 105 CNKHLADQGFYRN---------QGRALCRECNQKEKAKGRGRYVCQKCHAHIDEQPLTFRGDPYHPYHFKCTTCGKELTS 175 (332)
T ss_pred HHHHHhhhhhHhh---------cchHHhhhhhhhhcccccceeehhhhhhhcccccccccCCCCCccceecccccccccc
Confidence 9999999888765 5999999999873 4568999999999999999999999999999999999976
Q ss_pred CcccccCCeecchhhhhhhhcCCCccccccccCCCCccccccceeccCCCCcCcccccccccccccccCccccCceEEec
Q psy10533 316 HRHYEKKGLAYCETHYHQLFGNLCFVCNQVIGGDESHYITSRELTYKKGLGYCESHYHQLFGNLCFVCNQVIGGDLFTAL 395 (594)
Q Consensus 316 ~~f~~~~g~~yC~~cy~~~f~~~C~~C~~~i~~~~~~~i~~~~~~~~~g~~~C~~~~~~~~~~~C~~C~~~I~g~~i~a~ 395 (594)
...+..|.+||.+|++++--|. |..|.+||.+++|.||
T Consensus 176 -daRevk~eLyClrChD~mgipi-----------------------------------------CgaC~rpIeervi~am 213 (332)
T KOG2272|consen 176 -DAREVKGELYCLRCHDKMGIPI-----------------------------------------CGACRRPIEERVIFAM 213 (332)
T ss_pred -hhhhhccceeccccccccCCcc-----------------------------------------cccccCchHHHHHHHh
Confidence 6678888999999988765544 5788888888999999
Q ss_pred CceeecccccccccCCccccCcccccccCCCcCCCceeecCCEeecHhHHhhHhCCCCCcCCCCcccccccccchhhhcC
Q psy10533 396 NKAWCVHHFACSTLGKHWHVEHFVCARCEKPFLGHRHYEKKGLAYCETHYHQLFGNLCFVCNQNHTISLHVSSREAVLSS 475 (594)
Q Consensus 396 ~k~~H~~CF~C~~C~~~l~~~~f~C~~C~~~~~~~~~~~~dg~~yC~~~y~~~f~~~C~~C~~~i~~~~~~~~~~~~~~~ 475 (594)
|+.||+++|+ |++|.+||-|.+.|++.|.+||+.||++|||..|+.|+.+|.
T Consensus 214 gKhWHveHFv--------------Ca~CekPFlGHrHYEkkGlaYCe~h~~qLfG~~CF~C~~~i~-------------- 265 (332)
T KOG2272|consen 214 GKHWHVEHFV--------------CAKCEKPFLGHRHYEKKGLAYCETHYHQLFGNLCFICNRVIG-------------- 265 (332)
T ss_pred ccccchhhee--------------ehhcCCcccchhhhhhcCchhHHHHHHHHhhhhheecCCccC--------------
Confidence 9999887665 556678889999999999999999999999999999999875
Q ss_pred CcccccccccccCCccccccccccccCCCCccCCccccccccccccccccCCCCcccccccccccCccchhhhHH
Q psy10533 476 DSSVFGLRHYEKKGLAYCETHYHQLFGNLCFVCNQDHTISRHVSSRESVLSSDSSVFGLRHYEKNGLAYCETHYH 550 (594)
Q Consensus 476 ~~~~~g~~~~~~~g~~yc~~c~~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~ 550 (594)
+..+.+.|++||++|| +|.+|++.+|. ...|||.|.||.|+.||.
T Consensus 266 ------G~vv~al~KawCv~cf------~Cs~Cdkkl~~------------------K~Kf~E~DmkP~CKkCy~ 310 (332)
T KOG2272|consen 266 ------GDVVSALNKAWCVECF------SCSTCDKKLTQ------------------KNKFYEFDMKPVCKKCYD 310 (332)
T ss_pred ------ccHHHHhhhhhccccc------ccccccccccc------------------ccceeeeccchHHHHHHh
Confidence 3445789999999999 99999998863 458999999999999996
No 3
>KOG1701|consensus
Probab=99.96 E-value=3.7e-31 Score=271.50 Aligned_cols=181 Identities=29% Similarity=0.646 Sum_probs=165.2
Q ss_pred CCCcCCCCCCCCceeeeccceEEeeEEEcCCcccCCCccccCCCCccccccccEecCCceeeccccccccccccCccccc
Q psy10533 134 VCAQCFRPFPGGIFYEFEGEFVIGRVIKAMNANWHPKCFRCEHCSKELADLGFIRSQGRALCHECNAQAKAVGFGKHMCH 213 (594)
Q Consensus 134 ~C~~C~~~l~~~~~~~~~~~~i~g~~v~a~~~~~H~~CF~C~~C~~~L~~~~f~~~dg~~~C~~C~~~~~~~~~~~~~C~ 213 (594)
+|..|+|.|.++ +..++||++.||.+||+|..|++.|..+.||..|+++||+.||.++. .+|.
T Consensus 276 iC~~C~K~V~g~-----------~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~tl------ekC~ 338 (468)
T KOG1701|consen 276 ICAFCHKTVSGQ-----------GLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDTL------EKCN 338 (468)
T ss_pred hhhhcCCcccCc-----------chHHHHhhhhhcccceehHhhhhhhccccccccCCcccchHHHHHHH------HHHh
Confidence 799998887653 45789999999999999999999999999999999999999999864 8999
Q ss_pred cccccccCcceeecCccccccCcccCCCCCCCCCCcccccCCCCcccccccccccccccCCCCCCCCCCCCCCcce----
Q psy10533 214 KCHGLIDDKPLKFRGEVYHPYHFNCTSCGTELNSDAREVKSRPGYTANDMNELYCLRCHDKMGIPICGACRRPIEE---- 289 (594)
Q Consensus 214 ~C~~~I~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~gy~~~~~g~~yC~~c~~~~~~~~C~~C~~~I~~---- 289 (594)
.|+++|.++.|.|.|+.||+.||+|..|.+.|++..|.++ .++++||.+||.+.++|+|+.|+++|..
T Consensus 339 ~Cg~~I~d~iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd--------~~n~v~Cv~dfh~kfAPrCs~C~~PI~P~~G~ 410 (468)
T KOG1701|consen 339 KCGEPIMDRILRALGKAYHPGCFTCVVCARCLDGIPFTVD--------SQNNVYCVPDFHKKFAPRCSVCGNPILPRDGK 410 (468)
T ss_pred hhhhHHHHHHHHhcccccCCCceEEEEeccccCCcccccc--------CCCceeeehhhhhhcCcchhhccCCccCCCCC
Confidence 9999999999999999999999999999999999998877 4599999999999999999999999975
Q ss_pred -e--EEEEcCccccccCcCCccccCCCC----CCcccccCCeecchhhhhhhhcCCC
Q psy10533 290 -R--VVTALGKHWHVEHFVCARCEKPFL----GHRHYEKKGLAYCETHYHQLFGNLC 339 (594)
Q Consensus 290 -~--~v~a~g~~wH~~CF~C~~C~~~L~----~~~f~~~~g~~yC~~cy~~~f~~~C 339 (594)
+ .|.++|+.||.+|++|.+|+..|+ +...|..||.++|+.|..++....+
T Consensus 411 ~etvRvvamdr~fHv~CY~CEDCg~~LS~e~e~qgCyPld~HllCk~Ch~~Rl~~~~ 467 (468)
T KOG1701|consen 411 DETVRVVAMDRDFHVNCYKCEDCGLLLSSEEEGQGCYPLDGHLLCKTCHLKRLQAGS 467 (468)
T ss_pred cceEEEEEccccccccceehhhcCccccccCCCCcceeccCceeechhhhhhhcccC
Confidence 1 277999999999999999999997 4578999999999999988876543
No 4
>KOG1701|consensus
Probab=99.95 E-value=4.3e-30 Score=263.68 Aligned_cols=181 Identities=28% Similarity=0.633 Sum_probs=153.9
Q ss_pred CcccCCCcccccCceeeecCCcccccCCcCCCCCCCCCCCCCeEEeCCccCChhHHHhhccCCcCCCCCCCccccccccc
Q psy10533 6 MYCSRCNEGFEPEEKIVNSNGELWHQQCFVCAQCFRPFPGGIFYEFEGRKYCEHDFHVLFAPCCGNGCPSLSTFAISLAG 85 (594)
Q Consensus 6 ~~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~~y~~~~~p~c~~~c~~~~~~~~~~~g 85 (594)
.+|.+|+|.|++.+..++||+++||..||+|..|++.|.+..||.+|+++|||.||++.+.
T Consensus 275 ~iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~tle------------------- 335 (468)
T KOG1701|consen 275 GICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDTLE------------------- 335 (468)
T ss_pred hhhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccccCCcccchHHHHHHHH-------------------
Confidence 3899999999999999999999999999999999999999999999999999999987664
Q ss_pred ccCCCCCCcccccccCCCcccccccccccccCCcccccCCCccccCCCCCCcCCCCCCCCceeeeccceEEeeEEEcCCc
Q psy10533 86 EISGWYPPCLKITMSLGNMYCFPLQRRFRARGEDRQTLTGGAWHQQCFVCAQCFRPFPGGIFYEFEGEFVIGRVIKAMNA 165 (594)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~i~g~~v~a~~~ 165 (594)
+|..| ++.|++++++|+|+
T Consensus 336 ------------------------------------------------kC~~C-------------g~~I~d~iLrA~Gk 354 (468)
T KOG1701|consen 336 ------------------------------------------------KCNKC-------------GEPIMDRILRALGK 354 (468)
T ss_pred ------------------------------------------------HHhhh-------------hhHHHHHHHHhccc
Confidence 35568 55567888999999
Q ss_pred ccCCCccccCCCCccccccccE-ecCCceeeccccccccccccCcccccccccccc---Ccc----eeecCccccccCcc
Q psy10533 166 NWHPKCFRCEHCSKELADLGFI-RSQGRALCHECNAQAKAVGFGKHMCHKCHGLID---DKP----LKFRGEVYHPYHFN 237 (594)
Q Consensus 166 ~~H~~CF~C~~C~~~L~~~~f~-~~dg~~~C~~C~~~~~~~~~~~~~C~~C~~~I~---~~~----i~~~~~~~H~~CF~ 237 (594)
.||+.||+|..|.+.|.+..|. ..++++||.++|.+.| +++|+.|+++|. |+. |.++++.||.+|++
T Consensus 355 ayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kf-----APrCs~C~~PI~P~~G~~etvRvvamdr~fHv~CY~ 429 (468)
T KOG1701|consen 355 AYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKF-----APRCSVCGNPILPRDGKDETVRVVAMDRDFHVNCYK 429 (468)
T ss_pred ccCCCceEEEEeccccCCccccccCCCceeeehhhhhhc-----CcchhhccCCccCCCCCcceEEEEEcccccccccee
Confidence 9999999999999999999995 5689999999999976 499999999996 332 67899999999999
Q ss_pred cCCCCCCCCCCcccccCCCCcccccccccccccccCCCC
Q psy10533 238 CTSCGTELNSDAREVKSRPGYTANDMNELYCLRCHDKMG 276 (594)
Q Consensus 238 C~~C~~~L~~~~~~~~~~~gy~~~~~g~~yC~~c~~~~~ 276 (594)
|..|+..|+.+.- ....|.. +|-++|..|+.++.
T Consensus 430 CEDCg~~LS~e~e---~qgCyPl--d~HllCk~Ch~~Rl 463 (468)
T KOG1701|consen 430 CEDCGLLLSSEEE---GQGCYPL--DGHLLCKTCHLKRL 463 (468)
T ss_pred hhhcCccccccCC---CCcceec--cCceeechhhhhhh
Confidence 9999999985431 1112222 27788888876543
No 5
>KOG1044|consensus
Probab=99.94 E-value=1.1e-27 Score=253.21 Aligned_cols=198 Identities=27% Similarity=0.658 Sum_probs=166.7
Q ss_pred cceEEeeEEEcCCcccCCCccccCCCCccccccccEecCCc-eeeccccccccccccCccccccccccccCcceeecCcc
Q psy10533 152 GEFVIGRVIKAMNANWHPKCFRCEHCSKELADLGFIRSQGR-ALCHECNAQAKAVGFGKHMCHKCHGLIDDKPLKFRGEV 230 (594)
Q Consensus 152 ~~~i~g~~v~a~~~~~H~~CF~C~~C~~~L~~~~f~~~dg~-~~C~~C~~~~~~~~~~~~~C~~C~~~I~~~~i~~~~~~ 230 (594)
++...|+++.+.++.||..||+|..|+..|...+|+.+++. +|+ . ..|...|++++|.++|++
T Consensus 23 ~~kc~gevlrv~d~~fhi~cf~c~~cg~~la~~gff~k~~~~~yg--------------t--~~c~~~~~gevvsa~gkt 86 (670)
T KOG1044|consen 23 RKKCSGEVLRVNDNHFHINCFQCKKCGRNLAEGGFFTKPENRLYG--------------T--DDCRAFVEGEVVSTLGKT 86 (670)
T ss_pred CCccccceeEeeccccceeeeeccccCCCcccccceecccceeec--------------c--cchhhhccceeEecccce
Confidence 44456899999999999999999999999999999988776 322 2 678899999999999999
Q ss_pred ccccCcccCCCCCCCCCCcccccCCCCcccccccccccccccCCC--------CCCCCCCCCCCcce-eEEEEcCccccc
Q psy10533 231 YHPYHFNCTSCGTELNSDAREVKSRPGYTANDMNELYCLRCHDKM--------GIPICGACRRPIEE-RVVTALGKHWHV 301 (594)
Q Consensus 231 ~H~~CF~C~~C~~~L~~~~~~~~~~~gy~~~~~g~~yC~~c~~~~--------~~~~C~~C~~~I~~-~~v~a~g~~wH~ 301 (594)
||+.||.|+.|..|+.....+.. ......|+.|.... +-..|++|++.|.. +.+.|+++.||.
T Consensus 87 yh~~cf~cs~ck~pf~~g~~vt~--------~gk~~~c~~c~~~~~~~p~~~~~ps~cagc~~~lk~gq~llald~qwhv 158 (670)
T KOG1044|consen 87 YHPKCFSCSTCKSPFKSGDKVTF--------SGKECLCQTCSQPMPVSPAESYGPSTCAGCGEELKNGQALLALDKQWHV 158 (670)
T ss_pred eccccceecccCCCCCCCCeeee--------cchhhhhhhhcCcccCCcccccCCccccchhhhhhccceeeeeccceee
Confidence 99999999999999976654332 12446677776432 23469999998865 899999999999
Q ss_pred cCcCCccccCCCCCCcccccCCeecchhhhhhhhcCCCccccccccCCCCccccccceeccCCCCcCccccccccccccc
Q psy10533 302 EHFVCARCEKPFLGHRHYEKKGLAYCETHYHQLFGNLCFVCNQVIGGDESHYITSRELTYKKGLGYCESHYHQLFGNLCF 381 (594)
Q Consensus 302 ~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~C~~C~~~i~~~~~~~i~~~~~~~~~g~~~C~~~~~~~~~~~C~ 381 (594)
.||+|..|...|.+ +|+.++|.|||++||.+.|+.+| .
T Consensus 159 ~cfkc~~c~~vL~g-ey~skdg~pyce~dy~~~fgvkc-----------------------------------------~ 196 (670)
T KOG1044|consen 159 SCFKCKSCSAVLNG-EYMSKDGVPYCEKDYQAKFGVKC-----------------------------------------E 196 (670)
T ss_pred eeeehhhhcccccc-eeeccCCCcchhhhhhhhcCeeh-----------------------------------------H
Confidence 99999999999976 89999999999999999998887 5
Q ss_pred ccCccccCceEEecCceeecccccccccCCcccc
Q psy10533 382 VCNQVIGGDLFTALNKAWCVHHFACSTLGKHWHV 415 (594)
Q Consensus 382 ~C~~~I~g~~i~a~~k~~H~~CF~C~~C~~~l~~ 415 (594)
.|.+.|.|.++.|.|+.||+.|-+|+.|++.+.+
T Consensus 197 ~c~~fisgkvLqag~kh~HPtCARCsRCgqmF~e 230 (670)
T KOG1044|consen 197 ECEKFISGKVLQAGDKHFHPTCARCSRCGQMFGE 230 (670)
T ss_pred HhhhhhhhhhhhccCcccCcchhhhhhhcccccc
Confidence 5666667788999999999999999999988874
No 6
>KOG1703|consensus
Probab=99.93 E-value=6.8e-27 Score=257.15 Aligned_cols=231 Identities=25% Similarity=0.471 Sum_probs=203.7
Q ss_pred cccccccccCcceeecCccccccCcccC-CCCCCCCCCcccccCCCCcccccccccccccccCCCCCCCCCCCCCCcce-
Q psy10533 212 CHKCHGLIDDKPLKFRGEVYHPYHFNCT-SCGTELNSDAREVKSRPGYTANDMNELYCLRCHDKMGIPICGACRRPIEE- 289 (594)
Q Consensus 212 C~~C~~~I~~~~i~~~~~~~H~~CF~C~-~C~~~L~~~~~~~~~~~gy~~~~~g~~yC~~c~~~~~~~~C~~C~~~I~~- 289 (594)
+..+..++....+.+....||+..+++. .+...|....+... .....+..+|.....++|..|+++|.+
T Consensus 246 ~~~~~~p~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~p~c~~c~~~i~~~ 316 (479)
T KOG1703|consen 246 SASMDSPECQPLVSAPRPASEGLHMKVEKELPLLLVESEALKK---------LREEEKPAEYHNVTRPLCLSCNQKIRSV 316 (479)
T ss_pred CcccCCCccCcceecccccccccccccccccchhhcccccccc---------cccccccccccccccccccccccCcccc
Confidence 6777888888778888999999999998 77777777665544 366777778877888999999999999
Q ss_pred eEEEEcCccccccCcCCccccCCCCCCcccccCCeecchhhhhhhhcCCCccccccccCCCCccccccceeccCCCCcCc
Q psy10533 290 RVVTALGKHWHVEHFVCARCEKPFLGHRHYEKKGLAYCETHYHQLFGNLCFVCNQVIGGDESHYITSRELTYKKGLGYCE 369 (594)
Q Consensus 290 ~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~C~~C~~~i~~~~~~~i~~~~~~~~~g~~~C~ 369 (594)
+.+.++++.||+.+|.|..|...+....+.+.+|++||..||.+.++++|
T Consensus 317 ~~i~~~~~~~h~~~~~c~~~~~~~~~~~~~~~~g~~~c~~~~~~~~~p~C------------------------------ 366 (479)
T KOG1703|consen 317 KVIVALGKEWHPEHFSCEVCAIVILDGGPRELDGKILCHECFHAPFRPNC------------------------------ 366 (479)
T ss_pred eeEeeccccccccceeeccccccccCCCccccCCCccHHHHHHHhhCccc------------------------------
Confidence 99999999999999999999999998888999999999999999998777
Q ss_pred ccccccccccccccCccccCceEEecCceeecccccccccCCccccCcccccccCCCcCCCceeecCCEeecHhHHhhHh
Q psy10533 370 SHYHQLFGNLCFVCNQVIGGDLFTALNKAWCVHHFACSTLGKHWHVEHFVCARCEKPFLGHRHYEKKGLAYCETHYHQLF 449 (594)
Q Consensus 370 ~~~~~~~~~~C~~C~~~I~g~~i~a~~k~~H~~CF~C~~C~~~l~~~~f~C~~C~~~~~~~~~~~~dg~~yC~~~y~~~f 449 (594)
.+|.++|.++.|.|+++.||++||.|+.|+ ++|.+..|+++||.|||+.||+++|
T Consensus 367 -----------~~C~~~i~~~~v~a~~~~wH~~cf~C~~C~--------------~~~~~~~~~~~~~~pyce~~~~~~~ 421 (479)
T KOG1703|consen 367 -----------KRCLLPILEEGVCALGRLWHPECFVCADCG--------------KPLKNSSFFESDGEPYCEDHYKKLF 421 (479)
T ss_pred -----------cccCCchHHhHhhhccCeechhceeeeccc--------------CCCCCCcccccCCccchhhhHhhhc
Confidence 788888999999999999999999887664 4556889999999999999999999
Q ss_pred CCCCCcCCCCcccccccccchhhhcCCcccccccccccCCccccccccccccCCCCccCCccccccccccccccccCCCC
Q psy10533 450 GNLCFVCNQNHTISLHVSSREAVLSSDSSVFGLRHYEKKGLAYCETHYHQLFGNLCFVCNQDHTISRHVSSRESVLSSDS 529 (594)
Q Consensus 450 ~~~C~~C~~~i~~~~~~~~~~~~~~~~~~~~g~~~~~~~g~~yc~~c~~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~ 529 (594)
+++|..|.+++. +++++.+++|..||..|| +|+.|.+.
T Consensus 422 ~~~~~~~~~p~~------------------~~~~~ie~~~~~~h~~~F------~c~~c~~~------------------ 459 (479)
T KOG1703|consen 422 TTKCDYCKKPVE------------------FGSRQIEADGSPFHGDCF------RCANCMKK------------------ 459 (479)
T ss_pred cccchhccchhH------------------hhhhHhhccCccccccce------ehhhhhcc------------------
Confidence 999999999864 577888999999998888 78888874
Q ss_pred cccccccccccCccchhhhH
Q psy10533 530 SVFGLRHYEKNGLAYCETHY 549 (594)
Q Consensus 530 ~~~~~~~~~~~~~~~c~~~~ 549 (594)
+.++.||++.++|+|++|+
T Consensus 460 -l~~~~~~~~~~~p~c~~~~ 478 (479)
T KOG1703|consen 460 -LTKKTFFETLDKPLCQKHF 478 (479)
T ss_pred -ccCCceeecCCccccccCC
Confidence 5589999999999999987
No 7
>KOG1044|consensus
Probab=99.92 E-value=1.9e-26 Score=243.90 Aligned_cols=225 Identities=24% Similarity=0.549 Sum_probs=179.4
Q ss_pred CCcccCCCcccccCceeeecCCcccccCCcCCCCCCCCCCCCCeEEeCCccCChhHHHhhccCCcCCCCCCCcccccccc
Q psy10533 5 NMYCSRCNEGFEPEEKIVNSNGELWHQQCFVCAQCFRPFPGGIFYEFEGRKYCEHDFHVLFAPCCGNGCPSLSTFAISLA 84 (594)
Q Consensus 5 ~~~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~~y~~~~~p~c~~~c~~~~~~~~~~~ 84 (594)
...|.+|.++.++ .|+++.++.||..||+|..|+..|..++|+.++++ +++++ .+
T Consensus 16 ~i~c~~c~~kc~g--evlrv~d~~fhi~cf~c~~cg~~la~~gff~k~~~--------~~ygt--~~------------- 70 (670)
T KOG1044|consen 16 GIKCDKCRKKCSG--EVLRVNDNHFHINCFQCKKCGRNLAEGGFFTKPEN--------RLYGT--DD------------- 70 (670)
T ss_pred ceehhhhCCcccc--ceeEeeccccceeeeeccccCCCcccccceecccc--------eeecc--cc-------------
Confidence 4679999999976 46699999999999999999999999999988866 33332 11
Q ss_pred cccCCCCCCcccccccCCCcccccccccccccCCcccccCCCccccCCCCCCcCCCCCCCCceeeeccceEEeeEEEcCC
Q psy10533 85 GEISGWYPPCLKITMSLGNMYCFPLQRRFRARGEDRQTLTGGAWHQQCFVCAQCFRPFPGGIFYEFEGEFVIGRVIKAMN 164 (594)
Q Consensus 85 g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~i~g~~v~a~~ 164 (594)
| ..++.|++|.+++
T Consensus 71 -----------------------------------------------------c-------------~~~~~gevvsa~g 84 (670)
T KOG1044|consen 71 -----------------------------------------------------C-------------RAFVEGEVVSTLG 84 (670)
T ss_pred -----------------------------------------------------h-------------hhhccceeEeccc
Confidence 3 3345677777777
Q ss_pred cccCCCccccCCCCccccccccEecCCc-eeeccccccccc---cccCcccccccccccc-CcceeecCccccccCcccC
Q psy10533 165 ANWHPKCFRCEHCSKELADLGFIRSQGR-ALCHECNAQAKA---VGFGKHMCHKCHGLID-DKPLKFRGEVYHPYHFNCT 239 (594)
Q Consensus 165 ~~~H~~CF~C~~C~~~L~~~~f~~~dg~-~~C~~C~~~~~~---~~~~~~~C~~C~~~I~-~~~i~~~~~~~H~~CF~C~ 239 (594)
++||+.||.|..|..+.....-+...|+ ..|..|...... .......|+.|++.|. |+.+.|+++.||..||+|.
T Consensus 85 ktyh~~cf~cs~ck~pf~~g~~vt~~gk~~~c~~c~~~~~~~p~~~~~ps~cagc~~~lk~gq~llald~qwhv~cfkc~ 164 (670)
T KOG1044|consen 85 KTYHPKCFSCSTCKSPFKSGDKVTFSGKECLCQTCSQPMPVSPAESYGPSTCAGCGEELKNGQALLALDKQWHVSCFKCK 164 (670)
T ss_pred ceeccccceecccCCCCCCCCeeeecchhhhhhhhcCcccCCcccccCCccccchhhhhhccceeeeeccceeeeeeehh
Confidence 7788888888777777766655555443 666666543211 1135678999999886 8899999999999999999
Q ss_pred CCCCCCCCCcccccCCCCcccccccccccccccCCCCCCCCCCCCCCcceeEEEEcCccccccCcCCccccCCCCCC-cc
Q psy10533 240 SCGTELNSDAREVKSRPGYTANDMNELYCLRCHDKMGIPICGACRRPIEERVVTALGKHWHVEHFVCARCEKPFLGH-RH 318 (594)
Q Consensus 240 ~C~~~L~~~~~~~~~~~gy~~~~~g~~yC~~c~~~~~~~~C~~C~~~I~~~~v~a~g~~wH~~CF~C~~C~~~L~~~-~f 318 (594)
.|+..|.++....+ |.+||..||+..|..+|..|.+-|.+++|.|.|++|||.|-+|+.|+..++++ +-
T Consensus 165 ~c~~vL~gey~skd----------g~pyce~dy~~~fgvkc~~c~~fisgkvLqag~kh~HPtCARCsRCgqmF~eGEEM 234 (670)
T KOG1044|consen 165 SCSAVLNGEYMSKD----------GVPYCEKDYQAKFGVKCEECEKFISGKVLQAGDKHFHPTCARCSRCGQMFGEGEEM 234 (670)
T ss_pred hhcccccceeeccC----------CCcchhhhhhhhcCeehHHhhhhhhhhhhhccCcccCcchhhhhhhccccccchhe
Confidence 99999988765544 99999999999999999999999999999999999999999999999999854 55
Q ss_pred cccCCeecchhh
Q psy10533 319 YEKKGLAYCETH 330 (594)
Q Consensus 319 ~~~~g~~yC~~c 330 (594)
|.....+.-..|
T Consensus 235 YlQGs~iWHP~C 246 (670)
T KOG1044|consen 235 YLQGSEIWHPDC 246 (670)
T ss_pred eeccccccCCcc
Confidence 566665544333
No 8
>KOG1703|consensus
Probab=99.90 E-value=3.2e-25 Score=244.00 Aligned_cols=220 Identities=25% Similarity=0.481 Sum_probs=196.3
Q ss_pred eeEEEcCCcccCCCccccC-CCCccccccccEecCCceeeccccccccccccCccccccccccccC-cceeecCcccccc
Q psy10533 157 GRVIKAMNANWHPKCFRCE-HCSKELADLGFIRSQGRALCHECNAQAKAVGFGKHMCHKCHGLIDD-KPLKFRGEVYHPY 234 (594)
Q Consensus 157 g~~v~a~~~~~H~~CF~C~-~C~~~L~~~~f~~~dg~~~C~~C~~~~~~~~~~~~~C~~C~~~I~~-~~i~~~~~~~H~~ 234 (594)
+..+.++...||...++|. .+...|....++.......+..+|... ..++|..|+++|.+ +.+.++++.||+.
T Consensus 255 ~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~p~c~~c~~~i~~~~~i~~~~~~~h~~ 329 (479)
T KOG1703|consen 255 QPLVSAPRPASEGLHMKVEKELPLLLVESEALKKLREEEKPAEYHNV-----TRPLCLSCNQKIRSVKVIVALGKEWHPE 329 (479)
T ss_pred Ccceecccccccccccccccccchhhccccccccccccccccccccc-----ccccccccccCcccceeEeecccccccc
Confidence 4566788889999999998 888999998899989999888887653 35999999999999 9999999999999
Q ss_pred CcccCCCCCCCCCCcccccCCCCcccccccccccccccCCCCCCCCCCCCCCcceeEEEEcCccccccCcCCccccCCCC
Q psy10533 235 HFNCTSCGTELNSDAREVKSRPGYTANDMNELYCLRCHDKMGIPICGACRRPIEERVVTALGKHWHVEHFVCARCEKPFL 314 (594)
Q Consensus 235 CF~C~~C~~~L~~~~~~~~~~~gy~~~~~g~~yC~~c~~~~~~~~C~~C~~~I~~~~v~a~g~~wH~~CF~C~~C~~~L~ 314 (594)
+|.|..|...+....+... +|++||.+|+...+.+.|.+|.++|.++.|.|+++.||++||.|..|+++|.
T Consensus 330 ~~~c~~~~~~~~~~~~~~~---------~g~~~c~~~~~~~~~p~C~~C~~~i~~~~v~a~~~~wH~~cf~C~~C~~~~~ 400 (479)
T KOG1703|consen 330 HFSCEVCAIVILDGGPREL---------DGKILCHECFHAPFRPNCKRCLLPILEEGVCALGRLWHPECFVCADCGKPLK 400 (479)
T ss_pred ceeeccccccccCCCcccc---------CCCccHHHHHHHhhCccccccCCchHHhHhhhccCeechhceeeecccCCCC
Confidence 9999999999987776433 4899999999999999999999999999999999999999999999999999
Q ss_pred CCcccccCCeecchhhhhhhhcCCCccccccccCCCCccccccceeccCCCCcCcccccccccccccccCcccc--CceE
Q psy10533 315 GHRHYEKKGLAYCETHYHQLFGNLCFVCNQVIGGDESHYITSRELTYKKGLGYCESHYHQLFGNLCFVCNQVIG--GDLF 392 (594)
Q Consensus 315 ~~~f~~~~g~~yC~~cy~~~f~~~C~~C~~~i~~~~~~~i~~~~~~~~~g~~~C~~~~~~~~~~~C~~C~~~I~--g~~i 392 (594)
.+.|++.+|.+||+.||.+++.++| ..|.++|. +..+
T Consensus 401 ~~~~~~~~~~pyce~~~~~~~~~~~-----------------------------------------~~~~~p~~~~~~~i 439 (479)
T KOG1703|consen 401 NSSFFESDGEPYCEDHYKKLFTTKC-----------------------------------------DYCKKPVEFGSRQI 439 (479)
T ss_pred CCcccccCCccchhhhHhhhccccc-----------------------------------------hhccchhHhhhhHh
Confidence 9999999999999999999998777 55666664 6789
Q ss_pred EecCceeecccccccccCCccccCcccccccCCCcCCCceeecCCEeecHhHH
Q psy10533 393 TALNKAWCVHHFACSTLGKHWHVEHFVCARCEKPFLGHRHYEKKGLAYCETHY 445 (594)
Q Consensus 393 ~a~~k~~H~~CF~C~~C~~~l~~~~f~C~~C~~~~~~~~~~~~dg~~yC~~~y 445 (594)
++++..||.+||+|+.|.+.| .+..|+...++|+|..|+
T Consensus 440 e~~~~~~h~~~F~c~~c~~~l--------------~~~~~~~~~~~p~c~~~~ 478 (479)
T KOG1703|consen 440 EADGSPFHGDCFRCANCMKKL--------------TKKTFFETLDKPLCQKHF 478 (479)
T ss_pred hccCccccccceehhhhhccc--------------cCCceeecCCccccccCC
Confidence 999999999999998887766 478899999999999875
No 9
>KOG4577|consensus
Probab=99.66 E-value=4.3e-18 Score=166.80 Aligned_cols=129 Identities=25% Similarity=0.633 Sum_probs=110.1
Q ss_pred cCCCCCCCCCCCCCCcceeE-EEEcCccccccCcCCccccCCCCCCcccccCCeecchhhhhhhhcCCCccccccccCCC
Q psy10533 272 HDKMGIPICGACRRPIEERV-VTALGKHWHVEHFVCARCEKPFLGHRHYEKKGLAYCETHYHQLFGNLCFVCNQVIGGDE 350 (594)
Q Consensus 272 ~~~~~~~~C~~C~~~I~~~~-v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~C~~C~~~i~~~~ 350 (594)
+.....|+|++|++.|.+++ +.++++.||..|++|+.|..+|.. +.|.++|..||+.+|.++|+.+|.+|++.|.+..
T Consensus 28 f~~~eip~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~d-rCFsR~~s~yCkedFfKrfGTKCsaC~~GIpPtq 106 (383)
T KOG4577|consen 28 FSNVEIPICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLAD-RCFSREGSVYCKEDFFKRFGTKCSACQEGIPPTQ 106 (383)
T ss_pred ccccccccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHHH-HHhhcCCceeehHHHHHHhCCcchhhcCCCChHH
Confidence 33445799999999999966 569999999999999999999976 8999999999999999999999977776665432
Q ss_pred CccccccceeccCCCCcCcccccccccccccccCccccCceEEecCceeecccccccccCCccccCcccccccCCCcCCC
Q psy10533 351 SHYITSRELTYKKGLGYCESHYHQLFGNLCFVCNQVIGGDLFTALNKAWCVHHFACSTLGKHWHVEHFVCARCEKPFLGH 430 (594)
Q Consensus 351 ~~~i~~~~~~~~~g~~~C~~~~~~~~~~~C~~C~~~I~g~~i~a~~k~~H~~CF~C~~C~~~l~~~~f~C~~C~~~~~~~ 430 (594)
+ +-.|.+.+||++||.|..|+++|. +|+
T Consensus 107 V---------------------------------------VRkAqd~VYHl~CF~C~iC~R~L~-------------TGd 134 (383)
T KOG4577|consen 107 V---------------------------------------VRKAQDFVYHLHCFACFICKRQLA-------------TGD 134 (383)
T ss_pred H---------------------------------------HHHhhcceeehhhhhhHhhhcccc-------------cCC
Confidence 1 225779999999999999999997 578
Q ss_pred cee-ecCCEeecHhHHhhHhCCCC
Q psy10533 431 RHY-EKKGLAYCETHYHQLFGNLC 453 (594)
Q Consensus 431 ~~~-~~dg~~yC~~~y~~~f~~~C 453 (594)
+|| +.|++..|+.+|++.-..-|
T Consensus 135 EFYLmeD~rLvCK~DYE~Ak~k~~ 158 (383)
T KOG4577|consen 135 EFYLMEDARLVCKDDYETAKQKHC 158 (383)
T ss_pred eeEEeccceeehhhhHHHHHhccc
Confidence 888 67889999999998777666
No 10
>KOG4577|consensus
Probab=99.48 E-value=1.2e-15 Score=149.82 Aligned_cols=121 Identities=24% Similarity=0.480 Sum_probs=109.2
Q ss_pred ccccccccccccCcc-eeecCccccccCcccCCCCCCCCCCcccccCCCCcccccccccccccccCCCCCCCCCCCCCCc
Q psy10533 209 KHMCHKCHGLIDDKP-LKFRGEVYHPYHFNCTSCGTELNSDAREVKSRPGYTANDMNELYCLRCHDKMGIPICGACRRPI 287 (594)
Q Consensus 209 ~~~C~~C~~~I~~~~-i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~gy~~~~~g~~yC~~c~~~~~~~~C~~C~~~I 287 (594)
.++|+.|++.|.++. +.++++.||..|++|+.|..+|++..|... +.+||.++|.+.+..+|..|.+.|
T Consensus 33 ip~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~drCFsR~----------~s~yCkedFfKrfGTKCsaC~~GI 102 (383)
T KOG4577|consen 33 IPICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLADRCFSRE----------GSVYCKEDFFKRFGTKCSACQEGI 102 (383)
T ss_pred cccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHHHHHhhcC----------CceeehHHHHHHhCCcchhhcCCC
Confidence 489999999999998 478999999999999999999999988776 899999999999999999999999
Q ss_pred ce-eEEE-EcCccccccCcCCccccCCCC-CCccc-ccCCeecchhhhhhhhcCCC
Q psy10533 288 EE-RVVT-ALGKHWHVEHFVCARCEKPFL-GHRHY-EKKGLAYCETHYHQLFGNLC 339 (594)
Q Consensus 288 ~~-~~v~-a~g~~wH~~CF~C~~C~~~L~-~~~f~-~~~g~~yC~~cy~~~f~~~C 339 (594)
.+ ++|+ |.+-.||..||.|..|++.|. +.+|| ..|+++.|+.+|++.-..-|
T Consensus 103 pPtqVVRkAqd~VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLvCK~DYE~Ak~k~~ 158 (383)
T KOG4577|consen 103 PPTQVVRKAQDFVYHLHCFACFICKRQLATGDEFYLMEDARLVCKDDYETAKQKHC 158 (383)
T ss_pred ChHHHHHHhhcceeehhhhhhHhhhcccccCCeeEEeccceeehhhhHHHHHhccc
Confidence 98 5554 889999999999999999998 45676 58899999999998877665
No 11
>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=3e-13 Score=105.67 Aligned_cols=58 Identities=34% Similarity=0.973 Sum_probs=55.6
Q ss_pred ccCCCcccccCceeeecCCcccccCCcCCCCCCCCCCCCCeEEeCCccCChhHHHhhc
Q psy10533 8 CSRCNEGFEPEEKIVNSNGELWHQQCFVCAQCFRPFPGGIFYEFEGRKYCEHDFHVLF 65 (594)
Q Consensus 8 C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~~y~~~~ 65 (594)
|++|+++|.+.+.++.++|+.||+.||+|+.|+++|.+..|+..+|++||+.||.++|
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 8899999999988888999999999999999999999999999999999999999876
No 12
>KOG1700|consensus
Probab=99.24 E-value=2.1e-12 Score=126.16 Aligned_cols=162 Identities=24% Similarity=0.414 Sum_probs=110.9
Q ss_pred CCCCCcccCCCcccccCceeeecCCcccccCCcCCCCCCCCCCCCCeEEeCCccCChhHHHhhccCCcCCCCCCCccccc
Q psy10533 2 SLGNMYCSRCNEGFEPEEKIVNSNGELWHQQCFVCAQCFRPFPGGIFYEFEGRKYCEHDFHVLFAPCCGNGCPSLSTFAI 81 (594)
Q Consensus 2 ~~~~~~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~~y~~~~~p~c~~~c~~~~~~~~ 81 (594)
++...+|.+|+++||..|++ ...|..||+.||.|..|.+.|...++..+++.+||+.+|..+++|+... +
T Consensus 4 ~~~~~kc~~c~k~vy~~e~~-~~~g~~~hk~c~~c~~~~k~l~~~~~~~~e~~~yc~~~~~~~~~~~~~~------~--- 73 (200)
T KOG1700|consen 4 TGTTDKCNACGKTVYFVEKV-QKDGVDFHKECFKCEKCKKTLTLSGYSEHEGVPYCKNCHVAQFGPKGGG------F--- 73 (200)
T ss_pred ccccchhhhccCcchHHHHH-hccCcchhhhHHhccccccccccccccccccccccccchHhhhCccccc------c---
Confidence 44567999999999999888 6999999999999999999999999999999999999899999988654 0
Q ss_pred ccccccCCCCCCcccccccCCCcccccccccccccCCcccccCCCccccCCCCCCcCCCCCCCCceeeeccceEEeeEEE
Q psy10533 82 SLAGEISGWYPPCLKITMSLGNMYCFPLQRRFRARGEDRQTLTGGAWHQQCFVCAQCFRPFPGGIFYEFEGEFVIGRVIK 161 (594)
Q Consensus 82 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~i~g~~v~ 161 (594)
+ .|....+.+. .+....+.+.+.....+ ....|.. ..|..|.+.+. .-+.+.
T Consensus 74 ~-~~~~~~~~~~---~~~~~~~~~~~~~~~~~-------~~~~g~~-----~~c~~c~k~vy------------~~Ek~~ 125 (200)
T KOG1700|consen 74 G-KGFQKAGGLG---KDGKSLNESKPNQSAKF-------QVFAGEK-----EKCARCQKTVY------------PLEKVT 125 (200)
T ss_pred c-ccccccCCCC---cccccccccccccchhH-------Hhhhccc-----cccccccceee------------ehHHHh
Confidence 0 0000011110 00000000000000000 0001111 25778865542 234456
Q ss_pred cCCcccCCCccccCCCCccccccccEecCCceeecccccc
Q psy10533 162 AMNANWHPKCFRCEHCSKELADLGFIRSQGRALCHECNAQ 201 (594)
Q Consensus 162 a~~~~~H~~CF~C~~C~~~L~~~~f~~~dg~~~C~~C~~~ 201 (594)
..+..||..||+|+.|+..|+...+....+.++|...+.+
T Consensus 126 ~~~~~~hk~cfrc~~~~~~ls~~~~~~~~g~l~~~~~~~~ 165 (200)
T KOG1700|consen 126 GNGLEFHKSCFRCTHCGKKLSPKNYAALEGVLYCKHHFAQ 165 (200)
T ss_pred hhhhhhhhhheeecccccccCCcchhhcCCccccchhhhe
Confidence 6788999999999999999999999999999988765544
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=99.19 E-value=2.6e-11 Score=94.61 Aligned_cols=56 Identities=36% Similarity=0.716 Sum_probs=48.3
Q ss_pred ccccCccccCce-E-EecCceeecccccccccCCccccCcccccccCCCcCCCceeecCCEeecHhHHhhHh
Q psy10533 380 CFVCNQVIGGDL-F-TALNKAWCVHHFACSTLGKHWHVEHFVCARCEKPFLGHRHYEKKGLAYCETHYHQLF 449 (594)
Q Consensus 380 C~~C~~~I~g~~-i-~a~~k~~H~~CF~C~~C~~~l~~~~f~C~~C~~~~~~~~~~~~dg~~yC~~~y~~~f 449 (594)
|.+|+++|.+.. + .++|+.||++||+|+.|+++|. +..|++.||++||+.||.++|
T Consensus 1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~--------------~~~~~~~~~~~~C~~c~~~~f 58 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKAMGKFWHPECFKCSKCGKPLN--------------DGDFYEKDGKPYCKDCYQKRF 58 (58)
T ss_dssp BTTTSSBESSSSEEEEETTEEEETTTSBETTTTCBTT--------------TSSEEEETTEEEEHHHHHHHT
T ss_pred CCCCCCCccCcEEEEEeCCcEEEccccccCCCCCccC--------------CCeeEeECCEEECHHHHhhhC
Confidence 789999996543 3 5999999999999999988875 445999999999999999987
No 14
>KOG1700|consensus
Probab=98.95 E-value=2e-10 Score=112.25 Aligned_cols=158 Identities=21% Similarity=0.326 Sum_probs=110.6
Q ss_pred CCCCCCCCCCcce-eEEEEcCccccccCcCCccccCCCCCCcccccCCeecchhhhhhhhcCCCcccccccc-CCCCccc
Q psy10533 277 IPICGACRRPIEE-RVVTALGKHWHVEHFVCARCEKPFLGHRHYEKKGLAYCETHYHQLFGNLCFVCNQVIG-GDESHYI 354 (594)
Q Consensus 277 ~~~C~~C~~~I~~-~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~C~~C~~~i~-~~~~~~i 354 (594)
...|.+|++.+.- +.+...|..||+.||+|..|.+.|..+.+.++++.+||..+|..++++.=..=.+... ......+
T Consensus 7 ~~kc~~c~k~vy~~e~~~~~g~~~hk~c~~c~~~~k~l~~~~~~~~e~~~yc~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (200)
T KOG1700|consen 7 TDKCNACGKTVYFVEKVQKDGVDFHKECFKCEKCKKTLTLSGYSEHEGVPYCKNCHVAQFGPKGGGFGKGFQKAGGLGKD 86 (200)
T ss_pred cchhhhccCcchHHHHHhccCcchhhhHHhccccccccccccccccccccccccchHhhhCcccccccccccccCCCCcc
Confidence 3479999999876 5566899999999999999999999889999999999999888888876432222100 0000000
Q ss_pred cccceeccCCCCcCcccccccccccccccCccc-cCceEEecCceeecccccccccCCccccCcccccccCCCcCCCcee
Q psy10533 355 TSRELTYKKGLGYCESHYHQLFGNLCFVCNQVI-GGDLFTALNKAWCVHHFACSTLGKHWHVEHFVCARCEKPFLGHRHY 433 (594)
Q Consensus 355 ~~~~~~~~~g~~~C~~~~~~~~~~~C~~C~~~I-~g~~i~a~~k~~H~~CF~C~~C~~~l~~~~f~C~~C~~~~~~~~~~ 433 (594)
.+.....+....-..-........|.+|++.+ ..+.+.+.+..||..||+|+.|+..|. ...+.
T Consensus 87 -~~~~~~~~~~~~~~~~~~~g~~~~c~~c~k~vy~~Ek~~~~~~~~hk~cfrc~~~~~~ls--------------~~~~~ 151 (200)
T KOG1700|consen 87 -GKSLNESKPNQSAKFQVFAGEKEKCARCQKTVYPLEKVTGNGLEFHKSCFRCTHCGKKLS--------------PKNYA 151 (200)
T ss_pred -cccccccccccchhHHhhhccccccccccceeeehHHHhhhhhhhhhhheeecccccccC--------------Ccchh
Confidence 00000000000000001112246899999998 567788899999999999999988876 45677
Q ss_pred ecCCEeecHhHHhhHh
Q psy10533 434 EKKGLAYCETHYHQLF 449 (594)
Q Consensus 434 ~~dg~~yC~~~y~~~f 449 (594)
..+|.+||..++.++|
T Consensus 152 ~~~g~l~~~~~~~~~~ 167 (200)
T KOG1700|consen 152 ALEGVLYCKHHFAQLF 167 (200)
T ss_pred hcCCccccchhhheee
Confidence 8899999999998866
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=98.34 E-value=3.7e-07 Score=64.70 Aligned_cols=38 Identities=29% Similarity=0.912 Sum_probs=35.2
Q ss_pred cccCCCcccccCceeeecCCcccccCCcCCCCCCCCCC
Q psy10533 7 YCSRCNEGFEPEEKIVNSNGELWHQQCFVCAQCFRPFP 44 (594)
Q Consensus 7 ~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~ 44 (594)
+|.+|+++|.+.+.++.++++.||+.||+|..|+++|.
T Consensus 1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence 58999999998878889999999999999999999996
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=98.05 E-value=3.6e-06 Score=59.53 Aligned_cols=36 Identities=47% Similarity=1.038 Sum_probs=32.9
Q ss_pred CCCCCCCCcce--eEEEEcCccccccCcCCccccCCCC
Q psy10533 279 ICGACRRPIEE--RVVTALGKHWHVEHFVCARCEKPFL 314 (594)
Q Consensus 279 ~C~~C~~~I~~--~~v~a~g~~wH~~CF~C~~C~~~L~ 314 (594)
+|..|+++|.+ ..+.+.++.||+.||+|..|+++|.
T Consensus 1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence 58899999998 6788999999999999999999885
No 17
>KOG1702|consensus
Probab=97.86 E-value=1.3e-06 Score=83.06 Aligned_cols=62 Identities=21% Similarity=0.558 Sum_probs=57.1
Q ss_pred CCcccCCCcccccCceeeecCCcccccCCcCCCCCCCCCCCCCeEEeCCccCChhHHHhhccC
Q psy10533 5 NMYCSRCNEGFEPEEKIVNSNGELWHQQCFVCAQCFRPFPGGIFYEFEGRKYCEHDFHVLFAP 67 (594)
Q Consensus 5 ~~~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~~y~~~~~p 67 (594)
...|..|++.+|+.|.+ ..+++.||+.||+|..|+.+|...+|...+.+|||..+|.+..++
T Consensus 4 k~n~~~cgk~vYPvE~v-~cldk~whk~cfkce~c~mtlnmKnyKgy~kkpycn~hYpkq~at 65 (264)
T KOG1702|consen 4 KCNREDCGKTVYPVEEV-KCLDKVWHKQCFKCEVCGMTLNMKNYKGYDKKPYCNPHYPKQVAT 65 (264)
T ss_pred cchhhhhccccccHHHH-hhHHHHHHHHhheeeeccCChhhhhccccccCCCcCcccccceee
Confidence 56789999999999988 999999999999999999999999999999999999999766653
No 18
>KOG1702|consensus
Probab=95.59 E-value=0.0013 Score=63.05 Aligned_cols=59 Identities=22% Similarity=0.426 Sum_probs=51.8
Q ss_pred CCCCCCCCCcce-eEEEEcCccccccCcCCccccCCCCCCcccccCCeecchhhhhhhhc
Q psy10533 278 PICGACRRPIEE-RVVTALGKHWHVEHFVCARCEKPFLGHRHYEKKGLAYCETHYHQLFG 336 (594)
Q Consensus 278 ~~C~~C~~~I~~-~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~ 336 (594)
+.|..|++.+.+ +.|.-+++.||..||+|..|+.+|.-+.+-..+.+|||..+|.+..+
T Consensus 5 ~n~~~cgk~vYPvE~v~cldk~whk~cfkce~c~mtlnmKnyKgy~kkpycn~hYpkq~a 64 (264)
T KOG1702|consen 5 CNREDCGKTVYPVEEVKCLDKVWHKQCFKCEVCGMTLNMKNYKGYDKKPYCNPHYPKQVA 64 (264)
T ss_pred chhhhhccccccHHHHhhHHHHHHHHhheeeeccCChhhhhccccccCCCcCccccccee
Confidence 457778888777 66889999999999999999999988888889999999999987664
No 19
>KOG0490|consensus
Probab=94.88 E-value=0.0047 Score=61.65 Aligned_cols=111 Identities=20% Similarity=0.385 Sum_probs=83.1
Q ss_pred ccccccCcc-eeecCccccccCcccCCCCCCCCCCcccccCCCCcccccccccccccccCC--CCCCCCCCCCCCcce--
Q psy10533 215 CHGLIDDKP-LKFRGEVYHPYHFNCTSCGTELNSDAREVKSRPGYTANDMNELYCLRCHDK--MGIPICGACRRPIEE-- 289 (594)
Q Consensus 215 C~~~I~~~~-i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~gy~~~~~g~~yC~~c~~~--~~~~~C~~C~~~I~~-- 289 (594)
|+..|.+.. +.+.+..||..|..|..|...|... .+.|.. .+..||..++.+ ....+|.+|...|..
T Consensus 2 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~--~g~~~~~~d~~~~~~~~~rr~rt~~~~~ql~ 73 (235)
T KOG0490|consen 2 CGRQILDRYLLRVLDRYWHASCLKCAECDNPLGVG------DTCFSK--DGSIYCKRDYQREFKFSKRCARCKFTISQLD 73 (235)
T ss_pred CCccccchHHhhcccHHHHHHHHhhhhhcchhccC------CCcccC--CCcccccccchhhhhccccccCCCCCcCHHH
Confidence 566777765 5567999999999999999999711 122222 389999999987 678899999999865
Q ss_pred eEEEEcCccccccCcCCccccCCCC-CCcccccCC-eecchhhhhhh
Q psy10533 290 RVVTALGKHWHVEHFVCARCEKPFL-GHRHYEKKG-LAYCETHYHQL 334 (594)
Q Consensus 290 ~~v~a~g~~wH~~CF~C~~C~~~L~-~~~f~~~~g-~~yC~~cy~~~ 334 (594)
....+..+. |..||.|..|...+. ...+.+.+. +.+|.+++.+.
T Consensus 74 ~ler~f~~~-h~Pd~~~r~~la~~~~~~e~rVqvwFqnrrak~r~~~ 119 (235)
T KOG0490|consen 74 ELERAFEKV-HLPCFACRECLALLLTGDEFRVQVWFQNRRAKDRKEE 119 (235)
T ss_pred HHHHhhcCC-CcCccchHHHHhhcCCCCeeeeehhhhhhcHhhhhhh
Confidence 344577777 999999999988766 335555554 88888877543
No 20
>KOG0490|consensus
Probab=94.88 E-value=0.0043 Score=61.95 Aligned_cols=111 Identities=25% Similarity=0.488 Sum_probs=79.9
Q ss_pred CCCCcceeE-EEEcCccccccCcCCccccCCCC-CCcccccCCeecchhhhhh--hhcCCCccccccccCCCCccccccc
Q psy10533 283 CRRPIEERV-VTALGKHWHVEHFVCARCEKPFL-GHRHYEKKGLAYCETHYHQ--LFGNLCFVCNQVIGGDESHYITSRE 358 (594)
Q Consensus 283 C~~~I~~~~-v~a~g~~wH~~CF~C~~C~~~L~-~~~f~~~~g~~yC~~cy~~--~f~~~C~~C~~~i~~~~~~~i~~~~ 358 (594)
|+..|.+.+ +.+.+..||..|..|..|...|. ....+.++|..||..+|.. .+..+
T Consensus 2 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~d~~~~~~~~~r-------------------- 61 (235)
T KOG0490|consen 2 CGRQILDRYLLRVLDRYWHASCLKCAECDNPLGVGDTCFSKDGSIYCKRDYQREFKFSKR-------------------- 61 (235)
T ss_pred CCccccchHHhhcccHHHHHHHHhhhhhcchhccCCCcccCCCcccccccchhhhhcccc--------------------
Confidence 666777743 55679999999999999999997 2344444999999998887 44444
Q ss_pred eeccCCCCcCcccccccccccccccCccc--cCceEEecCceeecccccccccCCccccCcccccccCCCcCCCceeecC
Q psy10533 359 LTYKKGLGYCESHYHQLFGNLCFVCNQVI--GGDLFTALNKAWCVHHFACSTLGKHWHVEHFVCARCEKPFLGHRHYEKK 436 (594)
Q Consensus 359 ~~~~~g~~~C~~~~~~~~~~~C~~C~~~I--~g~~i~a~~k~~H~~CF~C~~C~~~l~~~~f~C~~C~~~~~~~~~~~~d 436 (594)
|.+|...| .++...+..+. |..||.|..|...+- .+..+.+.+
T Consensus 62 ---------------------r~rt~~~~~ql~~ler~f~~~-h~Pd~~~r~~la~~~-------------~~~e~rVqv 106 (235)
T KOG0490|consen 62 ---------------------CARCKFTISQLDELERAFEKV-HLPCFACRECLALLL-------------TGDEFRVQV 106 (235)
T ss_pred ---------------------ccCCCCCcCHHHHHHHhhcCC-CcCccchHHHHhhcC-------------CCCeeeeeh
Confidence 46666666 23455677777 999999988877653 345555555
Q ss_pred C-EeecHhHHhhH
Q psy10533 437 G-LAYCETHYHQL 448 (594)
Q Consensus 437 g-~~yC~~~y~~~ 448 (594)
. +.+|..++.+.
T Consensus 107 wFqnrrak~r~~~ 119 (235)
T KOG0490|consen 107 WFQNRRAKDRKEE 119 (235)
T ss_pred hhhhhcHhhhhhh
Confidence 5 88898888653
No 21
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=79.84 E-value=1 Score=28.27 Aligned_cols=22 Identities=23% Similarity=0.673 Sum_probs=16.1
Q ss_pred ccccCCccccCcccccccCCCc
Q psy10533 406 CSTLGKHWHVEHFVCARCEKPF 427 (594)
Q Consensus 406 C~~C~~~l~~~~f~C~~C~~~~ 427 (594)
|..|+..+.++...|..|+.+|
T Consensus 2 Cp~CG~~~~~~~~fC~~CG~~l 23 (23)
T PF13240_consen 2 CPNCGAEIEDDAKFCPNCGTPL 23 (23)
T ss_pred CcccCCCCCCcCcchhhhCCcC
Confidence 6677777777777777777664
No 22
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=78.13 E-value=1.2 Score=28.75 Aligned_cols=22 Identities=18% Similarity=0.558 Sum_probs=14.7
Q ss_pred ccccCCccccCcccccccCCCc
Q psy10533 406 CSTLGKHWHVEHFVCARCEKPF 427 (594)
Q Consensus 406 C~~C~~~l~~~~f~C~~C~~~~ 427 (594)
|..|+..+..+.-+|..|+.+|
T Consensus 5 Cp~Cg~~~~~~~~fC~~CG~~L 26 (26)
T PF13248_consen 5 CPNCGAEIDPDAKFCPNCGAKL 26 (26)
T ss_pred CcccCCcCCcccccChhhCCCC
Confidence 5566666666667777777664
No 23
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=74.67 E-value=2.2 Score=32.71 Aligned_cols=43 Identities=28% Similarity=0.694 Sum_probs=31.6
Q ss_pred CCCCCCcccCCCcccccCceeeecC--CcccccCCc----CCCC--CCCCC
Q psy10533 1 MSLGNMYCSRCNEGFEPEEKIVNSN--GELWHQQCF----VCAQ--CFRPF 43 (594)
Q Consensus 1 ~~~~~~~C~~C~~~i~~~e~~~~~~--~~~~H~~CF----~C~~--C~~~L 43 (594)
|-....+|..|+++|...+.+|... +..||++|- .|.. |+..+
T Consensus 1 ~~~~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~g~C~~~~c~~~~ 51 (54)
T PF14446_consen 1 MNYEGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKAGGCINYSCGTGF 51 (54)
T ss_pred CCccCccChhhCCcccCCCCEEECCCCCCcccHHHHhhCCceEeccCCCCc
Confidence 4456789999999998677776665 578999887 5655 55543
No 24
>KOG2462|consensus
Probab=73.12 E-value=0.7 Score=46.96 Aligned_cols=132 Identities=17% Similarity=0.290 Sum_probs=77.2
Q ss_pred CCCccccCCCCccccccccEecCCceeeccccccccccccCccccccccccccCcceeecCccccccCcccCCCCCCCCC
Q psy10533 168 HPKCFRCEHCSKELADLGFIRSQGRALCHECNAQAKAVGFGKHMCHKCHGLIDDKPLKFRGEVYHPYHFNCTSCGTELNS 247 (594)
Q Consensus 168 H~~CF~C~~C~~~L~~~~f~~~dg~~~C~~C~~~~~~~~~~~~~C~~C~~~I~~~~i~~~~~~~H~~CF~C~~C~~~L~~ 247 (594)
-...++|.+|++.++...=..+-.+..|...-.+ +..|..|++.-....-..+-..-|.-=+.|..|++.++-
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~k-------a~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSR 199 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKK-------AFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSR 199 (279)
T ss_pred cCCceeccccccccccccccchhhcccccccccc-------cccCCCCCceeeehHHHhhHhhccCCCcccccccccccc
Confidence 3467899999999976543444455666544433 478999998765443222333445555789999998863
Q ss_pred CcccccCCCCcccccccccccccccCCCCCCCCCCCCCCcceeE-EEEcC-ccccccCcCCccccCCCCCCcccc
Q psy10533 248 DAREVKSRPGYTANDMNELYCLRCHDKMGIPICGACRRPIEERV-VTALG-KHWHVEHFVCARCEKPFLGHRHYE 320 (594)
Q Consensus 248 ~~~~~~~~~gy~~~~~g~~yC~~c~~~~~~~~C~~C~~~I~~~~-v~a~g-~~wH~~CF~C~~C~~~L~~~~f~~ 320 (594)
.=.....-+.-+ ..+|| .|+.|++...++. |+|-= -.=+..-|.|..|++.+.-..|..
T Consensus 200 PWLLQGHiRTHT---GEKPF-----------~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLn 260 (279)
T KOG2462|consen 200 PWLLQGHIRTHT---GEKPF-----------SCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLN 260 (279)
T ss_pred hHHhhccccccc---CCCCc-----------cCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHH
Confidence 211100000000 12332 5889999887743 33321 122445789999998876544443
No 25
>PF12773 DZR: Double zinc ribbon
Probab=68.12 E-value=5.3 Score=29.71 Aligned_cols=10 Identities=20% Similarity=0.634 Sum_probs=5.4
Q ss_pred cccccCcccc
Q psy10533 379 LCFVCNQVIG 388 (594)
Q Consensus 379 ~C~~C~~~I~ 388 (594)
.|..|+.++.
T Consensus 14 fC~~CG~~l~ 23 (50)
T PF12773_consen 14 FCPHCGTPLP 23 (50)
T ss_pred CChhhcCChh
Confidence 4555555554
No 26
>PF12773 DZR: Double zinc ribbon
Probab=67.81 E-value=2.5 Score=31.49 Aligned_cols=23 Identities=22% Similarity=0.541 Sum_probs=17.9
Q ss_pred ccccCCccccCcccccccCCCcC
Q psy10533 406 CSTLGKHWHVEHFVCARCEKPFL 428 (594)
Q Consensus 406 C~~C~~~l~~~~f~C~~C~~~~~ 428 (594)
|..|+..+.++.-+|..|+.++.
T Consensus 1 Cp~Cg~~~~~~~~fC~~CG~~l~ 23 (50)
T PF12773_consen 1 CPHCGTPNPDDAKFCPHCGTPLP 23 (50)
T ss_pred CCCcCCcCCccccCChhhcCChh
Confidence 55677777777888888888876
No 27
>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=67.12 E-value=2.7 Score=29.71 Aligned_cols=29 Identities=21% Similarity=0.532 Sum_probs=22.0
Q ss_pred ccCCCcccccCceeeecCCcccccCCcCC
Q psy10533 8 CSRCNEGFEPEEKIVNSNGELWHQQCFVC 36 (594)
Q Consensus 8 C~~C~~~i~~~e~~~~~~~~~~H~~CF~C 36 (594)
|.-|+++|.+.-.++...++.||.-|-+|
T Consensus 1 Cd~CG~~I~~eP~~~k~~~~~y~fCC~tC 29 (37)
T PF08394_consen 1 CDYCGGEITGEPIVVKIGNKVYYFCCPTC 29 (37)
T ss_pred CCccCCcccCCEEEEEECCeEEEEECHHH
Confidence 67788888877777777888888666555
No 28
>PRK02935 hypothetical protein; Provisional
Probab=56.69 E-value=8 Score=33.72 Aligned_cols=23 Identities=39% Similarity=0.624 Sum_probs=19.5
Q ss_pred CCCccCCccccccccccccccccCCCCccccccccc
Q psy10533 503 NLCFVCNQDHTISRHVSSRESVLSSDSSVFGLRHYE 538 (594)
Q Consensus 503 ~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 538 (594)
|.|--|++|+|+ |++++|.+|-|
T Consensus 87 D~CM~C~~PLTL-------------d~~legkefde 109 (110)
T PRK02935 87 DACMHCNQPLTL-------------DRSLEGKEFDE 109 (110)
T ss_pred eecCcCCCcCCc-------------CccccccCcCc
Confidence 589999999985 78999998755
No 29
>KOG2462|consensus
Probab=52.37 E-value=6.2 Score=40.30 Aligned_cols=29 Identities=10% Similarity=0.307 Sum_probs=17.2
Q ss_pred ccCcCCccccCCCCCCcccccCCeecchh
Q psy10533 301 VEHFVCARCEKPFLGHRHYEKKGLAYCET 329 (594)
Q Consensus 301 ~~CF~C~~C~~~L~~~~f~~~~g~~yC~~ 329 (594)
...+.|..|++.+....-..+-.+..|..
T Consensus 128 ~~r~~c~eCgk~ysT~snLsrHkQ~H~~~ 156 (279)
T KOG2462|consen 128 HPRYKCPECGKSYSTSSNLSRHKQTHRSL 156 (279)
T ss_pred CCceeccccccccccccccchhhcccccc
Confidence 45677888888776544444444554443
No 30
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=49.71 E-value=9.3 Score=29.37 Aligned_cols=9 Identities=11% Similarity=0.442 Sum_probs=5.1
Q ss_pred eecHhHHhh
Q psy10533 439 AYCETHYHQ 447 (594)
Q Consensus 439 ~yC~~~y~~ 447 (594)
||-+.||.+
T Consensus 30 pyHR~C~~~ 38 (54)
T PF14446_consen 30 PYHRDCWEK 38 (54)
T ss_pred cccHHHHhh
Confidence 355666654
No 31
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=48.50 E-value=18 Score=28.84 Aligned_cols=50 Identities=18% Similarity=0.399 Sum_probs=21.7
Q ss_pred cccCCCCccccccccEecCCceeeccccccccccccCccccccccccccCcceee
Q psy10533 172 FRCEHCSKELADLGFIRSQGRALCHECNAQAKAVGFGKHMCHKCHGLIDDKPLKF 226 (594)
Q Consensus 172 F~C~~C~~~L~~~~f~~~dg~~~C~~C~~~~~~~~~~~~~C~~C~~~I~~~~i~~ 226 (594)
++|+.|...|...-....=++.+|..|-.+..+ ..|..|+.+-..+.+..
T Consensus 8 LrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~-----~~CPvC~~Paw~qD~~~ 57 (65)
T PF14835_consen 8 LRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG-----SECPVCHTPAWIQDIQI 57 (65)
T ss_dssp TS-SSS-S--SS-B---SSS--B-TTTGGGGTT-----TB-SSS--B-S-SS---
T ss_pred cCCcHHHHHhcCCceeccCccHHHHHHhHHhcC-----CCCCCcCChHHHHHHHh
Confidence 467777777654333445678999999877443 56999999887666543
No 32
>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=45.65 E-value=16 Score=25.84 Aligned_cols=23 Identities=26% Similarity=0.439 Sum_probs=16.9
Q ss_pred ccccCccccCceE--EecCceeecc
Q psy10533 380 CFVCNQVIGGDLF--TALNKAWCVH 402 (594)
Q Consensus 380 C~~C~~~I~g~~i--~a~~k~~H~~ 402 (594)
|.-|+.+|.|+-+ ...++.||.-
T Consensus 1 Cd~CG~~I~~eP~~~k~~~~~y~fC 25 (37)
T PF08394_consen 1 CDYCGGEITGEPIVVKIGNKVYYFC 25 (37)
T ss_pred CCccCCcccCCEEEEEECCeEEEEE
Confidence 5679999987754 4569988743
No 33
>KOG0320|consensus
Probab=43.42 E-value=6.7 Score=37.48 Aligned_cols=52 Identities=19% Similarity=0.489 Sum_probs=41.0
Q ss_pred CCccccCCCCccccccc-cEecCCceeeccccccccccccCccccccccccccCcc
Q psy10533 169 PKCFRCEHCSKELADLG-FIRSQGRALCHECNAQAKAVGFGKHMCHKCHGLIDDKP 223 (594)
Q Consensus 169 ~~CF~C~~C~~~L~~~~-f~~~dg~~~C~~C~~~~~~~~~~~~~C~~C~~~I~~~~ 223 (594)
..+|+|..|-.+..... +..+-|+++|..|-+... .....|..|++.|+.+.
T Consensus 129 ~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~al---k~~~~CP~C~kkIt~k~ 181 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDAL---KNTNKCPTCRKKITHKQ 181 (187)
T ss_pred ccccCCCceecchhhccccccccchhHHHHHHHHHH---HhCCCCCCcccccchhh
Confidence 46788999888877665 568889999999988754 34688999999887544
No 34
>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=42.17 E-value=16 Score=23.29 Aligned_cols=8 Identities=38% Similarity=1.119 Sum_probs=4.3
Q ss_pred cccccccC
Q psy10533 417 HFVCARCE 424 (594)
Q Consensus 417 ~f~C~~C~ 424 (594)
.|.|++|+
T Consensus 16 ~f~CPnCG 23 (24)
T PF07754_consen 16 PFPCPNCG 23 (24)
T ss_pred eEeCCCCC
Confidence 35565554
No 35
>KOG0823|consensus
Probab=41.00 E-value=16 Score=36.39 Aligned_cols=59 Identities=20% Similarity=0.383 Sum_probs=42.6
Q ss_pred CccccCCCCccccccccEecCCceeeccccccccccccCccccccccccccCcc-eeecCc
Q psy10533 170 KCFRCEHCSKELADLGFIRSQGRALCHECNAQAKAVGFGKHMCHKCHGLIDDKP-LKFRGE 229 (594)
Q Consensus 170 ~CF~C~~C~~~L~~~~f~~~dg~~~C~~C~~~~~~~~~~~~~C~~C~~~I~~~~-i~~~~~ 229 (594)
..|.|..|-. ++..+.+..=|++||++|--+...+......|..|+..|..+. |.+-|+
T Consensus 46 ~~FdCNICLd-~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGr 105 (230)
T KOG0823|consen 46 GFFDCNICLD-LAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGR 105 (230)
T ss_pred Cceeeeeecc-ccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeecc
Confidence 4577888743 3445677888999999997776656667788999999998554 444333
No 36
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=40.85 E-value=12 Score=32.56 Aligned_cols=27 Identities=30% Similarity=0.621 Sum_probs=23.1
Q ss_pred cccccCccc-cCceEEec-Cceeeccccc
Q psy10533 379 LCFVCNQVI-GGDLFTAL-NKAWCVHHFA 405 (594)
Q Consensus 379 ~C~~C~~~I-~g~~i~a~-~k~~H~~CF~ 405 (594)
+|..|+++| .|+.++.. +..-|.+||+
T Consensus 4 kC~iCg~~I~~gqlFTF~~kG~VH~~C~~ 32 (101)
T PF09943_consen 4 KCYICGKPIYEGQLFTFTKKGPVHYECFR 32 (101)
T ss_pred EEEecCCeeeecceEEEecCCcEeHHHHH
Confidence 799999999 68888865 7888999986
No 37
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=39.31 E-value=9.2 Score=35.78 Aligned_cols=50 Identities=34% Similarity=0.770 Sum_probs=36.6
Q ss_pred cccccccccCCCCCCCCCCCCCCcceeE----EEEcCccccccCcCCccccCCCCC
Q psy10533 264 NELYCLRCHDKMGIPICGACRRPIEERV----VTALGKHWHVEHFVCARCEKPFLG 315 (594)
Q Consensus 264 g~~yC~~c~~~~~~~~C~~C~~~I~~~~----v~a~g~~wH~~CF~C~~C~~~L~~ 315 (594)
..-||..|-.+. ...|..|+.+|+|.+ +..++..|++-- -|..|+++...
T Consensus 27 ~~~fC~kCG~~t-I~~Cp~C~~~IrG~y~v~gv~~~g~~~~~Ps-YC~~CGkpyPW 80 (158)
T PF10083_consen 27 REKFCSKCGAKT-ITSCPNCSTPIRGDYHVEGVFGLGGHYEAPS-YCHNCGKPYPW 80 (158)
T ss_pred HHHHHHHhhHHH-HHHCcCCCCCCCCceecCCeeeeCCCCCCCh-hHHhCCCCCch
Confidence 456898887754 567999999999944 456677777433 37888888763
No 38
>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=38.78 E-value=25 Score=30.19 Aligned_cols=28 Identities=18% Similarity=0.469 Sum_probs=20.4
Q ss_pred cccccccCccccCceEEec--Cceeecccc
Q psy10533 377 GNLCFVCNQVIGGDLFTAL--NKAWCVHHF 404 (594)
Q Consensus 377 ~~~C~~C~~~I~g~~i~a~--~k~~H~~CF 404 (594)
...|..|+++|....+... |..+|..|+
T Consensus 78 ~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~ 107 (109)
T PF10367_consen 78 STKCSVCGKPLGNSVFVVFPCGHVVHYSCI 107 (109)
T ss_pred CCCccCcCCcCCCceEEEeCCCeEEecccc
Confidence 3589999999976554443 677887775
No 39
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=38.15 E-value=23 Score=27.68 Aligned_cols=12 Identities=25% Similarity=0.454 Sum_probs=8.7
Q ss_pred ccccccCccccC
Q psy10533 378 NLCFVCNQVIGG 389 (594)
Q Consensus 378 ~~C~~C~~~I~g 389 (594)
.+|.+|+..|.+
T Consensus 8 ~~CtSCg~~i~~ 19 (59)
T PRK14890 8 PKCTSCGIEIAP 19 (59)
T ss_pred ccccCCCCcccC
Confidence 478888888753
No 40
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=36.51 E-value=18 Score=31.97 Aligned_cols=27 Identities=30% Similarity=0.491 Sum_probs=21.3
Q ss_pred CCCccCCccccccccccccccccCCCCcccccccccccCc
Q psy10533 503 NLCFVCNQDHTISRHVSSRESVLSSDSSVFGLRHYEKNGL 542 (594)
Q Consensus 503 ~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 542 (594)
+.|--|++|+|+ |++++|..|=|+-++
T Consensus 86 D~CM~C~~pLTL-------------d~~legkef~~~yn~ 112 (114)
T PF11023_consen 86 DACMHCKEPLTL-------------DPSLEGKEFDEKYNK 112 (114)
T ss_pred hccCcCCCcCcc-------------CchhhcchhhHhhcc
Confidence 488999999984 889999988665443
No 41
>COG2191 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]
Probab=36.40 E-value=17 Score=35.53 Aligned_cols=30 Identities=20% Similarity=0.680 Sum_probs=27.2
Q ss_pred cccCCCCccccccccEecCCceeecccccc
Q psy10533 172 FRCEHCSKELADLGFIRSQGRALCHECNAQ 201 (594)
Q Consensus 172 F~C~~C~~~L~~~~f~~~dg~~~C~~C~~~ 201 (594)
-+|++|+.......-...||+++|+.|+.+
T Consensus 173 v~C~kCGE~~~e~~~~~~ng~~vC~~C~~~ 202 (206)
T COG2191 173 VRCSKCGELFMEPRAVVLNGKPVCKPCAEK 202 (206)
T ss_pred eeccccCcccccchhhhcCCceeccccccc
Confidence 579999999998888889999999999975
No 42
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=35.43 E-value=58 Score=24.01 Aligned_cols=43 Identities=21% Similarity=0.335 Sum_probs=30.2
Q ss_pred ccccccCCCcCCCceeecCCEe-ecHhHHhhHh--CCCCCcCCCCcc
Q psy10533 418 FVCARCEKPFLGHRHYEKKGLA-YCETHYHQLF--GNLCFVCNQNHT 461 (594)
Q Consensus 418 f~C~~C~~~~~~~~~~~~dg~~-yC~~~y~~~f--~~~C~~C~~~i~ 461 (594)
..|.-|.+.... ..+..=|.. +|..++.++. ..+|..|.++|+
T Consensus 3 ~~C~iC~~~~~~-~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 3 EECPICFENPRD-VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp SB-TTTSSSBSS-EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred CCCccCCccCCc-eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 456666666544 345567888 9999999884 567999999875
No 43
>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=35.29 E-value=26 Score=25.68 Aligned_cols=19 Identities=26% Similarity=0.443 Sum_probs=7.8
Q ss_pred ccccCCccccCcccccccC
Q psy10533 406 CSTLGKHWHVEHFVCARCE 424 (594)
Q Consensus 406 C~~C~~~l~~~~f~C~~C~ 424 (594)
|..|++.+....+.|..|.
T Consensus 3 C~~C~~~i~g~r~~C~~C~ 21 (46)
T cd02249 3 CDGCLKPIVGVRYHCLVCE 21 (46)
T ss_pred CcCCCCCCcCCEEECCCCC
Confidence 3444443333344444443
No 44
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=35.18 E-value=26 Score=26.93 Aligned_cols=46 Identities=11% Similarity=0.067 Sum_probs=31.2
Q ss_pred cccCCCCccccccccEecCCceeeccccccccccccCccccccccccccC
Q psy10533 172 FRCEHCSKELADLGFIRSQGRALCHECNAQAKAVGFGKHMCHKCHGLIDD 221 (594)
Q Consensus 172 F~C~~C~~~L~~~~f~~~dg~~~C~~C~~~~~~~~~~~~~C~~C~~~I~~ 221 (594)
|.|..|+..+.+ +.....|+.||..|..+... ....|..|++++..
T Consensus 2 ~~Cpi~~~~~~~-Pv~~~~G~v~~~~~i~~~~~---~~~~cP~~~~~~~~ 47 (63)
T smart00504 2 FLCPISLEVMKD-PVILPSGQTYERRAIEKWLL---SHGTDPVTGQPLTH 47 (63)
T ss_pred cCCcCCCCcCCC-CEECCCCCEEeHHHHHHHHH---HCCCCCCCcCCCCh
Confidence 457778777766 45666789999888776542 13567777776643
No 45
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=34.46 E-value=10 Score=39.42 Aligned_cols=74 Identities=18% Similarity=0.378 Sum_probs=33.7
Q ss_pred ccccccCccccCceEEec---CceeecccccccccCCccccCcccccccCCCcCCC-ceeecCCEeecHhHHhhHhCCCC
Q psy10533 378 NLCFVCNQVIGGDLFTAL---NKAWCVHHFACSTLGKHWHVEHFVCARCEKPFLGH-RHYEKKGLAYCETHYHQLFGNLC 453 (594)
Q Consensus 378 ~~C~~C~~~I~g~~i~a~---~k~~H~~CF~C~~C~~~l~~~~f~C~~C~~~~~~~-~~~~~dg~~yC~~~y~~~f~~~C 453 (594)
..|+.|+.+=.-.+|... |+.| ..|+.|+..|+-....|..|+..-... .++..++.+ ......|
T Consensus 173 g~CPvCGs~P~~s~l~~~~~~G~R~----L~Cs~C~t~W~~~R~~Cp~Cg~~~~~~l~~~~~e~~~-------~~rve~C 241 (290)
T PF04216_consen 173 GYCPVCGSPPVLSVLRGGEREGKRY----LHCSLCGTEWRFVRIKCPYCGNTDHEKLEYFTVEGEP-------AYRVEVC 241 (290)
T ss_dssp SS-TTT---EEEEEEE------EEE----EEETTT--EEE--TTS-TTT---SS-EEE---------------SEEEEEE
T ss_pred CcCCCCCCcCceEEEecCCCCccEE----EEcCCCCCeeeecCCCCcCCCCCCCcceeeEecCCCC-------cEEEEEC
Confidence 478899876322233332 4544 469999999999999999999764433 233244544 2233479
Q ss_pred CcCCCCccc
Q psy10533 454 FVCNQNHTI 462 (594)
Q Consensus 454 ~~C~~~i~~ 462 (594)
..|+.+|.+
T Consensus 242 ~~C~~YlK~ 250 (290)
T PF04216_consen 242 ESCGSYLKT 250 (290)
T ss_dssp TTTTEEEEE
T ss_pred CcccchHHH
Confidence 999998763
No 46
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=33.60 E-value=41 Score=35.34 Aligned_cols=74 Identities=18% Similarity=0.402 Sum_probs=47.5
Q ss_pred ccccccCccccCceEEe---cCceeecccccccccCCccccCcccccccCCCcCCCceeecCCEeecHhHHhhHhCCCCC
Q psy10533 378 NLCFVCNQVIGGDLFTA---LNKAWCVHHFACSTLGKHWHVEHFVCARCEKPFLGHRHYEKKGLAYCETHYHQLFGNLCF 454 (594)
Q Consensus 378 ~~C~~C~~~I~g~~i~a---~~k~~H~~CF~C~~C~~~l~~~~f~C~~C~~~~~~~~~~~~dg~~yC~~~y~~~f~~~C~ 454 (594)
..|+.|+..=...+|.. .|..| ..|+.|+..|+.....|..|+.. ....|+..++.- .......|.
T Consensus 188 ~~CPvCGs~P~~s~v~~~~~~G~Ry----L~CslC~teW~~~R~~C~~Cg~~-~~l~y~~~~~~~------~~~r~e~C~ 256 (309)
T PRK03564 188 QFCPVCGSMPVSSVVQIGTTQGLRY----LHCNLCESEWHVVRVKCSNCEQS-GKLHYWSLDSEQ------AAVKAESCG 256 (309)
T ss_pred CCCCCCCCcchhheeeccCCCCceE----EEcCCCCCcccccCccCCCCCCC-CceeeeeecCCC------cceEeeecc
Confidence 47888877532223322 34444 46899999999999999999974 334455433320 113456799
Q ss_pred cCCCCccc
Q psy10533 455 VCNQNHTI 462 (594)
Q Consensus 455 ~C~~~i~~ 462 (594)
.|+.++.+
T Consensus 257 ~C~~YlK~ 264 (309)
T PRK03564 257 DCGTYLKI 264 (309)
T ss_pred ccccccee
Confidence 99998764
No 47
>COG1644 RPB10 DNA-directed RNA polymerase, subunit N (RpoN/RPB10) [Transcription]
Probab=33.56 E-value=13 Score=29.32 Aligned_cols=15 Identities=40% Similarity=0.917 Sum_probs=12.9
Q ss_pred hhhcccccccccccC
Q psy10533 552 LFGNLCFVCNQVIGG 566 (594)
Q Consensus 552 ~~~~~~~~c~~~~~~ 566 (594)
+++-||+.|||+|++
T Consensus 2 iiPiRCFsCGkvi~~ 16 (63)
T COG1644 2 IIPVRCFSCGKVIGH 16 (63)
T ss_pred CCceEeecCCCCHHH
Confidence 577899999999965
No 48
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=32.33 E-value=44 Score=24.08 Aligned_cols=39 Identities=21% Similarity=0.534 Sum_probs=25.0
Q ss_pred ccccCCCcC--CCceeecCCEeecHhHHhhHh--CCCCCcCCC
Q psy10533 420 CARCEKPFL--GHRHYEKKGLAYCETHYHQLF--GNLCFVCNQ 458 (594)
Q Consensus 420 C~~C~~~~~--~~~~~~~dg~~yC~~~y~~~f--~~~C~~C~~ 458 (594)
|..|.+++. ...+...=|..+|+.+..++. ...|..|++
T Consensus 2 C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 2 CNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 344445541 223445668889999998887 666877764
No 49
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=32.29 E-value=22 Score=26.01 Aligned_cols=8 Identities=25% Similarity=0.621 Sum_probs=3.3
Q ss_pred CCCcCCCC
Q psy10533 452 LCFVCNQN 459 (594)
Q Consensus 452 ~C~~C~~~ 459 (594)
+|..|+.+
T Consensus 23 ~Cp~CG~~ 30 (46)
T PRK00398 23 RCPYCGYR 30 (46)
T ss_pred ECCCCCCe
Confidence 34444443
No 50
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=32.03 E-value=31 Score=22.38 Aligned_cols=22 Identities=23% Similarity=0.528 Sum_probs=14.2
Q ss_pred ccccCCccccCcccccccCCCc
Q psy10533 406 CSTLGKHWHVEHFVCARCEKPF 427 (594)
Q Consensus 406 C~~C~~~l~~~~f~C~~C~~~~ 427 (594)
|..|++.+......|..|+-.|
T Consensus 3 CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 3 CPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred CCCCcCCchhhcCcCCCCCCCC
Confidence 5566666666666777776544
No 51
>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=31.85 E-value=26 Score=29.86 Aligned_cols=36 Identities=28% Similarity=0.756 Sum_probs=26.5
Q ss_pred ccCCCCccccccccEecCCceeeccccccccccccCccccccccccccC
Q psy10533 173 RCEHCSKELADLGFIRSQGRALCHECNAQAKAVGFGKHMCHKCHGLIDD 221 (594)
Q Consensus 173 ~C~~C~~~L~~~~f~~~dg~~~C~~C~~~~~~~~~~~~~C~~C~~~I~~ 221 (594)
+|..|...+.. .+.-||..|.-+ ..+|+-|++.|.+
T Consensus 46 ~C~~CK~~v~q------~g~~YCq~CAYk-------kGiCamCGKki~d 81 (90)
T PF10235_consen 46 KCKICKTKVHQ------PGAKYCQTCAYK-------KGICAMCGKKILD 81 (90)
T ss_pred ccccccccccc------CCCccChhhhcc-------cCcccccCCeecc
Confidence 47777766654 467899999543 4789999998854
No 52
>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=31.81 E-value=22 Score=24.90 Aligned_cols=22 Identities=32% Similarity=0.694 Sum_probs=16.4
Q ss_pred CCCCCCCCCCCCCeEEeCCccCChhH
Q psy10533 35 VCAQCFRPFPGGIFYEFEGRKYCEHD 60 (594)
Q Consensus 35 ~C~~C~~~L~~~~~~~~~~~~yC~~~ 60 (594)
.|..|+.. .|...||..||.+|
T Consensus 10 ~C~~C~~~----~~~~~dG~~yC~~c 31 (36)
T PF11781_consen 10 PCPVCGSR----WFYSDDGFYYCDRC 31 (36)
T ss_pred cCCCCCCe----EeEccCCEEEhhhC
Confidence 47777766 56788899999765
No 53
>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=31.40 E-value=13 Score=25.72 Aligned_cols=28 Identities=21% Similarity=0.510 Sum_probs=19.9
Q ss_pred ccccCCCcCCCceeecCCEeecHhHHhh
Q psy10533 420 CARCEKPFLGHRHYEKKGLAYCETHYHQ 447 (594)
Q Consensus 420 C~~C~~~~~~~~~~~~dg~~yC~~~y~~ 447 (594)
|..|+.+|...+.....+..+|..|...
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 7777777777776777888888888765
No 54
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=30.48 E-value=47 Score=38.62 Aligned_cols=37 Identities=19% Similarity=0.430 Sum_probs=26.5
Q ss_pred cccccCccccCceEEecCceeecccccccccCCccccCcccccccCCCcCC
Q psy10533 379 LCFVCNQVIGGDLFTALNKAWCVHHFACSTLGKHWHVEHFVCARCEKPFLG 429 (594)
Q Consensus 379 ~C~~C~~~I~g~~i~a~~k~~H~~CF~C~~C~~~l~~~~f~C~~C~~~~~~ 429 (594)
-|..|+.++.. -.|..||..+..+...|.+|+.++..
T Consensus 17 FC~~CG~~l~~--------------~~Cp~CG~~~~~~~~fC~~CG~~~~~ 53 (645)
T PRK14559 17 FCQKCGTSLTH--------------KPCPQCGTEVPVDEAHCPNCGAETGT 53 (645)
T ss_pred cccccCCCCCC--------------CcCCCCCCCCCcccccccccCCcccc
Confidence 47777776631 14778888888888888888887654
No 55
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=29.52 E-value=35 Score=26.76 Aligned_cols=10 Identities=30% Similarity=0.823 Sum_probs=7.3
Q ss_pred ccccccCccc
Q psy10533 378 NLCFVCNQVI 387 (594)
Q Consensus 378 ~~C~~C~~~I 387 (594)
+.|.+|+..|
T Consensus 10 ~~CtSCg~~i 19 (61)
T COG2888 10 PVCTSCGREI 19 (61)
T ss_pred ceeccCCCEe
Confidence 4777777777
No 56
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=29.16 E-value=88 Score=23.88 Aligned_cols=43 Identities=16% Similarity=0.105 Sum_probs=30.4
Q ss_pred ccccccCCCcCCCceeecCCEeecHhHHhhHhC--CCCCcCCCCcc
Q psy10533 418 FVCARCEKPFLGHRHYEKKGLAYCETHYHQLFG--NLCFVCNQNHT 461 (594)
Q Consensus 418 f~C~~C~~~~~~~~~~~~dg~~yC~~~y~~~f~--~~C~~C~~~i~ 461 (594)
+.|+-|.+++.+ ......|..||+.+..+.+. ..|..|+++++
T Consensus 2 ~~Cpi~~~~~~~-Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKD-PVILPSGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCC-CEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 456666666654 45667899999999886553 45888887764
No 57
>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=28.97 E-value=35 Score=27.70 Aligned_cols=13 Identities=54% Similarity=1.255 Sum_probs=4.6
Q ss_pred cccccccccccCc
Q psy10533 210 HMCHKCHGLIDDK 222 (594)
Q Consensus 210 ~~C~~C~~~I~~~ 222 (594)
..|..|++.|+.+
T Consensus 51 YFC~~c~gLiSKk 63 (70)
T PF07191_consen 51 YFCNHCHGLISKK 63 (70)
T ss_dssp EE-TTTT-EE-TT
T ss_pred eeeccCCceeecc
Confidence 3445555555433
No 58
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=27.93 E-value=50 Score=38.35 Aligned_cols=8 Identities=25% Similarity=0.675 Sum_probs=4.0
Q ss_pred CCCcCCCC
Q psy10533 452 LCFVCNQN 459 (594)
Q Consensus 452 ~C~~C~~~ 459 (594)
.|..|+.+
T Consensus 43 fC~~CG~~ 50 (645)
T PRK14559 43 HCPNCGAE 50 (645)
T ss_pred cccccCCc
Confidence 35555554
No 59
>PRK04016 DNA-directed RNA polymerase subunit N; Provisional
Probab=27.11 E-value=20 Score=28.32 Aligned_cols=15 Identities=33% Similarity=0.817 Sum_probs=13.0
Q ss_pred hhhcccccccccccC
Q psy10533 552 LFGNLCFVCNQVIGG 566 (594)
Q Consensus 552 ~~~~~~~~c~~~~~~ 566 (594)
+|+-+|+.|||+|+.
T Consensus 2 iiPvRCFTCGkvi~~ 16 (62)
T PRK04016 2 MIPVRCFTCGKVIAE 16 (62)
T ss_pred CCCeEecCCCCChHH
Confidence 578899999999965
No 60
>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=26.70 E-value=40 Score=24.40 Aligned_cols=21 Identities=29% Similarity=0.893 Sum_probs=13.8
Q ss_pred cCCCCccccccccEecCCceeeccc
Q psy10533 174 CEHCSKELADLGFIRSQGRALCHEC 198 (594)
Q Consensus 174 C~~C~~~L~~~~f~~~dg~~~C~~C 198 (594)
|..|+.+|.. .++++.||..|
T Consensus 20 Cp~C~~PL~~----~k~g~~~Cv~C 40 (41)
T PF06677_consen 20 CPDCGTPLMR----DKDGKIYCVSC 40 (41)
T ss_pred cCCCCCeeEE----ecCCCEECCCC
Confidence 6667666653 35777777765
No 61
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=26.63 E-value=30 Score=31.59 Aligned_cols=21 Identities=24% Similarity=0.763 Sum_probs=17.7
Q ss_pred CCCCCCCCCCCCCeEEeCCccCChhH
Q psy10533 35 VCAQCFRPFPGGIFYEFEGRKYCEHD 60 (594)
Q Consensus 35 ~C~~C~~~L~~~~~~~~~~~~yC~~~ 60 (594)
.|..|+.|| |.++|++||..|
T Consensus 30 hCp~Cg~PL-----F~KdG~v~CPvC 50 (131)
T COG1645 30 HCPKCGTPL-----FRKDGEVFCPVC 50 (131)
T ss_pred hCcccCCcc-----eeeCCeEECCCC
Confidence 477888888 669999999887
No 62
>COG2191 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]
Probab=26.49 E-value=23 Score=34.65 Aligned_cols=31 Identities=19% Similarity=0.467 Sum_probs=25.8
Q ss_pred ccccccCCCcCCCceeecCCEeecHhHHhhH
Q psy10533 418 FVCARCEKPFLGHRHYEKKGLAYCETHYHQL 448 (594)
Q Consensus 418 f~C~~C~~~~~~~~~~~~dg~~yC~~~y~~~ 448 (594)
..|.+|+.+|....-...||+|.|..||.+.
T Consensus 173 v~C~kCGE~~~e~~~~~~ng~~vC~~C~~~~ 203 (206)
T COG2191 173 VRCSKCGELFMEPRAVVLNGKPVCKPCAEKK 203 (206)
T ss_pred eeccccCcccccchhhhcCCceecccccccc
Confidence 5677888888888778899999999999854
No 63
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=26.42 E-value=22 Score=30.92 Aligned_cols=30 Identities=17% Similarity=0.314 Sum_probs=17.9
Q ss_pred CcccCCCcccccCceeeecCCcccccCCcC
Q psy10533 6 MYCSRCNEGFEPEEKIVNSNGELWHQQCFV 35 (594)
Q Consensus 6 ~~C~~C~~~i~~~e~~~~~~~~~~H~~CF~ 35 (594)
.+|..|+++|+.++..--..+..-|-.||.
T Consensus 3 WkC~iCg~~I~~gqlFTF~~kG~VH~~C~~ 32 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTKKGPVHYECFR 32 (101)
T ss_pred eEEEecCCeeeecceEEEecCCcEeHHHHH
Confidence 467777777766655544444555666664
No 64
>PLN00032 DNA-directed RNA polymerase; Provisional
Probab=26.20 E-value=21 Score=28.92 Aligned_cols=15 Identities=40% Similarity=0.979 Sum_probs=12.6
Q ss_pred hhhcccccccccccC
Q psy10533 552 LFGNLCFVCNQVIGG 566 (594)
Q Consensus 552 ~~~~~~~~c~~~~~~ 566 (594)
|++-||+.|||+|+.
T Consensus 2 iiPVRCFTCGkvig~ 16 (71)
T PLN00032 2 IIPVRCFTCGKVIGN 16 (71)
T ss_pred CCceeecCCCCCcHH
Confidence 467899999999964
No 65
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=26.02 E-value=33 Score=31.34 Aligned_cols=21 Identities=29% Similarity=0.964 Sum_probs=14.2
Q ss_pred cccccCCCcCCCceeecCCEeecHhH
Q psy10533 419 VCARCEKPFLGHRHYEKKGLAYCETH 444 (594)
Q Consensus 419 ~C~~C~~~~~~~~~~~~dg~~yC~~~ 444 (594)
.|+.|+.|| |.+||..||.-|
T Consensus 30 hCp~Cg~PL-----F~KdG~v~CPvC 50 (131)
T COG1645 30 HCPKCGTPL-----FRKDGEVFCPVC 50 (131)
T ss_pred hCcccCCcc-----eeeCCeEECCCC
Confidence 466666665 348898887655
No 66
>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=24.72 E-value=60 Score=24.28 Aligned_cols=33 Identities=15% Similarity=0.517 Sum_probs=16.6
Q ss_pred cccccCC-ccccCcccccccCCCcCCCceeecCCEeecHhHHhh
Q psy10533 405 ACSTLGK-HWHVEHFVCARCEKPFLGHRHYEKKGLAYCETHYHQ 447 (594)
Q Consensus 405 ~C~~C~~-~l~~~~f~C~~C~~~~~~~~~~~~dg~~yC~~~y~~ 447 (594)
+|..|++ ++....+.|..|.. .+.-.|+.||..
T Consensus 2 ~Cd~C~~~pI~G~R~~C~~C~~----------~d~DlC~~C~~~ 35 (48)
T cd02341 2 KCDSCGIEPIPGTRYHCSECDD----------GDFDLCQDCVVK 35 (48)
T ss_pred CCCCCCCCccccceEECCCCCC----------CCCccCHHHHhC
Confidence 4445544 44444555555542 123456666664
No 67
>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=24.48 E-value=67 Score=21.99 Aligned_cols=40 Identities=20% Similarity=0.482 Sum_probs=22.2
Q ss_pred ccccCCCcCCCceeecCCEeecHhHHhhHhC---CCCCcCCCC
Q psy10533 420 CARCEKPFLGHRHYEKKGLAYCETHYHQLFG---NLCFVCNQN 459 (594)
Q Consensus 420 C~~C~~~~~~~~~~~~dg~~yC~~~y~~~f~---~~C~~C~~~ 459 (594)
|..|..++........=|..||..++.+.+. .+|..|+..
T Consensus 2 C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~ 44 (45)
T cd00162 2 CPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP 44 (45)
T ss_pred CCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCc
Confidence 3444444422222333577788888876553 357777653
No 68
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=24.40 E-value=31 Score=32.36 Aligned_cols=48 Identities=23% Similarity=0.503 Sum_probs=33.4
Q ss_pred ceeeccccccccccccCccccccccccccCcc----eeecCccccccCcccCCCCCCCC
Q psy10533 192 RALCHECNAQAKAVGFGKHMCHKCHGLIDDKP----LKFRGEVYHPYHFNCTSCGTELN 246 (594)
Q Consensus 192 ~~~C~~C~~~~~~~~~~~~~C~~C~~~I~~~~----i~~~~~~~H~~CF~C~~C~~~L~ 246 (594)
.-||.+|-+++- ..|..|+.+|.|.+ +...+..|++- --|..|+++..
T Consensus 28 ~~fC~kCG~~tI------~~Cp~C~~~IrG~y~v~gv~~~g~~~~~P-sYC~~CGkpyP 79 (158)
T PF10083_consen 28 EKFCSKCGAKTI------TSCPNCSTPIRGDYHVEGVFGLGGHYEAP-SYCHNCGKPYP 79 (158)
T ss_pred HHHHHHhhHHHH------HHCcCCCCCCCCceecCCeeeeCCCCCCC-hhHHhCCCCCc
Confidence 457777777653 67999999998875 33456667654 24788888764
No 69
>PF14471 DUF4428: Domain of unknown function (DUF4428)
Probab=23.94 E-value=64 Score=24.43 Aligned_cols=29 Identities=24% Similarity=0.307 Sum_probs=22.8
Q ss_pred CCCCCCCCCCCCC-eEEeCCccCChhHHHhh
Q psy10533 35 VCAQCFRPFPGGI-FYEFEGRKYCEHDFHVL 64 (594)
Q Consensus 35 ~C~~C~~~L~~~~-~~~~~~~~yC~~~y~~~ 64 (594)
.|..|+..+.... +...|| ..|..|+.++
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 4888999887444 667777 6899999887
No 70
>PF11571 Med27: Mediator complex subunit 27; InterPro: IPR021627 Mediator is a large complex of up to 33 proteins that is conserved from plants to fungi to humans - the number and representation of individual subunits varying with species. It is arranged into four different sections, a core, a head, a tail and a kinase-activity part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function []. Mediator exists in two major forms in human cells: a smaller form that interacts strongly with pol II and activates transcription, and a large form that does not interact strongly with pol II and does not directly activate transcription. The ubiquitous expression of Med27 mRNA suggests a universal requirement for Med27 in transcriptional initiation. Loss of Crsp34/Med27 decreases amacrine cell number, but increases the number of rod photoreceptor cells [].
Probab=22.65 E-value=34 Score=29.07 Aligned_cols=16 Identities=31% Similarity=0.899 Sum_probs=15.0
Q ss_pred HHHhhhcccccccccc
Q psy10533 549 YHQLFGNLCFVCNQVI 564 (594)
Q Consensus 549 ~~~~~~~~~~~c~~~~ 564 (594)
|..||...|..|||.+
T Consensus 49 Y~~lfs~pC~~C~klL 64 (90)
T PF11571_consen 49 YRNLFSTPCKKCGKLL 64 (90)
T ss_pred HhhhccchhhHHHhHh
Confidence 5789999999999999
No 71
>PF01194 RNA_pol_N: RNA polymerases N / 8 kDa subunit; InterPro: IPR000268 In eukaryotes, there are three different forms of DNA-dependent RNA polymerases (2.7.7.6 from EC) transcribing different sets of genes. Each class of RNA polymerase is an assemblage of ten to twelve different polypeptides. In archaebacteria, there is generally a single form of RNA polymerase which also consists of an oligomeric assemblage of 10 to 13 polypeptides. Archaebacterial subunit N (gene rpoN) [] is a small protein of about 8 kDa, it is evolutionary related [] to a 8.3 kDa component shared by all three forms of eukaryotic RNA polymerases (gene RPB10 in yeast and POLR2J in mammals) as well as to African swine fever virus (ASFV) protein CP80R []. There is a conserved region which is located at the N-terminal extremity of these polymerase subunits; this region contains two cysteines that binds a zinc ion [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_N 3HKZ_N 1EF4_A 3H0G_V 2Y0S_N 2R92_J 3M4O_J 3S2D_J 1R9S_J 1Y1W_J ....
Probab=22.55 E-value=35 Score=26.86 Aligned_cols=15 Identities=40% Similarity=0.979 Sum_probs=10.3
Q ss_pred hhhcccccccccccC
Q psy10533 552 LFGNLCFVCNQVIGG 566 (594)
Q Consensus 552 ~~~~~~~~c~~~~~~ 566 (594)
|+.-||+.|||+|+.
T Consensus 2 iiPVRCFTCGkvi~~ 16 (60)
T PF01194_consen 2 IIPVRCFTCGKVIGN 16 (60)
T ss_dssp --SSS-STTTSBTCG
T ss_pred CCceecCCCCCChhH
Confidence 567899999999953
No 72
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=22.31 E-value=63 Score=33.98 Aligned_cols=75 Identities=20% Similarity=0.384 Sum_probs=46.9
Q ss_pred cccccCcc-ccCceEE---ecCceeecccccccccCCccccCcccccccCCCcCCCceeecCCEeecHhHHhhHhCCCCC
Q psy10533 379 LCFVCNQV-IGGDLFT---ALNKAWCVHHFACSTLGKHWHVEHFVCARCEKPFLGHRHYEKKGLAYCETHYHQLFGNLCF 454 (594)
Q Consensus 379 ~C~~C~~~-I~g~~i~---a~~k~~H~~CF~C~~C~~~l~~~~f~C~~C~~~~~~~~~~~~dg~~yC~~~y~~~f~~~C~ 454 (594)
.|+.|+.. +.+.+.. ..|..| ..|+.|+..|+.....|..|+.. ....|+..++.. -........|.
T Consensus 186 ~CPvCGs~P~~s~~~~~~~~~G~Ry----L~CslC~teW~~~R~~C~~Cg~~-~~l~y~~~e~~~----~~~~~r~e~C~ 256 (305)
T TIGR01562 186 LCPACGSPPVASMVRQGGKETGLRY----LSCSLCATEWHYVRVKCSHCEES-KHLAYLSLEHDA----EKAVLKAETCD 256 (305)
T ss_pred cCCCCCChhhhhhhcccCCCCCceE----EEcCCCCCcccccCccCCCCCCC-CceeeEeecCCC----CCcceEEeecc
Confidence 68888765 3333222 234444 46899999999999999999975 233444433210 00123455799
Q ss_pred cCCCCccc
Q psy10533 455 VCNQNHTI 462 (594)
Q Consensus 455 ~C~~~i~~ 462 (594)
.|+.++.+
T Consensus 257 ~C~~YlK~ 264 (305)
T TIGR01562 257 SCQGYLKI 264 (305)
T ss_pred ccccchhh
Confidence 99998764
No 73
>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=22.29 E-value=75 Score=23.02 Aligned_cols=29 Identities=21% Similarity=0.445 Sum_probs=16.3
Q ss_pred CCCCCCCCCCCCCeEE--eCCccCChhHHHh
Q psy10533 35 VCAQCFRPFPGGIFYE--FEGRKYCEHDFHV 63 (594)
Q Consensus 35 ~C~~C~~~L~~~~~~~--~~~~~yC~~~y~~ 63 (594)
.|..|++++.+..|.- =.+--+|++||.+
T Consensus 6 ~C~~C~~~i~g~ry~C~~C~d~dlC~~Cf~~ 36 (44)
T smart00291 6 SCDTCGKPIVGVRYHCLVCPDYDLCQSCFAK 36 (44)
T ss_pred CCCCCCCCCcCCEEECCCCCCccchHHHHhC
Confidence 4555555555554431 1234479999874
No 74
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=21.26 E-value=43 Score=28.71 Aligned_cols=33 Identities=24% Similarity=0.388 Sum_probs=0.0
Q ss_pred ccccccccccccCccc-cCceEEec-Cceeecccc
Q psy10533 372 YHQLFGNLCFVCNQVI-GGDLFTAL-NKAWCVHHF 404 (594)
Q Consensus 372 ~~~~~~~~C~~C~~~I-~g~~i~a~-~k~~H~~CF 404 (594)
|-.+-.-+|..|+.+| +|+.++.- ...-|-+||
T Consensus 1 ~~~lkewkC~VCg~~iieGqkFTF~~kGsVH~eCl 35 (103)
T COG4847 1 WMGLKEWKCYVCGGTIIEGQKFTFTKKGSVHYECL 35 (103)
T ss_pred CCccceeeEeeeCCEeeeccEEEEeeCCcchHHHH
No 75
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=20.90 E-value=1e+02 Score=21.41 Aligned_cols=31 Identities=13% Similarity=0.355 Sum_probs=20.3
Q ss_pred ccccCCCcCCCceeecCCEeecHhHHhhHhC
Q psy10533 420 CARCEKPFLGHRHYEKKGLAYCETHYHQLFG 450 (594)
Q Consensus 420 C~~C~~~~~~~~~~~~dg~~yC~~~y~~~f~ 450 (594)
|.-|.+.+.+......=|..||..++.+...
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~ 31 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLE 31 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHH
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHH
Confidence 3445555555335677889999999887654
Done!