Query 002059
Match_columns 973
No_of_seqs 124 out of 137
Neff 4.2
Searched_HMMs 46136
Date Thu Mar 28 15:35:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002059.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002059hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13934 ELYS: Nuclear pore co 100.0 2.2E-48 4.8E-53 406.3 21.9 222 328-621 1-226 (226)
2 KOG1100 Predicted E3 ubiquitin 97.9 2.6E-06 5.7E-11 89.7 0.1 41 65-105 161-202 (207)
3 PF13920 zf-C3HC4_3: Zinc fing 97.9 3.6E-06 7.7E-11 69.3 0.6 34 71-104 12-49 (50)
4 KOG4172 Predicted E3 ubiquitin 97.7 8E-06 1.7E-10 69.6 -0.3 33 71-103 17-54 (62)
5 KOG4265 Predicted E3 ubiquitin 97.6 1.8E-05 4E-10 88.3 0.9 35 71-105 300-338 (349)
6 KOG4275 Predicted E3 ubiquitin 96.6 0.00034 7.4E-09 76.7 -1.3 35 71-105 310-344 (350)
7 KOG1571 Predicted E3 ubiquitin 96.4 0.0009 2E-08 75.3 0.1 33 71-103 315-347 (355)
8 PF14634 zf-RING_5: zinc-RING 94.8 0.015 3.2E-07 47.0 1.6 28 72-100 13-44 (44)
9 PLN03208 E3 ubiquitin-protein 91.7 0.083 1.8E-06 55.8 1.6 45 72-120 29-93 (193)
10 PHA02926 zinc finger-like prot 91.5 0.074 1.6E-06 57.3 1.0 28 75-103 193-230 (242)
11 TIGR00570 cdk7 CDK-activating 90.2 0.13 2.8E-06 57.8 1.4 35 72-107 19-58 (309)
12 PHA02929 N1R/p28-like protein; 87.3 0.26 5.6E-06 53.7 1.2 29 74-103 195-227 (238)
13 cd00162 RING RING-finger (Real 85.8 0.5 1.1E-05 36.1 1.8 29 73-102 12-45 (45)
14 KOG4739 Uncharacterized protei 83.6 0.46 1E-05 51.7 1.0 45 71-116 15-63 (233)
15 PF13923 zf-C3HC4_2: Zinc fing 82.9 0.47 1E-05 37.3 0.5 24 74-98 12-39 (39)
16 TIGR00599 rad18 DNA repair pro 82.8 0.87 1.9E-05 53.1 2.8 32 73-105 38-73 (397)
17 smart00184 RING Ring finger. E 82.5 0.55 1.2E-05 34.6 0.7 27 71-98 8-39 (39)
18 COG5243 HRD1 HRD ubiquitin lig 79.6 0.85 1.9E-05 52.4 1.3 27 76-103 315-345 (491)
19 KOG0320 Predicted E3 ubiquitin 78.4 0.99 2.1E-05 47.5 1.2 28 75-103 147-178 (187)
20 PF14447 Prok-RING_4: Prokaryo 76.7 1.2 2.5E-05 38.9 0.9 36 68-104 13-51 (55)
21 PF13639 zf-RING_2: Ring finge 74.4 1.1 2.3E-05 36.0 0.1 26 73-99 15-44 (44)
22 COG5540 RING-finger-containing 72.7 1.4 3E-05 49.6 0.6 31 73-104 338-373 (374)
23 KOG4692 Predicted E3 ubiquitin 72.0 1.8 3.8E-05 49.6 1.2 36 68-104 429-468 (489)
24 PF00097 zf-C3HC4: Zinc finger 70.4 1.4 2.9E-05 34.6 -0.1 23 75-98 13-41 (41)
25 PF14835 zf-RING_6: zf-RING of 69.7 2.3 5E-05 38.2 1.2 41 68-109 13-57 (65)
26 PF10366 Vps39_1: Vacuolar sor 69.5 25 0.00053 34.1 8.2 88 579-686 13-100 (108)
27 PF07035 Mic1: Colon cancer-as 68.7 10 0.00022 39.6 5.8 93 376-497 23-115 (167)
28 KOG1785 Tyrosine kinase negati 66.4 2.7 5.9E-05 48.8 1.2 45 71-116 379-429 (563)
29 PLN03077 Protein ECB2; Provisi 64.8 1.7E+02 0.0036 37.1 16.3 126 474-640 326-451 (857)
30 KOG2066 Vacuolar assembly/sort 63.3 31 0.00067 43.6 9.2 161 448-641 365-533 (846)
31 KOG2177 Predicted E3 ubiquitin 62.5 4 8.8E-05 42.0 1.5 25 75-100 27-55 (386)
32 PLN03081 pentatricopeptide (PP 62.0 3.5E+02 0.0076 33.5 18.0 25 616-640 293-317 (697)
33 PF04053 Coatomer_WDAD: Coatom 61.9 16 0.00034 43.5 6.3 82 434-536 259-346 (443)
34 smart00504 Ubox Modified RING 59.7 4.5 9.8E-05 34.1 1.1 31 73-104 13-47 (63)
35 KOG2377 Uncharacterized conser 59.4 6.4 0.00014 46.9 2.6 48 446-497 547-597 (657)
36 PLN03077 Protein ECB2; Provisi 58.9 3.2E+02 0.0069 34.7 17.3 124 474-639 427-550 (857)
37 PF04840 Vps16_C: Vps16, C-ter 58.7 1.2E+02 0.0027 34.5 12.5 94 426-535 195-289 (319)
38 KOG3002 Zn finger protein [Gen 56.4 6.5 0.00014 44.5 1.9 56 68-128 54-112 (299)
39 KOG2164 Predicted E3 ubiquitin 53.7 5.4 0.00012 47.8 0.8 34 70-104 195-237 (513)
40 KOG0978 E3 ubiquitin ligase in 53.2 8.1 0.00018 48.1 2.2 48 57-105 638-691 (698)
41 KOG1920 IkappaB kinase complex 48.2 4.3E+02 0.0093 35.6 15.8 156 430-640 883-1053(1265)
42 COG5432 RAD18 RING-finger-cont 45.4 11 0.00023 42.7 1.4 48 39-104 19-71 (391)
43 PF04710 Pellino: Pellino; In 45.2 7.1 0.00015 45.6 0.0 27 72-103 358-401 (416)
44 PF03854 zf-P11: P-11 zinc fin 42.6 8.6 0.00019 32.9 0.1 33 73-105 12-48 (50)
45 PLN03081 pentatricopeptide (PP 42.0 4.8E+02 0.01 32.4 14.8 26 616-641 531-556 (697)
46 KOG0828 Predicted E3 ubiquitin 40.7 12 0.00026 44.9 0.9 30 74-104 601-635 (636)
47 KOG4182 Uncharacterized conser 38.8 8.5E+02 0.018 30.1 18.5 27 660-686 479-505 (828)
48 PF05478 Prominin: Prominin; 38.5 3.5E+02 0.0076 34.8 13.2 24 84-107 112-135 (806)
49 KOG1039 Predicted E3 ubiquitin 35.9 17 0.00037 42.0 1.2 33 77-110 185-228 (344)
50 PRK11788 tetratricopeptide rep 35.7 6.5E+02 0.014 27.9 13.7 55 477-534 113-167 (389)
51 KOG2932 E3 ubiquitin ligase in 35.5 15 0.00032 41.9 0.6 28 76-104 106-135 (389)
52 KOG0287 Postreplication repair 35.4 18 0.0004 41.7 1.3 61 74-159 36-100 (442)
53 PF04641 Rtf2: Rtf2 RING-finge 34.8 19 0.00041 39.6 1.3 46 58-105 115-163 (260)
54 KOG4628 Predicted E3 ubiquitin 34.6 19 0.00041 41.7 1.3 33 74-107 245-282 (348)
55 KOG2879 Predicted E3 ubiquitin 33.4 20 0.00044 40.3 1.2 40 67-107 244-294 (298)
56 PRK10049 pgaA outer membrane p 32.8 3.8E+02 0.0081 34.0 12.1 175 425-640 255-454 (765)
57 KOG0276 Vesicle coat complex C 31.9 3.1E+02 0.0067 34.6 10.5 70 453-539 599-668 (794)
58 KOG0823 Predicted E3 ubiquitin 30.7 24 0.00053 38.7 1.2 41 72-116 58-105 (230)
59 PF13445 zf-RING_UBOX: RING-ty 30.1 20 0.00043 29.7 0.3 18 74-92 14-31 (43)
60 COG5236 Uncharacterized conser 28.6 31 0.00068 39.9 1.7 34 67-101 66-106 (493)
61 PF09976 TPR_21: Tetratricopep 28.1 2.3E+02 0.005 27.7 7.5 97 427-530 34-140 (145)
62 PRK11447 cellulose synthase su 27.9 7.4E+02 0.016 33.0 14.0 82 445-534 467-555 (1157)
63 PF15227 zf-C3HC4_4: zinc fing 26.9 26 0.00056 28.5 0.5 19 73-92 10-28 (42)
64 PRK12928 lipoyl synthase; Prov 26.6 63 0.0014 36.4 3.6 57 30-99 23-81 (290)
65 PF13429 TPR_15: Tetratricopep 25.6 77 0.0017 34.1 3.9 107 424-534 163-274 (280)
66 PLN03218 maturation of RBCL 1; 25.0 7.5E+02 0.016 33.1 13.1 25 616-640 545-569 (1060)
67 PLN03218 maturation of RBCL 1; 24.3 6.5E+02 0.014 33.7 12.4 58 473-533 474-532 (1060)
68 KOG2066 Vacuolar assembly/sort 24.0 1.9E+02 0.0041 37.1 7.1 101 475-604 360-467 (846)
69 KOG3800 Predicted E3 ubiquitin 23.9 32 0.0007 39.0 0.7 39 71-110 15-58 (300)
70 KOG2280 Vacuolar assembly/sort 23.7 3.5E+02 0.0077 34.7 9.3 93 427-535 703-797 (829)
71 KOG4159 Predicted E3 ubiquitin 23.2 42 0.00091 39.7 1.5 33 71-104 94-130 (398)
72 PRK12370 invasion protein regu 21.8 8.9E+02 0.019 29.4 12.2 142 457-639 326-467 (553)
73 TIGR02917 PEP_TPR_lipo putativ 21.5 1.5E+03 0.032 27.4 14.5 23 618-640 198-220 (899)
74 KOG0824 Predicted E3 ubiquitin 20.5 55 0.0012 37.5 1.6 31 74-105 20-55 (324)
No 1
>PF13934 ELYS: Nuclear pore complex assembly
Probab=100.00 E-value=2.2e-48 Score=406.30 Aligned_cols=222 Identities=36% Similarity=0.524 Sum_probs=199.5
Q ss_pred CcccHHHHHHhhchhhhhhccCCccchhcccccCCCCCcccccccCCCcccCCCch---HHHHHHHHhccCCchhhhhhH
Q 002059 328 GSLFIEDALANLEIEQEFTQGRGEELDITSLHKDDEGSSFVRSKIEGVSGCYPFEN---LRAAVDILFLHGSSDLVLAKQ 404 (973)
Q Consensus 328 ~~LFID~LL~~Lgi~~~~~~~~ge~~el~~Lw~~~~~~~~f~~~~e~~~g~YPP~S---LraLld~ill~~ssd~~~aKq 404 (973)
|.||||++|+++|++. .++.|||+| |++|++.|+++++++ ++||
T Consensus 1 ~~LfiD~lL~~~gi~~-------------------------------~~~~YPP~s~~~L~~Ll~~i~~~~~~~--~~K~ 47 (226)
T PF13934_consen 1 GCLFIDRLLSRLGIEG-------------------------------STGLYPPKSDNDLRALLDLILSSNVSL--LKKH 47 (226)
T ss_pred CcchHHHHHHHcCCCC-------------------------------CCCCCCccCHHHHHHHHHHHhcCCcCH--HHhH
Confidence 5699999999887752 467999999 999999999999987 7999
Q ss_pred HHHHHHhhccCCcCCCcchhhHHHHHHhHcCCChhhHHHHhHhhhccCCCchHHHHHhhhCCCCCC-CCChHHHHHHHHh
Q 002059 405 AIFLYYLFDRHWTMPDENWRHIVDDFAATFSITRHSLLESLTFYLLDDQADEALQEACHLLPEISG-PTTHPKIAQVLLE 483 (973)
Q Consensus 405 AI~lYlLLD~~~~~p~~~~~~lle~Fa~tF~Ip~~~~l~iqgfWlLDdh~d~aleeAl~LLP~is~-pw~h~kIlqvLl~ 483 (973)
+||||||+|+++..+ ++++++||++|+||++++++|+|||+|| |+++ ++||++|+.++. ||+|++|+++|++
T Consensus 48 ~l~~YlLlD~~~~~~----~~~~~~Fa~~f~ip~~~~~~~~g~W~LD-~~~~--~~A~~~L~~ps~~~~~~~~Il~~L~~ 120 (226)
T PF13934_consen 48 SLFYYLLLDLDDTRP----SELAESFARAFGIPPKYIKFIQGFWLLD-HGDF--EEALELLSHPSLIPWFPDKILQALLR 120 (226)
T ss_pred HHHHHHHHhcCcccc----ccHHHHHHHHhCCCHHHHHHHHHHHHhC-hHhH--HHHHHHhCCCCCCcccHHHHHHHHHH
Confidence 999999999998866 2678999999999999999999999999 9888 999999988766 8999999999999
Q ss_pred CCCchhHHHHHHHhcCCCCCCccCHHHHHHHHHHHHhcCChhHHHHHhhhhchHHHhhhhccCCCCCcccccccCcchhH
Q 002059 484 RENPEAALMVLRWSGRDGGSLLVSLSEAVTAVRIRVECALLTEAFTYQRMLCTKVREKKLKFGTIGETFDDLQGGFKTWE 563 (973)
Q Consensus 484 rg~~d~AL~ylr~~g~d~~P~l~SlsEA~l~l~VlLan~lItEAF~~qR~~~~~v~e~~~~~~~~~~~~~dL~g~~~~w~ 563 (973)
+|+++.||+|+|+++ |++.+ .++++.++++|+|++|+|||+|+|+++++.+..
T Consensus 121 ~~~~~lAL~y~~~~~----p~l~s-~~~~~~~~~~La~~~v~EAf~~~R~~~~~~~~~---------------------- 173 (226)
T PF13934_consen 121 RGDPKLALRYLRAVG----PPLSS-PEALTLYFVALANGLVTEAFSFQRSYPDELRRR---------------------- 173 (226)
T ss_pred CCChhHHHHHHHhcC----CCCCC-HHHHHHHHHHHHcCCHHHHHHHHHhCchhhhHH----------------------
Confidence 999999999999996 66766 477788888899999999999999999976532
Q ss_pred HHHHHHHHHHHHHhhhhhhHHHhhcCCCCchhHHHHHHHHcccCCCCCCCCcchhhHH
Q 002059 564 QWLEVLVTEICCLCIRRNLVDRMIELPWNTDEEKYLHKCLLDSATDDPSTTVGSLLVV 621 (973)
Q Consensus 564 ~~~E~Ll~~~f~~C~~~~~ld~LL~LPLd~eEEk~L~k~L~~~~~~~~~~~~~sLLlV 621 (973)
..|.||+++++.|.+.+++++|++|||+++||+||++||.+++++.+ +++++|
T Consensus 174 -l~e~l~~~~~~~~~~~~~~~~Ll~LPl~~~EE~~l~~~L~~~~~~~~----~~~ll~ 226 (226)
T PF13934_consen 174 -LFEQLLEHCLEECARSGRLDELLSLPLDEEEEQWLEKYLRESPGRQA----QDLLLM 226 (226)
T ss_pred -HHHHHHHHHHHHhhhhhHHHHHHhCCCChHHHHHHHHHHccCCCccc----cCeeeC
Confidence 26688888888888899999999999999999999999999998774 777765
No 2
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.89 E-value=2.6e-06 Score=89.73 Aligned_cols=41 Identities=37% Similarity=0.858 Sum_probs=36.1
Q ss_pred hhhhcc-cchhhcccCCchhhhhHhhhhccCCCcccccccCC
Q 002059 65 LRSCGR-YVQYVLNSCGHASLCAECRQRCDFCPICRIPVPKK 105 (973)
Q Consensus 65 ~~scg~-~~~~vl~~c~h~~lc~~c~~~~~~cpicr~~Ipk~ 105 (973)
-+.||+ .+.|+|+||+|.|+|.+|...+..||||+.++..+
T Consensus 161 Cr~C~~~~~~VlllPCrHl~lC~~C~~~~~~CPiC~~~~~s~ 202 (207)
T KOG1100|consen 161 CRKCGEREATVLLLPCRHLCLCGICDESLRICPICRSPKTSS 202 (207)
T ss_pred ceecCcCCceEEeecccceEecccccccCccCCCCcChhhce
Confidence 356887 78899999999999999999999999999987543
No 3
>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=97.88 E-value=3.6e-06 Score=69.25 Aligned_cols=34 Identities=44% Similarity=0.982 Sum_probs=30.5
Q ss_pred cchhhcccCCchhhhhHhhhhc----cCCCcccccccC
Q 002059 71 YVQYVLNSCGHASLCAECRQRC----DFCPICRIPVPK 104 (973)
Q Consensus 71 ~~~~vl~~c~h~~lc~~c~~~~----~~cpicr~~Ipk 104 (973)
..++++.||||.+.|..|..+. ..|||||.+|.+
T Consensus 12 ~~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 12 PRDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIES 49 (50)
T ss_dssp BSSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred CCceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence 5678999999999999999999 999999999964
No 4
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.68 E-value=8e-06 Score=69.60 Aligned_cols=33 Identities=45% Similarity=1.012 Sum_probs=30.3
Q ss_pred cchhhcccCCchhhhhHhhhhccC-----CCccccccc
Q 002059 71 YVQYVLNSCGHASLCAECRQRCDF-----CPICRIPVP 103 (973)
Q Consensus 71 ~~~~vl~~c~h~~lc~~c~~~~~~-----cpicr~~Ip 103 (973)
.||-||+.|||-|+|-+|..|=++ |||||.||.
T Consensus 17 pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 17 PVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 589999999999999999988776 999999985
No 5
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.60 E-value=1.8e-05 Score=88.34 Aligned_cols=35 Identities=34% Similarity=0.823 Sum_probs=30.3
Q ss_pred cchhhcccCCchhhhhHhhhh----ccCCCcccccccCC
Q 002059 71 YVQYVLNSCGHASLCAECRQR----CDFCPICRIPVPKK 105 (973)
Q Consensus 71 ~~~~vl~~c~h~~lc~~c~~~----~~~cpicr~~Ipk~ 105 (973)
..|.|++||+|-|+|+.|++- -+.|||||.||...
T Consensus 300 ~rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~l 338 (349)
T KOG4265|consen 300 SRDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEEL 338 (349)
T ss_pred CcceEEecchhhehhHhHHHHHHHhhcCCCccccchHhh
Confidence 357899999999999999984 67899999998653
No 6
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.61 E-value=0.00034 Score=76.65 Aligned_cols=35 Identities=34% Similarity=0.790 Sum_probs=32.0
Q ss_pred cchhhcccCCchhhhhHhhhhccCCCcccccccCC
Q 002059 71 YVQYVLNSCGHASLCAECRQRCDFCPICRIPVPKK 105 (973)
Q Consensus 71 ~~~~vl~~c~h~~lc~~c~~~~~~cpicr~~Ipk~ 105 (973)
-+|-||++|||-+.|..|-.+...|||||..|-|-
T Consensus 310 P~DCvfLeCGHmVtCt~CGkrm~eCPICRqyi~rv 344 (350)
T KOG4275|consen 310 PRDCVFLECGHMVTCTKCGKRMNECPICRQYIVRV 344 (350)
T ss_pred CcceEEeecCcEEeehhhccccccCchHHHHHHHH
Confidence 46789999999999999999999999999988653
No 7
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.38 E-value=0.0009 Score=75.29 Aligned_cols=33 Identities=30% Similarity=0.760 Sum_probs=29.8
Q ss_pred cchhhcccCCchhhhhHhhhhccCCCccccccc
Q 002059 71 YVQYVLNSCGHASLCAECRQRCDFCPICRIPVP 103 (973)
Q Consensus 71 ~~~~vl~~c~h~~lc~~c~~~~~~cpicr~~Ip 103 (973)
.-+.||.||||.|.|..|++.-..||+||..|-
T Consensus 315 ~~~~~fvpcGh~ccct~cs~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 315 PKSAVFVPCGHVCCCTLCSKHLPQCPVCRQRIR 347 (355)
T ss_pred ccceeeecCCcEEEchHHHhhCCCCchhHHHHH
Confidence 346899999999999999999999999998764
No 8
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=94.81 E-value=0.015 Score=47.03 Aligned_cols=28 Identities=43% Similarity=1.017 Sum_probs=25.3
Q ss_pred chhhcccCCchhhhhHhhhhcc----CCCcccc
Q 002059 72 VQYVLNSCGHASLCAECRQRCD----FCPICRI 100 (973)
Q Consensus 72 ~~~vl~~c~h~~lc~~c~~~~~----~cpicr~ 100 (973)
...+|.+|||. .|..|.++.. .||+||+
T Consensus 13 ~~~~l~~CgH~-~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 13 RRPRLTSCGHI-FCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCeEEcccCCH-HHHHHHHhhcCCCCCCcCCCC
Confidence 35899999997 8999999999 9999985
No 9
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=91.74 E-value=0.083 Score=55.85 Aligned_cols=45 Identities=27% Similarity=0.659 Sum_probs=32.9
Q ss_pred chhhcccCCchhhhhHhhhhc--------------------cCCCcccccccCCccccchhhHHHHHHc
Q 002059 72 VQYVLNSCGHASLCAECRQRC--------------------DFCPICRIPVPKKRNSIRLRLYDECVEA 120 (973)
Q Consensus 72 ~~~vl~~c~h~~lc~~c~~~~--------------------~~cpicr~~Ipk~G~~~~~rLY~~Cl~A 120 (973)
.+.|+.+||| ..|..|-.++ ..||+||.+|.. ++.+ .+|.+-..+
T Consensus 29 ~dPVvT~CGH-~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~-~~Lv--Piygrg~~~ 93 (193)
T PLN03208 29 RDPVVTLCGH-LFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE-ATLV--PIYGRGQKA 93 (193)
T ss_pred CCcEEcCCCc-hhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh-hcEE--EeeccCCCC
Confidence 4678899999 6799999865 379999999976 3322 556654433
No 10
>PHA02926 zinc finger-like protein; Provisional
Probab=91.53 E-value=0.074 Score=57.27 Aligned_cols=28 Identities=39% Similarity=0.957 Sum_probs=24.5
Q ss_pred hcccCCchhhhhHhhhhccC----------CCccccccc
Q 002059 75 VLNSCGHASLCAECRQRCDF----------CPICRIPVP 103 (973)
Q Consensus 75 vl~~c~h~~lc~~c~~~~~~----------cpicr~~Ip 103 (973)
||.+|+|. .|..|-.++.. ||+||.+..
T Consensus 193 IL~~CnHs-FCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 193 LLDSCNHI-FCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred ccCCCCch-HHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 89999998 99999987764 999999764
No 11
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=90.17 E-value=0.13 Score=57.81 Aligned_cols=35 Identities=34% Similarity=0.819 Sum_probs=28.2
Q ss_pred chhhcccCCchhhhhHhhhhcc-----CCCcccccccCCcc
Q 002059 72 VQYVLNSCGHASLCAECRQRCD-----FCPICRIPVPKKRN 107 (973)
Q Consensus 72 ~~~vl~~c~h~~lc~~c~~~~~-----~cpicr~~Ipk~G~ 107 (973)
+...+++|||. .|..|..++- .||.|+.++.+.+=
T Consensus 19 ~kl~i~~CGH~-~C~sCv~~l~~~~~~~CP~C~~~lrk~~f 58 (309)
T TIGR00570 19 LKLMVNVCGHT-LCESCVDLLFVRGSGSCPECDTPLRKNNF 58 (309)
T ss_pred cccccCCCCCc-ccHHHHHHHhcCCCCCCCCCCCccchhhc
Confidence 33455699996 7999999853 79999999999873
No 12
>PHA02929 N1R/p28-like protein; Provisional
Probab=87.34 E-value=0.26 Score=53.75 Aligned_cols=29 Identities=38% Similarity=1.006 Sum_probs=24.1
Q ss_pred hhcccCCchhhhhHhhhhc----cCCCccccccc
Q 002059 74 YVLNSCGHASLCAECRQRC----DFCPICRIPVP 103 (973)
Q Consensus 74 ~vl~~c~h~~lc~~c~~~~----~~cpicr~~Ip 103 (973)
.|+.+||| +-|..|-.++ ..||+||.++.
T Consensus 195 ~vl~~C~H-~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 195 GILSNCNH-VFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred eecCCCCC-cccHHHHHHHHhcCCCCCCCCCEee
Confidence 36789999 5899998654 57999999886
No 13
>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=85.80 E-value=0.5 Score=36.13 Aligned_cols=29 Identities=41% Similarity=1.135 Sum_probs=22.1
Q ss_pred hhhcccCCchhhhhHhhhh-----ccCCCcccccc
Q 002059 73 QYVLNSCGHASLCAECRQR-----CDFCPICRIPV 102 (973)
Q Consensus 73 ~~vl~~c~h~~lc~~c~~~-----~~~cpicr~~I 102 (973)
.+++.+|||. .|..|..+ =..||+||.++
T Consensus 12 ~~~~~~C~H~-~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 12 PVVLLPCGHV-FCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred ceEecCCCCh-hcHHHHHHHHHhCcCCCCCCCCcC
Confidence 4455669999 79999862 45699999864
No 14
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=83.63 E-value=0.46 Score=51.68 Aligned_cols=45 Identities=20% Similarity=0.615 Sum_probs=31.3
Q ss_pred cchhhcccCCchhhhhHhhhhcc--CCCccccccc--CCccccchhhHHH
Q 002059 71 YVQYVLNSCGHASLCAECRQRCD--FCPICRIPVP--KKRNSIRLRLYDE 116 (973)
Q Consensus 71 ~~~~vl~~c~h~~lc~~c~~~~~--~cpicr~~Ip--k~G~~~~~rLY~~ 116 (973)
.+...|..|+| +.|..|..-|- .||+|+++|- +-+..+.-.++..
T Consensus 15 ~~~f~LTaC~H-vfC~~C~k~~~~~~C~lCkk~ir~i~l~~slp~~ik~~ 63 (233)
T KOG4739|consen 15 QDPFFLTACRH-VFCEPCLKASSPDVCPLCKKSIRIIQLNRSLPTDIKSY 63 (233)
T ss_pred CCceeeeechh-hhhhhhcccCCccccccccceeeeeecccccchhHHHH
Confidence 45667889988 68999999986 5999999842 2233344444444
No 15
>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=82.89 E-value=0.47 Score=37.31 Aligned_cols=24 Identities=42% Similarity=1.243 Sum_probs=18.8
Q ss_pred hhcccCCchhhhhHhhhhc----cCCCcc
Q 002059 74 YVLNSCGHASLCAECRQRC----DFCPIC 98 (973)
Q Consensus 74 ~vl~~c~h~~lc~~c~~~~----~~cpic 98 (973)
+|+.+|||. .|.+|.++- ..||+|
T Consensus 12 ~~~~~CGH~-fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 12 VVVTPCGHS-FCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp EEECTTSEE-EEHHHHHHHHHCTSB-TTT
T ss_pred CEECCCCCc-hhHHHHHHHHHCcCCCcCC
Confidence 379999999 799998764 678877
No 16
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=82.78 E-value=0.87 Score=53.06 Aligned_cols=32 Identities=41% Similarity=0.974 Sum_probs=25.8
Q ss_pred hhhcccCCchhhhhHhhhhc----cCCCcccccccCC
Q 002059 73 QYVLNSCGHASLCAECRQRC----DFCPICRIPVPKK 105 (973)
Q Consensus 73 ~~vl~~c~h~~lc~~c~~~~----~~cpicr~~Ipk~ 105 (973)
+.|+.+|||. -|..|-++| ..||.||.++.+.
T Consensus 38 ~PvitpCgH~-FCs~CI~~~l~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 38 VPVLTSCSHT-FCSLCIRRCLSNQPKCPLCRAEDQES 73 (397)
T ss_pred CccCCCCCCc-hhHHHHHHHHhCCCCCCCCCCccccc
Confidence 5678999996 588888754 3799999998764
No 17
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=82.46 E-value=0.55 Score=34.55 Aligned_cols=27 Identities=37% Similarity=1.028 Sum_probs=21.5
Q ss_pred cchhhcccCCchhhhhHhhhhc-----cCCCcc
Q 002059 71 YVQYVLNSCGHASLCAECRQRC-----DFCPIC 98 (973)
Q Consensus 71 ~~~~vl~~c~h~~lc~~c~~~~-----~~cpic 98 (973)
..+.++.+|||. .|..|.++. ..||+|
T Consensus 8 ~~~~~~~~C~H~-~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 8 LKDPVVLPCGHT-FCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCCcEEecCCCh-HHHHHHHHHHHhCcCCCCCC
Confidence 357788999999 899999754 448877
No 18
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=79.60 E-value=0.85 Score=52.38 Aligned_cols=27 Identities=48% Similarity=0.946 Sum_probs=20.0
Q ss_pred cccCCchhhhhHh----hhhccCCCccccccc
Q 002059 76 LNSCGHASLCAEC----RQRCDFCPICRIPVP 103 (973)
Q Consensus 76 l~~c~h~~lc~~c----~~~~~~cpicr~~Ip 103 (973)
=+|||| |+=-.| ++|=..|||||.|+-
T Consensus 315 rLpCGH-ilHl~CLknW~ERqQTCPICr~p~i 345 (491)
T COG5243 315 RLPCGH-ILHLHCLKNWLERQQTCPICRRPVI 345 (491)
T ss_pred cccccc-eeeHHHHHHHHHhccCCCcccCccc
Confidence 479999 344445 567789999999953
No 19
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.38 E-value=0.99 Score=47.45 Aligned_cols=28 Identities=36% Similarity=1.020 Sum_probs=22.3
Q ss_pred hcccCCchhhhhHhhh----hccCCCccccccc
Q 002059 75 VLNSCGHASLCAECRQ----RCDFCPICRIPVP 103 (973)
Q Consensus 75 vl~~c~h~~lc~~c~~----~~~~cpicr~~Ip 103 (973)
|=..||| +.|++|.+ .-..||+||+-|-
T Consensus 147 vsTkCGH-vFC~~Cik~alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 147 VSTKCGH-VFCSQCIKDALKNTNKCPTCRKKIT 178 (187)
T ss_pred cccccch-hHHHHHHHHHHHhCCCCCCcccccc
Confidence 4488999 47999986 4678999998553
No 20
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=76.66 E-value=1.2 Score=38.85 Aligned_cols=36 Identities=33% Similarity=0.822 Sum_probs=27.7
Q ss_pred hccc-chhhcccCCchhhhhHhh--hhccCCCcccccccC
Q 002059 68 CGRY-VQYVLNSCGHASLCAECR--QRCDFCPICRIPVPK 104 (973)
Q Consensus 68 cg~~-~~~vl~~c~h~~lc~~c~--~~~~~cpicr~~Ipk 104 (973)
||.. ...+++||||.+ |..|- +|=.-||+|-+|+.-
T Consensus 13 ~~~~~~~~~~~pCgH~I-~~~~f~~~rYngCPfC~~~~~~ 51 (55)
T PF14447_consen 13 CGFVGTKGTVLPCGHLI-CDNCFPGERYNGCPFCGTPFEF 51 (55)
T ss_pred cccccccccccccccee-eccccChhhccCCCCCCCcccC
Confidence 4544 567899999975 88885 456679999999864
No 21
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=74.38 E-value=1.1 Score=36.03 Aligned_cols=26 Identities=35% Similarity=0.890 Sum_probs=19.4
Q ss_pred hhhcccCCchhhhhHhhhh----ccCCCccc
Q 002059 73 QYVLNSCGHASLCAECRQR----CDFCPICR 99 (973)
Q Consensus 73 ~~vl~~c~h~~lc~~c~~~----~~~cpicr 99 (973)
.++.++||| ..|..|.++ -..||+||
T Consensus 15 ~~~~l~C~H-~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 15 KVVKLPCGH-VFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CEEEETTSE-EEEHHHHHHHHHHSSB-TTTH
T ss_pred eEEEccCCC-eeCHHHHHHHHHhCCcCCccC
Confidence 456778998 678999754 46899998
No 22
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.69 E-value=1.4 Score=49.62 Aligned_cols=31 Identities=26% Similarity=0.738 Sum_probs=26.0
Q ss_pred hhhcccCCchhhhhHhhhhccC-----CCcccccccC
Q 002059 73 QYVLNSCGHASLCAECRQRCDF-----CPICRIPVPK 104 (973)
Q Consensus 73 ~~vl~~c~h~~lc~~c~~~~~~-----cpicr~~Ipk 104 (973)
+++.+||.|+-- +.|-+++-. ||.||.+||-
T Consensus 338 ~~~vlPC~H~FH-~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 338 RLRVLPCDHRFH-VGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred eEEEeccCceec-hhHHHHHHhhhcccCCccCCCCCC
Confidence 488999999864 778888865 9999999984
No 23
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.99 E-value=1.8 Score=49.65 Aligned_cols=36 Identities=28% Similarity=0.686 Sum_probs=31.8
Q ss_pred hcccchhhcccCCchhhhhHhhhh----ccCCCcccccccC
Q 002059 68 CGRYVQYVLNSCGHASLCAECRQR----CDFCPICRIPVPK 104 (973)
Q Consensus 68 cg~~~~~vl~~c~h~~lc~~c~~~----~~~cpicr~~Ipk 104 (973)
|...|.+||.||+|.+ |..|-.+ |+.|=.|...|..
T Consensus 429 yA~pi~Avf~PC~H~S-C~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 429 YAGPINAVFAPCSHRS-CYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred ecccchhhccCCCCch-HHHHHHHHHhcCCeeeEecceeee
Confidence 6789999999999985 9999875 9999999988865
No 24
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=70.38 E-value=1.4 Score=34.59 Aligned_cols=23 Identities=39% Similarity=1.214 Sum_probs=18.1
Q ss_pred hcccCCchhhhhHhhhhcc------CCCcc
Q 002059 75 VLNSCGHASLCAECRQRCD------FCPIC 98 (973)
Q Consensus 75 vl~~c~h~~lc~~c~~~~~------~cpic 98 (973)
++++|||. .|..|..+.- .||+|
T Consensus 13 ~~~~C~H~-fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 13 ILLPCGHS-FCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp EETTTSEE-EEHHHHHHHHHHTSSSBTTTT
T ss_pred EEecCCCc-chHHHHHHHHHhcCCccCCcC
Confidence 48999999 9999987653 37766
No 25
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=69.70 E-value=2.3 Score=38.17 Aligned_cols=41 Identities=29% Similarity=0.791 Sum_probs=19.2
Q ss_pred hcccch--hhcccCCchhhhhHhhhhc--cCCCcccccccCCcccc
Q 002059 68 CGRYVQ--YVLNSCGHASLCAECRQRC--DFCPICRIPVPKKRNSI 109 (973)
Q Consensus 68 cg~~~~--~vl~~c~h~~lc~~c~~~~--~~cpicr~~Ipk~G~~~ 109 (973)
|.-.++ |-+-.|.| ..|+.|...| ..||.|.+|.=..--++
T Consensus 13 C~~~l~~pv~l~~CeH-~fCs~Ci~~~~~~~CPvC~~Paw~qD~~~ 57 (65)
T PF14835_consen 13 CFDILKEPVCLGGCEH-IFCSSCIRDCIGSECPVCHTPAWIQDIQI 57 (65)
T ss_dssp S-S--SS-B---SSS---B-TTTGGGGTTTB-SSS--B-S-SS---
T ss_pred HHHHhcCCceeccCcc-HHHHHHhHHhcCCCCCCcCChHHHHHHHh
Confidence 444444 34789999 5899999999 88999999875444333
No 26
>PF10366 Vps39_1: Vacuolar sorting protein 39 domain 1; InterPro: IPR019452 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.
Probab=69.52 E-value=25 Score=34.09 Aligned_cols=88 Identities=17% Similarity=0.176 Sum_probs=61.1
Q ss_pred hhhhHHHhhcCCCCchhHHHHHHHHcccCCCCCCCCcchhhHHHHHhhcChHHHHHHHHHhhhhhhhhccCCCCcHHHHH
Q 002059 579 RRNLVDRMIELPWNTDEEKYLHKCLLDSATDDPSTTVGSLLVVFYIQRYRYAEAYQVNLKLQSVEQDFISKNPVSEEVLS 658 (973)
Q Consensus 579 ~~~~ld~LL~LPLd~eEEk~L~k~L~~~~~~~~~~~~~sLLlVyyLQR~RYiEAv~v~~kL~~~eq~~~~~~s~s~e~~~ 658 (973)
....+..++..| |.=.-+..+++|.+...- .-|+.||-+||.+.+|+++..+|.. + ..+. ..++
T Consensus 13 ~~~~l~~llr~~-N~C~~~~~e~~L~~~~~~-------~eL~~lY~~kg~h~~AL~ll~~l~~---~--~~~~---~~~~ 76 (108)
T PF10366_consen 13 NPSLLGPLLRLP-NYCDLEEVEEVLKEHGKY-------QELVDLYQGKGLHRKALELLKKLAD---E--EDSD---EEDP 76 (108)
T ss_pred CHHHHHHHHccC-CcCCHHHHHHHHHHcCCH-------HHHHHHHHccCccHHHHHHHHHHhc---c--cccc---cccc
Confidence 557888899999 877777788899876653 3678888899999999999999962 1 1000 0001
Q ss_pred HhHhhHHHHHHHHHHHhhhCcHHHHHHH
Q 002059 659 RMQSQIHWRTKFIDTSIELLPEVQRQLL 686 (973)
Q Consensus 659 r~r~~s~~R~~Lv~~y~~~LP~VQR~l~ 686 (973)
-... -..+|-+|.+-||..+..++
T Consensus 77 ~~~~----~~~~iv~yL~~L~~~~~dLI 100 (108)
T PF10366_consen 77 FLSG----VKETIVQYLQKLGNEDLDLI 100 (108)
T ss_pred cccC----chhHHHHHHHhCChhhhHHH
Confidence 0111 11336689999998887776
No 27
>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1.
Probab=68.70 E-value=10 Score=39.63 Aligned_cols=93 Identities=19% Similarity=0.077 Sum_probs=58.3
Q ss_pred cccCCCchHHHHHHHHhccCCchhhhhhHHHHHHHhhccCCcCCCcchhhHHHHHHhHcCCChhhHHHHhHhhhccCCCc
Q 002059 376 SGCYPFENLRAAVDILFLHGSSDLVLAKQAIFLYYLFDRHWTMPDENWRHIVDDFAATFSITRHSLLESLTFYLLDDQAD 455 (973)
Q Consensus 376 ~g~YPP~SLraLld~ill~~ssd~~~aKqAI~lYlLLD~~~~~p~~~~~~lle~Fa~tF~Ip~~~~l~iqgfWlLDdh~d 455 (973)
.+..|++.+..++=.++. ..|+.-.++.|+=.+.+.+.+. ++ .....+|.-+ .
T Consensus 23 ~~i~~~~~L~~lli~lLi-------~~~~~~~L~qllq~~Vi~DSk~---lA--------------~~LLs~~~~~---~ 75 (167)
T PF07035_consen 23 HNIPVQHELYELLIDLLI-------RNGQFSQLHQLLQYHVIPDSKP---LA--------------CQLLSLGNQY---P 75 (167)
T ss_pred cCCCCCHHHHHHHHHHHH-------HcCCHHHHHHHHhhcccCCcHH---HH--------------HHHHHhHccC---h
Confidence 346789999886644333 3455556666666665533332 11 1112222222 2
Q ss_pred hHHHHHhhhCCCCCCCCChHHHHHHHHhCCCchhHHHHHHHh
Q 002059 456 EALQEACHLLPEISGPTTHPKIAQVLLERENPEAALMVLRWS 497 (973)
Q Consensus 456 ~aleeAl~LLP~is~pw~h~kIlqvLl~rg~~d~AL~ylr~~ 497 (973)
...+-|+++|-... .-|..|+++|+..|+.-.||+|++..
T Consensus 76 ~~~Ql~lDMLkRL~--~~~~~iievLL~~g~vl~ALr~ar~~ 115 (167)
T PF07035_consen 76 PAYQLGLDMLKRLG--TAYEEIIEVLLSKGQVLEALRYARQY 115 (167)
T ss_pred HHHHHHHHHHHHhh--hhHHHHHHHHHhCCCHHHHHHHHHHc
Confidence 34588888874433 24889999999999999999999986
No 28
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=66.40 E-value=2.7 Score=48.84 Aligned_cols=45 Identities=24% Similarity=0.544 Sum_probs=36.0
Q ss_pred cchhhcccCCchhhhhHhhhhc------cCCCcccccccCCccccchhhHHH
Q 002059 71 YVQYVLNSCGHASLCAECRQRC------DFCPICRIPVPKKRNSIRLRLYDE 116 (973)
Q Consensus 71 ~~~~vl~~c~h~~lc~~c~~~~------~~cpicr~~Ipk~G~~~~~rLY~~ 116 (973)
+-|+-+-||||. +|.-|.--+ .-||.||-.|.-....+..++|.+
T Consensus 379 dKdvkIEPCGHL-lCt~CLa~WQ~sd~gq~CPFCRcEIKGte~viid~F~pr 429 (563)
T KOG1785|consen 379 DKDVKIEPCGHL-LCTSCLAAWQDSDEGQTCPFCRCEIKGTEPVIIDPFDPR 429 (563)
T ss_pred CCCcccccccch-HHHHHHHhhcccCCCCCCCceeeEeccccceeeeccCCC
Confidence 456778899995 799886544 479999999999999888777763
No 29
>PLN03077 Protein ECB2; Provisional
Probab=64.77 E-value=1.7e+02 Score=37.11 Aligned_cols=126 Identities=14% Similarity=0.064 Sum_probs=73.6
Q ss_pred hHHHHHHHHhCCCchhHHHHHHHhcCCCCCCccCHHHHHHHHHHHHhcCChhHHHHHhhhhchHHHhhhhccCCCCCccc
Q 002059 474 HPKIAQVLLERENPEAALMVLRWSGRDGGSLLVSLSEAVTAVRIRVECALLTEAFTYQRMLCTKVREKKLKFGTIGETFD 553 (973)
Q Consensus 474 h~kIlqvLl~rg~~d~AL~ylr~~g~d~~P~l~SlsEA~l~l~VlLan~lItEAF~~qR~~~~~v~e~~~~~~~~~~~~~ 553 (973)
...+|..+...|+.+.|.+++..+. .|.+.+. -..+.....+|.+.||+.+-+.-... .. ..
T Consensus 326 ~n~Li~~y~k~g~~~~A~~vf~~m~---~~d~~s~---n~li~~~~~~g~~~~A~~lf~~M~~~----g~--------~P 387 (857)
T PLN03077 326 CNSLIQMYLSLGSWGEAEKVFSRME---TKDAVSW---TAMISGYEKNGLPDKALETYALMEQD----NV--------SP 387 (857)
T ss_pred HHHHHHHHHhcCCHHHHHHHHhhCC---CCCeeeH---HHHHHHHHhCCCHHHHHHHHHHHHHh----CC--------CC
Confidence 3447777788999999999988885 2444443 35677788889999998886643111 00 01
Q ss_pred ccccCcchhHHHHHHHHHHHHHHhhhhhhHHHhhcCCCCchhHHHHHHHHcccCCCCCCCCcchhhHHHHHhhcChHHHH
Q 002059 554 DLQGGFKTWEQWLEVLVTEICCLCIRRNLVDRMIELPWNTDEEKYLHKCLLDSATDDPSTTVGSLLVVFYIQRYRYAEAY 633 (973)
Q Consensus 554 dL~g~~~~w~~~~E~Ll~~~f~~C~~~~~ld~LL~LPLd~eEEk~L~k~L~~~~~~~~~~~~~sLLlVyyLQR~RYiEAv 633 (973)
|. ..+..+...|...+.+++- ..+++++.+... .+...+.+.|+-.|.+.|++.+|.
T Consensus 388 d~------------~t~~~ll~a~~~~g~~~~a----------~~l~~~~~~~g~-~~~~~~~n~Li~~y~k~g~~~~A~ 444 (857)
T PLN03077 388 DE------------ITIASVLSACACLGDLDVG----------VKLHELAERKGL-ISYVVVANALIEMYSKCKCIDKAL 444 (857)
T ss_pred Cc------------eeHHHHHHHHhccchHHHH----------HHHHHHHHHhCC-CcchHHHHHHHHHHHHcCCHHHHH
Confidence 10 1233344455555544432 223444443322 222233456677778888888888
Q ss_pred HHHHHhh
Q 002059 634 QVNLKLQ 640 (973)
Q Consensus 634 ~v~~kL~ 640 (973)
++..++.
T Consensus 445 ~vf~~m~ 451 (857)
T PLN03077 445 EVFHNIP 451 (857)
T ss_pred HHHHhCC
Confidence 8877764
No 30
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=63.31 E-value=31 Score=43.63 Aligned_cols=161 Identities=18% Similarity=0.122 Sum_probs=97.4
Q ss_pred hhccCCCchHHHHHhhhCCCCCC--C-CChHH----HHHHHHhCCCchhHHHHHHHhcCCCCCCccCHHHHHHHHHHHHh
Q 002059 448 YLLDDQADEALQEACHLLPEISG--P-TTHPK----IAQVLLERENPEAALMVLRWSGRDGGSLLVSLSEAVTAVRIRVE 520 (973)
Q Consensus 448 WlLDdh~d~aleeAl~LLP~is~--p-w~h~k----IlqvLl~rg~~d~AL~ylr~~g~d~~P~l~SlsEA~l~l~VlLa 520 (973)
|+|- |.-| ++|++..-.... | ....+ +|.-|+..|+++.|=+...-+-+ ..+.+.+..+++..+
T Consensus 365 Wll~-~k~y--eeAl~~~k~~~~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~g------n~~~eWe~~V~~f~e 435 (846)
T KOG2066|consen 365 WLLE-KKKY--EEALDAAKASIGNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLG------NNAAEWELWVFKFAE 435 (846)
T ss_pred HHHH-hhHH--HHHHHHHHhccCCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhc------chHHHHHHHHHHhcc
Confidence 8888 8888 888887421111 1 22333 67778899999998776655532 257899999999999
Q ss_pred cCChhHHHHHhhhhchHHHhhhhccCCCCCcccccccCcchhHHHHHHHHHHHHHHhhhhhhHHHhhcCCCCchhHHHHH
Q 002059 521 CALLTEAFTYQRMLCTKVREKKLKFGTIGETFDDLQGGFKTWEQWLEVLVTEICCLCIRRNLVDRMIELPWNTDEEKYLH 600 (973)
Q Consensus 521 n~lItEAF~~qR~~~~~v~e~~~~~~~~~~~~~dL~g~~~~w~~~~E~Ll~~~f~~C~~~~~ld~LL~LPLd~eEEk~L~ 600 (973)
++++++=+-|.-..+.+++- ...|.++.+++. -...+-++-+-+-|-+-.=-.++.
T Consensus 436 ~~~l~~Ia~~lPt~~~rL~p-----------------------~vYemvLve~L~-~~~~~F~e~i~~Wp~~Lys~l~ii 491 (846)
T KOG2066|consen 436 LDQLTDIAPYLPTGPPRLKP-----------------------LVYEMVLVEFLA-SDVKGFLELIKEWPGHLYSVLTII 491 (846)
T ss_pred ccccchhhccCCCCCcccCc-----------------------hHHHHHHHHHHH-HHHHHHHHHHHhCChhhhhhhHHH
Confidence 99999988886555443221 124444444443 233344444444444333322332
Q ss_pred HHHcccC-CCCCCCCcchhhHHHHHhhcChHHHHHHHHHhhh
Q 002059 601 KCLLDSA-TDDPSTTVGSLLVVFYIQRYRYAEAYQVNLKLQS 641 (973)
Q Consensus 601 k~L~~~~-~~~~~~~~~sLLlVyyLQR~RYiEAv~v~~kL~~ 641 (973)
.-....- ...-.++..++|.-.|+-.+.|..|.+.+-+++.
T Consensus 492 sa~~~q~~q~Se~~~L~e~La~LYl~d~~Y~~Al~~ylklk~ 533 (846)
T KOG2066|consen 492 SATEPQIKQNSESTALLEVLAHLYLYDNKYEKALPIYLKLQD 533 (846)
T ss_pred hhcchHHHhhccchhHHHHHHHHHHHccChHHHHHHHHhccC
Confidence 2221110 0011123456788889999999999999999974
No 31
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.49 E-value=4 Score=41.99 Aligned_cols=25 Identities=48% Similarity=1.111 Sum_probs=21.9
Q ss_pred hcccCCchhhhhHhhhhcc----CCCcccc
Q 002059 75 VLNSCGHASLCAECRQRCD----FCPICRI 100 (973)
Q Consensus 75 vl~~c~h~~lc~~c~~~~~----~cpicr~ 100 (973)
+++||||. .|..|.+.+- .||.||.
T Consensus 27 ~~l~C~H~-~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 27 VLLPCGHN-FCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred ccccccch-HhHHHHHHhcCCCcCCcccCC
Confidence 88999995 6999999874 8999994
No 32
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=62.02 E-value=3.5e+02 Score=33.51 Aligned_cols=25 Identities=12% Similarity=0.030 Sum_probs=19.0
Q ss_pred chhhHHHHHhhcChHHHHHHHHHhh
Q 002059 616 GSLLVVFYIQRYRYAEAYQVNLKLQ 640 (973)
Q Consensus 616 ~sLLlVyyLQR~RYiEAv~v~~kL~ 640 (973)
=..++--|.+.|++.||+++.++++
T Consensus 293 ~n~li~~y~~~g~~~eA~~lf~~M~ 317 (697)
T PLN03081 293 WNSMLAGYALHGYSEEALCLYYEMR 317 (697)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHHH
Confidence 4566777788888888888888774
No 33
>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.
Probab=61.86 E-value=16 Score=43.45 Aligned_cols=82 Identities=22% Similarity=0.235 Sum_probs=53.8
Q ss_pred cCCChhhHHHHhHhhhccCCCchHHHH------HhhhCCCCCCCCChHHHHHHHHhCCCchhHHHHHHHhcCCCCCCccC
Q 002059 434 FSITRHSLLESLTFYLLDDQADEALQE------ACHLLPEISGPTTHPKIAQVLLERENPEAALMVLRWSGRDGGSLLVS 507 (973)
Q Consensus 434 F~Ip~~~~l~iqgfWlLDdh~d~alee------Al~LLP~is~pw~h~kIlqvLl~rg~~d~AL~ylr~~g~d~~P~l~S 507 (973)
+.|+...+.+-.+... .|+ ++ +=.++|.|. +.++.+|+.-|-.+|.++.||.+.+-
T Consensus 259 ~~ld~~~~~fk~av~~----~d~--~~v~~~i~~~~ll~~i~-~~~~~~i~~fL~~~G~~e~AL~~~~D----------- 320 (443)
T PF04053_consen 259 YELDLSELEFKTAVLR----GDF--EEVLRMIAASNLLPNIP-KDQGQSIARFLEKKGYPELALQFVTD----------- 320 (443)
T ss_dssp EE--HHHHHHHHHHHT----T-H--HH-----HHHHTGGG---HHHHHHHHHHHHHTT-HHHHHHHSS------------
T ss_pred EEECHHHHHHHHHHHc----CCh--hhhhhhhhhhhhcccCC-hhHHHHHHHHHHHCCCHHHHHhhcCC-----------
Confidence 4455555555555432 445 55 244556655 46688899999999999999998322
Q ss_pred HHHHHHHHHHHHhcCChhHHHHHhhhhch
Q 002059 508 LSEAVTAVRIRVECALLTEAFTYQRMLCT 536 (973)
Q Consensus 508 lsEA~l~l~VlLan~lItEAF~~qR~~~~ 536 (973)
-..-+.+.|++|.+.+|+..++...+
T Consensus 321 ---~~~rFeLAl~lg~L~~A~~~a~~~~~ 346 (443)
T PF04053_consen 321 ---PDHRFELALQLGNLDIALEIAKELDD 346 (443)
T ss_dssp ---HHHHHHHHHHCT-HHHHHHHCCCCST
T ss_pred ---hHHHhHHHHhcCCHHHHHHHHHhcCc
Confidence 24788899999999999999887654
No 34
>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=59.74 E-value=4.5 Score=34.12 Aligned_cols=31 Identities=13% Similarity=0.230 Sum_probs=23.9
Q ss_pred hhhcccCCchhhhhHhhhhc----cCCCcccccccC
Q 002059 73 QYVLNSCGHASLCAECRQRC----DFCPICRIPVPK 104 (973)
Q Consensus 73 ~~vl~~c~h~~lc~~c~~~~----~~cpicr~~Ipk 104 (973)
+-|+.+||| +-|..|-.+. ..||+|+.++..
T Consensus 13 ~Pv~~~~G~-v~~~~~i~~~~~~~~~cP~~~~~~~~ 47 (63)
T smart00504 13 DPVILPSGQ-TYERRAIEKWLLSHGTDPVTGQPLTH 47 (63)
T ss_pred CCEECCCCC-EEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence 358889996 5688887755 469999999854
No 35
>KOG2377 consensus Uncharacterized conserved protein [Function unknown]
Probab=59.43 E-value=6.4 Score=46.87 Aligned_cols=48 Identities=31% Similarity=0.291 Sum_probs=38.3
Q ss_pred HhhhccCCCch---HHHHHhhhCCCCCCCCChHHHHHHHHhCCCchhHHHHHHHh
Q 002059 446 TFYLLDDQADE---ALQEACHLLPEISGPTTHPKIAQVLLERENPEAALMVLRWS 497 (973)
Q Consensus 446 gfWlLDdh~d~---aleeAl~LLP~is~pw~h~kIlqvLl~rg~~d~AL~ylr~~ 497 (973)
+|.+|| |+.+ .-+-++++|-.++. |..||++|+.+|+.-.||+|++..
T Consensus 547 Ac~LLs-~~~~~~~~~ql~lDML~rlsa---H~~iIevll~~G~vl~ALR~A~~~ 597 (657)
T KOG2377|consen 547 ACLLLS-LESFYPPAHQLSLDMLKRLSA---HDEIIEVLLSKGQVLAALRFARGI 597 (657)
T ss_pred eEEEec-ccCcCccHHHHhHHHHhhhhh---hHHHHHHHHcCchHHHHHHHHhhc
Confidence 677888 7644 44667777766554 899999999999999999999954
No 36
>PLN03077 Protein ECB2; Provisional
Probab=58.92 E-value=3.2e+02 Score=34.71 Aligned_cols=124 Identities=14% Similarity=0.071 Sum_probs=80.1
Q ss_pred hHHHHHHHHhCCCchhHHHHHHHhcCCCCCCccCHHHHHHHHHHHHhcCChhHHHHHhhhhchHHHhhhhccCCCCCccc
Q 002059 474 HPKIAQVLLERENPEAALMVLRWSGRDGGSLLVSLSEAVTAVRIRVECALLTEAFTYQRMLCTKVREKKLKFGTIGETFD 553 (973)
Q Consensus 474 h~kIlqvLl~rg~~d~AL~ylr~~g~d~~P~l~SlsEA~l~l~VlLan~lItEAF~~qR~~~~~v~e~~~~~~~~~~~~~ 553 (973)
...+|..+...|+.+.|+.++..+.. +.+.+. -..+.....+|...||+.+-+.....+ .+
T Consensus 427 ~n~Li~~y~k~g~~~~A~~vf~~m~~---~d~vs~---~~mi~~~~~~g~~~eA~~lf~~m~~~~-------------~p 487 (857)
T PLN03077 427 ANALIEMYSKCKCIDKALEVFHNIPE---KDVISW---TSIIAGLRLNNRCFEALIFFRQMLLTL-------------KP 487 (857)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHhCCC---CCeeeH---HHHHHHHHHCCCHHHHHHHHHHHHhCC-------------CC
Confidence 44578888899999999999998852 444443 356777889999999999876643211 11
Q ss_pred ccccCcchhHHHHHHHHHHHHHHhhhhhhHHHhhcCCCCchhHHHHHHHHcccCCCCCCCCcchhhHHHHHhhcChHHHH
Q 002059 554 DLQGGFKTWEQWLEVLVTEICCLCIRRNLVDRMIELPWNTDEEKYLHKCLLDSATDDPSTTVGSLLVVFYIQRYRYAEAY 633 (973)
Q Consensus 554 dL~g~~~~w~~~~E~Ll~~~f~~C~~~~~ld~LL~LPLd~eEEk~L~k~L~~~~~~~~~~~~~sLLlVyyLQR~RYiEAv 633 (973)
|. ..+..++..|...+.++ +-+.++.++....... .....+.|+-.|.+.|++.+|.
T Consensus 488 d~------------~t~~~lL~a~~~~g~l~----------~~~~i~~~~~~~g~~~-~~~~~naLi~~y~k~G~~~~A~ 544 (857)
T PLN03077 488 NS------------VTLIAALSACARIGALM----------CGKEIHAHVLRTGIGF-DGFLPNALLDLYVRCGRMNYAW 544 (857)
T ss_pred CH------------hHHHHHHHHHhhhchHH----------HhHHHHHHHHHhCCCc-cceechHHHHHHHHcCCHHHHH
Confidence 11 23445566676655553 4556666666554332 2234556777778888888887
Q ss_pred HHHHHh
Q 002059 634 QVNLKL 639 (973)
Q Consensus 634 ~v~~kL 639 (973)
++....
T Consensus 545 ~~f~~~ 550 (857)
T PLN03077 545 NQFNSH 550 (857)
T ss_pred HHHHhc
Confidence 776543
No 37
>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex. Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm
Probab=58.67 E-value=1.2e+02 Score=34.55 Aligned_cols=94 Identities=12% Similarity=0.056 Sum_probs=67.3
Q ss_pred HHHHHHhHcCCChhhHHHHhHhhhccCCCchHHHHHhhhCCC-CCCCCChHHHHHHHHhCCCchhHHHHHHHhcCCCCCC
Q 002059 426 IVDDFAATFSITRHSLLESLTFYLLDDQADEALQEACHLLPE-ISGPTTHPKIAQVLLERENPEAALMVLRWSGRDGGSL 504 (973)
Q Consensus 426 lle~Fa~tF~Ip~~~~l~iqgfWlLDdh~d~aleeAl~LLP~-is~pw~h~kIlqvLl~rg~~d~AL~ylr~~g~d~~P~ 504 (973)
.+++....|.||.+-.=.+..--+.+ ..++ +.++-+.. -..|=-..-++.+++..|+++.|..|+.-.+
T Consensus 195 ~A~kl~k~Fkv~dkrfw~lki~aLa~-~~~w---~eL~~fa~skKsPIGyepFv~~~~~~~~~~eA~~yI~k~~------ 264 (319)
T PF04840_consen 195 QAEKLKKEFKVPDKRFWWLKIKALAE-NKDW---DELEKFAKSKKSPIGYEPFVEACLKYGNKKEASKYIPKIP------ 264 (319)
T ss_pred HHHHHHHHcCCcHHHHHHHHHHHHHh-cCCH---HHHHHHHhCCCCCCChHHHHHHHHHCCCHHHHHHHHHhCC------
Confidence 47899999999998766666666667 6666 23333322 2235333449999999999999999987752
Q ss_pred ccCHHHHHHHHHHHHhcCChhHHHHHhhhhc
Q 002059 505 LVSLSEAVTAVRIRVECALLTEAFTYQRMLC 535 (973)
Q Consensus 505 l~SlsEA~l~l~VlLan~lItEAF~~qR~~~ 535 (973)
. ..-+...+.||.+.||-..+...-
T Consensus 265 --~----~~rv~~y~~~~~~~~A~~~A~~~k 289 (319)
T PF04840_consen 265 --D----EERVEMYLKCGDYKEAAQEAFKEK 289 (319)
T ss_pred --h----HHHHHHHHHCCCHHHHHHHHHHcC
Confidence 1 356667799999999999876543
No 38
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=56.37 E-value=6.5 Score=44.51 Aligned_cols=56 Identities=32% Similarity=0.708 Sum_probs=42.8
Q ss_pred hcccchhhcccC--CchhhhhHhh-hhccCCCcccccccCCccccchhhHHHHHHcCCCCCCcc
Q 002059 68 CGRYVQYVLNSC--GHASLCAECR-QRCDFCPICRIPVPKKRNSIRLRLYDECVEAGLISKRCE 128 (973)
Q Consensus 68 cg~~~~~vl~~c--~h~~lc~~c~-~~~~~cpicr~~Ipk~G~~~~~rLY~~Cl~AGLip~~~~ 128 (973)
|.-+|--=..-| || -+|+.|+ ++=.+||-||.||++ +|-+.+.+=+++.++|=++.
T Consensus 54 C~~~l~~Pi~QC~nGH-laCssC~~~~~~~CP~Cr~~~g~----~R~~amEkV~e~~~vpC~~~ 112 (299)
T KOG3002|consen 54 CFNPLSPPIFQCDNGH-LACSSCRTKVSNKCPTCRLPIGN----IRCRAMEKVAEAVLVPCKNA 112 (299)
T ss_pred hhccCcccceecCCCc-EehhhhhhhhcccCCcccccccc----HHHHHHHHHHHhceeccccc
Confidence 333333333444 55 5899999 888999999999984 47889999999999998753
No 39
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=53.66 E-value=5.4 Score=47.77 Aligned_cols=34 Identities=32% Similarity=0.676 Sum_probs=24.3
Q ss_pred ccchhhcccCCchhhhhHh---------hhhccCCCcccccccC
Q 002059 70 RYVQYVLNSCGHASLCAEC---------RQRCDFCPICRIPVPK 104 (973)
Q Consensus 70 ~~~~~vl~~c~h~~lc~~c---------~~~~~~cpicr~~Ipk 104 (973)
-..-.++..|||. -|-.| ..+-..|||||..|-.
T Consensus 195 ~~~~p~~t~CGHi-FC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 195 PPSVPVRTNCGHI-FCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCCcccccccCce-eeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 3455677889996 46666 3455789999998753
No 40
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=53.21 E-value=8.1 Score=48.09 Aligned_cols=48 Identities=29% Similarity=0.701 Sum_probs=37.7
Q ss_pred HHhhccchhhhhc-ccchhhcccCCchhhhhHhhh-----hccCCCcccccccCC
Q 002059 57 EHCRATRDLRSCG-RYVQYVLNSCGHASLCAECRQ-----RCDFCPICRIPVPKK 105 (973)
Q Consensus 57 e~cra~rd~~scg-~~~~~vl~~c~h~~lc~~c~~-----~~~~cpicr~~Ipk~ 105 (973)
..||++==..+|- |.=|+|+.-||| +.|.+|.+ |-.+||.|-.+-.-|
T Consensus 638 k~yK~~LkCs~Cn~R~Kd~vI~kC~H-~FC~~Cvq~r~etRqRKCP~Cn~aFgan 691 (698)
T KOG0978|consen 638 KEYKELLKCSVCNTRWKDAVITKCGH-VFCEECVQTRYETRQRKCPKCNAAFGAN 691 (698)
T ss_pred HHHHhceeCCCccCchhhHHHHhcch-HHHHHHHHHHHHHhcCCCCCCCCCCCcc
Confidence 3577776667775 678999999999 57999997 578999998775443
No 41
>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]
Probab=48.22 E-value=4.3e+02 Score=35.61 Aligned_cols=156 Identities=19% Similarity=0.189 Sum_probs=86.4
Q ss_pred HHhHcCCChhhHHHHhHhhhccCCCchHHHHHhhhC------C-C----CCCCCChHHHH----HHHHhCCCchhHHHHH
Q 002059 430 FAATFSITRHSLLESLTFYLLDDQADEALQEACHLL------P-E----ISGPTTHPKIA----QVLLERENPEAALMVL 494 (973)
Q Consensus 430 Fa~tF~Ip~~~~l~iqgfWlLDdh~d~aleeAl~LL------P-~----is~pw~h~kIl----qvLl~rg~~d~AL~yl 494 (973)
--+.|.|...+--...|+.||=.-+.....++.+++ + + .-++.....|. .-|.+.+.++.|....
T Consensus 883 ~~rkF~ID~~L~ry~~AL~hLs~~~~~~~~e~~n~I~kh~Ly~~aL~ly~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Y 962 (1265)
T KOG1920|consen 883 LLRKFKIDDYLKRYEDALSHLSECGETYFPECKNYIKKHGLYDEALALYKPDSEKQKVIYEAYADHLREELMSDEAALMY 962 (1265)
T ss_pred hhhheeHHHHHHHHHHHHHHHHHcCccccHHHHHHHHhcccchhhhheeccCHHHHHHHHHHHHHHHHHhccccHHHHHH
Confidence 347888888888888888888632321234555543 0 0 11122223333 3466677777765444
Q ss_pred HHhcCCCCCCccCHHHHHHHHHHHHhcCChhHHHHHhhhhchHHHhhhhccCCCCCcccccccCcchhHHHHHHHHHHHH
Q 002059 495 RWSGRDGGSLLVSLSEAVTAVRIRVECALLTEAFTYQRMLCTKVREKKLKFGTIGETFDDLQGGFKTWEQWLEVLVTEIC 574 (973)
Q Consensus 495 r~~g~d~~P~l~SlsEA~l~l~VlLan~lItEAF~~qR~~~~~v~e~~~~~~~~~~~~~dL~g~~~~w~~~~E~Ll~~~f 574 (973)
...| .+++| +.-..+|+.+.||+..+++.....- ++ ..+.+.|+.
T Consensus 963 e~~G--------klekA---l~a~~~~~dWr~~l~~a~ql~~~~d--------------e~-------~~~a~~L~s--- 1007 (1265)
T KOG1920|consen 963 ERCG--------KLEKA---LKAYKECGDWREALSLAAQLSEGKD--------------EL-------VILAEELVS--- 1007 (1265)
T ss_pred HHhc--------cHHHH---HHHHHHhccHHHHHHHHHhhcCCHH--------------HH-------HHHHHHHHH---
Confidence 4443 35555 4556789999999999886432211 00 111233333
Q ss_pred HHhhhhhhHHHhhcCCCCchhHHHHHHHHcccCCCCCCCCcchhhHHHHHhhcChHHHHHHHHHhh
Q 002059 575 CLCIRRNLVDRMIELPWNTDEEKYLHKCLLDSATDDPSTTVGSLLVVFYIQRYRYAEAYQVNLKLQ 640 (973)
Q Consensus 575 ~~C~~~~~ld~LL~LPLd~eEEk~L~k~L~~~~~~~~~~~~~sLLlVyyLQR~RYiEAv~v~~kL~ 640 (973)
.|.+.++-. +--+.+.+||.+... .+.-|+.-..|.||..+..+-+
T Consensus 1008 -~L~e~~kh~---------eAa~il~e~~sd~~~----------av~ll~ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1008 -RLVEQRKHY---------EAAKILLEYLSDPEE----------AVALLCKAKEWEEALRVASKAK 1053 (1265)
T ss_pred -HHHHcccch---------hHHHHHHHHhcCHHH----------HHHHHhhHhHHHHHHHHHHhcc
Confidence 333322222 122445566654322 2666788889999998887654
No 42
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=45.43 E-value=11 Score=42.67 Aligned_cols=48 Identities=31% Similarity=0.676 Sum_probs=33.4
Q ss_pred HHHhccCChHHHhHHhhHHHhhccchhhhhcccch-hhcccCCchhhhhHhhhh----ccCCCcccccccC
Q 002059 39 LEHLASIDLCELRYEAKVEHCRATRDLRSCGRYVQ-YVLNSCGHASLCAECRQR----CDFCPICRIPVPK 104 (973)
Q Consensus 39 l~~la~~~~~~l~~ea~~e~cra~rd~~scg~~~~-~vl~~c~h~~lc~~c~~~----~~~cpicr~~Ipk 104 (973)
|..|-+++.+-+|++ +|. -|+.+|||- .|+.|-++ =+.||.||-+--.
T Consensus 19 L~~LDs~lrC~IC~~-----------------~i~ip~~TtCgHt-FCslCIR~hL~~qp~CP~Cr~~~~e 71 (391)
T COG5432 19 LKGLDSMLRCRICDC-----------------RISIPCETTCGHT-FCSLCIRRHLGTQPFCPVCREDPCE 71 (391)
T ss_pred hhcchhHHHhhhhhh-----------------eeecceecccccc-hhHHHHHHHhcCCCCCccccccHHh
Confidence 566666666555543 232 367899995 79999876 4799999987543
No 43
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=45.21 E-value=7.1 Score=45.65 Aligned_cols=27 Identities=30% Similarity=0.801 Sum_probs=0.0
Q ss_pred chhhcccCCchhhhhHhhhhc-----------------cCCCccccccc
Q 002059 72 VQYVLNSCGHASLCAECRQRC-----------------DFCPICRIPVP 103 (973)
Q Consensus 72 ~~~vl~~c~h~~lc~~c~~~~-----------------~~cpicr~~Ip 103 (973)
-.|+|+||||.|. +++ -.||.|-.++.
T Consensus 358 pthaF~PCGHv~S-----ekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~ 401 (416)
T PF04710_consen 358 PTHAFNPCGHVCS-----EKTAKYWSQIPLPHGTHAFHAACPFCATPLD 401 (416)
T ss_dssp -------------------------------------------------
T ss_pred Cceeecccccccc-----hhhhhhhhcCCCCCCcccccccCCcccCccc
Confidence 3579999999863 333 47999988886
No 44
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=42.60 E-value=8.6 Score=32.88 Aligned_cols=33 Identities=42% Similarity=0.896 Sum_probs=21.9
Q ss_pred hhhcccCCchhhhhHhhh----hccCCCcccccccCC
Q 002059 73 QYVLNSCGHASLCAECRQ----RCDFCPICRIPVPKK 105 (973)
Q Consensus 73 ~~vl~~c~h~~lc~~c~~----~~~~cpicr~~Ipk~ 105 (973)
+-=|.-|.-+-||-.|-. +=+.||||-.|+|+.
T Consensus 12 ~k~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 12 NKGLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp -SSEEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred CCCeeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 334678999999999976 468999999999974
No 45
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=41.96 E-value=4.8e+02 Score=32.36 Aligned_cols=26 Identities=31% Similarity=0.231 Sum_probs=22.0
Q ss_pred chhhHHHHHhhcChHHHHHHHHHhhh
Q 002059 616 GSLLVVFYIQRYRYAEAYQVNLKLQS 641 (973)
Q Consensus 616 ~sLLlVyyLQR~RYiEAv~v~~kL~~ 641 (973)
-.+++-.|.+.|++.||.++...+++
T Consensus 531 y~~L~~~y~~~G~~~~A~~v~~~m~~ 556 (697)
T PLN03081 531 YVVLLNLYNSSGRQAEAAKVVETLKR 556 (697)
T ss_pred hHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 34667779999999999999999873
No 46
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=40.68 E-value=12 Score=44.88 Aligned_cols=30 Identities=40% Similarity=1.099 Sum_probs=22.0
Q ss_pred hhcccCCchhhhhHhhhhc-c----CCCcccccccC
Q 002059 74 YVLNSCGHASLCAECRQRC-D----FCPICRIPVPK 104 (973)
Q Consensus 74 ~vl~~c~h~~lc~~c~~~~-~----~cpicr~~Ipk 104 (973)
+.|.||-|. -=+-|.+++ + .||.||.|+|-
T Consensus 601 Ym~tPC~Hi-fH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 601 YMLTPCHHI-FHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred ccccchHHH-HHHHHHHHHHhhhcccCCccCCCCCC
Confidence 557799764 346677664 3 79999999983
No 47
>KOG4182 consensus Uncharacterized conserved protein [Function unknown]
Probab=38.76 E-value=8.5e+02 Score=30.15 Aligned_cols=27 Identities=19% Similarity=0.183 Sum_probs=21.3
Q ss_pred hHhhHHHHHHHHHHHhhhCcHHHHHHH
Q 002059 660 MQSQIHWRTKFIDTSIELLPEVQRQLL 686 (973)
Q Consensus 660 ~r~~s~~R~~Lv~~y~~~LP~VQR~l~ 686 (973)
+.+-.-.-+.|+.+|++++-+++|++-
T Consensus 479 a~eLIlaLddI~~q~iem~~e~lkqi~ 505 (828)
T KOG4182|consen 479 ACELILALDDIFKQQIEMFGEILKQIG 505 (828)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 345555677889999999999999885
No 48
>PF05478 Prominin: Prominin; InterPro: IPR008795 The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology. Mouse and Homo sapiens prominin and (Mus musculus) prominin-like 1 (PROML1) are predicted to contain five membrane spanning domains, with an N-terminal domain exposed to the extracellular space followed by four, alternating small cytoplasmic and large extracellular, loops and a cytoplasmic C-terminal domain []. The exact function of prominin is unknown although in humans defects in PROM1, the gene coding for prominin, cause retinal degeneration [].; GO: 0016021 integral to membrane
Probab=38.53 E-value=3.5e+02 Score=34.75 Aligned_cols=24 Identities=29% Similarity=0.454 Sum_probs=16.7
Q ss_pred hhhHhhhhccCCCcccccccCCcc
Q 002059 84 LCAECRQRCDFCPICRIPVPKKRN 107 (973)
Q Consensus 84 lc~~c~~~~~~cpicr~~Ipk~G~ 107 (973)
+|--||+=|..|+-|..+-.+.+.
T Consensus 112 ~~fCcCRCc~~CGg~~~~~~~~~~ 135 (806)
T PF05478_consen 112 LCFCCCRCCGNCGGRMHQRDKKND 135 (806)
T ss_pred HHHhccccCCCcCCcccccccccc
Confidence 366788778888888755555444
No 49
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=35.92 E-value=17 Score=42.03 Aligned_cols=33 Identities=33% Similarity=0.813 Sum_probs=26.4
Q ss_pred ccCCchhhhhHhhhhcc-----------CCCcccccccCCccccc
Q 002059 77 NSCGHASLCAECRQRCD-----------FCPICRIPVPKKRNSIR 110 (973)
Q Consensus 77 ~~c~h~~lc~~c~~~~~-----------~cpicr~~Ipk~G~~~~ 110 (973)
.+|-| +.|-.|..++. .||+||.++.-.+....
T Consensus 185 pnC~H-~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~pS~~ 228 (344)
T KOG1039|consen 185 PNCNH-SFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNPSSF 228 (344)
T ss_pred CCcch-hhhhcHhHhhhhhhccccccccCCCcccCccccccccce
Confidence 78999 58999988764 89999999877666443
No 50
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=35.69 E-value=6.5e+02 Score=27.93 Aligned_cols=55 Identities=13% Similarity=0.013 Sum_probs=32.5
Q ss_pred HHHHHHhCCCchhHHHHHHHhcCCCCCCccCHHHHHHHHHHHHhcCChhHHHHHhhhh
Q 002059 477 IAQVLLERENPEAALMVLRWSGRDGGSLLVSLSEAVTAVRIRVECALLTEAFTYQRML 534 (973)
Q Consensus 477 IlqvLl~rg~~d~AL~ylr~~g~d~~P~l~SlsEA~l~l~VlLan~lItEAF~~qR~~ 534 (973)
+...+...|+++.|+.++...-... | ....-......+....|...+|....+..
T Consensus 113 La~~~~~~g~~~~A~~~~~~~l~~~-~--~~~~~~~~la~~~~~~g~~~~A~~~~~~~ 167 (389)
T PRK11788 113 LGQDYLKAGLLDRAEELFLQLVDEG-D--FAEGALQQLLEIYQQEKDWQKAIDVAERL 167 (389)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHcCC-c--chHHHHHHHHHHHHHhchHHHHHHHHHHH
Confidence 4566677888888887776663211 1 11122223445666777888887765543
No 51
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=35.48 E-value=15 Score=41.92 Aligned_cols=28 Identities=32% Similarity=0.923 Sum_probs=13.7
Q ss_pred cccCCchhhhhHhhhhcc--CCCcccccccC
Q 002059 76 LNSCGHASLCAECRQRCD--FCPICRIPVPK 104 (973)
Q Consensus 76 l~~c~h~~lc~~c~~~~~--~cpicr~~Ipk 104 (973)
+.||.|+ .|-+|+.-=. +||.|-.+|.+
T Consensus 106 mIPCkHv-FCl~CAr~~~dK~Cp~C~d~Vqr 135 (389)
T KOG2932|consen 106 MIPCKHV-FCLECARSDSDKICPLCDDRVQR 135 (389)
T ss_pred ccccchh-hhhhhhhcCccccCcCcccHHHH
Confidence 4455553 4555554332 55555554443
No 52
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=35.40 E-value=18 Score=41.67 Aligned_cols=61 Identities=26% Similarity=0.544 Sum_probs=41.1
Q ss_pred hhcccCCchhhhhHhhhhc----cCCCcccccccCCccccchhhHHHHHHcCCCCCCccCCCccccccccccchHHHHHH
Q 002059 74 YVLNSCGHASLCAECRQRC----DFCPICRIPVPKKRNSIRLRLYDECVEAGLISKRCEEGYHDFEDAENQITADVQRLY 149 (973)
Q Consensus 74 ~vl~~c~h~~lc~~c~~~~----~~cpicr~~Ipk~G~~~~~rLY~~Cl~AGLip~~~~~~f~~~~~~~~~~~~DVqRl~ 149 (973)
.|+.||||- .|+.|-++= ..||.|+.++.++-=|- -++..+-++ . -.+.|=+
T Consensus 36 p~itpCsHt-fCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~-n~il~Eiv~----------S------------~~~~R~~ 91 (442)
T KOG0287|consen 36 PMITPCSHT-FCSLCIRKFLSYKPQCPTCCVTVTESDLRN-NRILDEIVK----------S------------LNFARNH 91 (442)
T ss_pred ceeccccch-HHHHHHHHHhccCCCCCceecccchhhhhh-hhHHHHHHH----------H------------HHHHHHH
Confidence 378899995 799998763 67999999887653221 244444221 1 2566744
Q ss_pred HHHHHHHHcC
Q 002059 150 SLFDTALENN 159 (973)
Q Consensus 150 ~LfdvALEnn 159 (973)
||+++++-+
T Consensus 92 -Ll~fl~~~~ 100 (442)
T KOG0287|consen 92 -LLQFLLESP 100 (442)
T ss_pred -HHHHHhcCC
Confidence 888888776
No 53
>PF04641 Rtf2: Rtf2 RING-finger
Probab=34.83 E-value=19 Score=39.64 Aligned_cols=46 Identities=22% Similarity=0.471 Sum_probs=31.6
Q ss_pred HhhccchhhhhcccchhhcccCCchhhhhHhhhhcc---CCCcccccccCC
Q 002059 58 HCRATRDLRSCGRYVQYVLNSCGHASLCAECRQRCD---FCPICRIPVPKK 105 (973)
Q Consensus 58 ~cra~rd~~scg~~~~~vl~~c~h~~lc~~c~~~~~---~cpicr~~Ipk~ 105 (973)
.|=-|..-- -|+.==++|-||||+ .|..|.+.-+ .||+|-.|..+.
T Consensus 115 ~CPvt~~~~-~~~~~fv~l~~cG~V-~s~~alke~k~~~~Cp~c~~~f~~~ 163 (260)
T PF04641_consen 115 ICPVTGKEF-NGKHKFVYLRPCGCV-FSEKALKELKKSKKCPVCGKPFTEE 163 (260)
T ss_pred ECCCCCccc-CCceeEEEEcCCCCE-eeHHHHHhhcccccccccCCccccC
Confidence 455554322 344445667799995 5677777777 899999998854
No 54
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.58 E-value=19 Score=41.69 Aligned_cols=33 Identities=21% Similarity=0.645 Sum_probs=23.6
Q ss_pred hhcccCCchhhhhHhhhh----c-cCCCcccccccCCcc
Q 002059 74 YVLNSCGHASLCAECRQR----C-DFCPICRIPVPKKRN 107 (973)
Q Consensus 74 ~vl~~c~h~~lc~~c~~~----~-~~cpicr~~Ipk~G~ 107 (973)
++++||+|.--| .|-+. + ..||+|+..|++.-.
T Consensus 245 lRiLPC~H~FH~-~CIDpWL~~~r~~CPvCK~di~~~~~ 282 (348)
T KOG4628|consen 245 LRILPCSHKFHV-NCIDPWLTQTRTFCPVCKRDIRTDSG 282 (348)
T ss_pred eeEecCCCchhh-ccchhhHhhcCccCCCCCCcCCCCCC
Confidence 467999997664 35443 3 569999998887543
No 55
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.36 E-value=20 Score=40.33 Aligned_cols=40 Identities=30% Similarity=0.670 Sum_probs=31.9
Q ss_pred hhcc--cchhhcccCCchhhhhHhhhh-cc-----CCCccccccc---CCcc
Q 002059 67 SCGR--YVQYVLNSCGHASLCAECRQR-CD-----FCPICRIPVP---KKRN 107 (973)
Q Consensus 67 scg~--~~~~vl~~c~h~~lc~~c~~~-~~-----~cpicr~~Ip---k~G~ 107 (973)
-||. .|-|+..+||| ..|-.|... |. .||-|-.+++ ++|-
T Consensus 244 ~Cg~~PtiP~~~~~C~H-iyCY~Ci~ts~~~~asf~Cp~Cg~~~~~lq~sgv 294 (298)
T KOG2879|consen 244 VCGEPPTIPHVIGKCGH-IYCYYCIATSRLWDASFTCPLCGENVEPLQASGV 294 (298)
T ss_pred ccCCCCCCCeeeccccc-eeehhhhhhhhcchhhcccCccCCCCcchhhccC
Confidence 3776 68899999999 789999753 44 8999988877 6663
No 56
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=32.83 E-value=3.8e+02 Score=33.96 Aligned_cols=175 Identities=13% Similarity=0.069 Sum_probs=90.8
Q ss_pred hHHHHHHhHcCCC---hhhHHHHhHhhhccCCCchHHHHHhhhCCCC--CCC-------CChHHHHHHHHhCCCchhHHH
Q 002059 425 HIVDDFAATFSIT---RHSLLESLTFYLLDDQADEALQEACHLLPEI--SGP-------TTHPKIAQVLLERENPEAALM 492 (973)
Q Consensus 425 ~lle~Fa~tF~Ip---~~~~l~iqgfWlLDdh~d~aleeAl~LLP~i--s~p-------w~h~kIlqvLl~rg~~d~AL~ 492 (973)
..+..|....... |.+.....+--++. -+++ ++|+.++-.+ ..| .....+..+++..|+++.|+.
T Consensus 255 eA~~~~~~ll~~~~~~P~~a~~~la~~yl~-~g~~--e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~ 331 (765)
T PRK10049 255 DVISEYQRLKAEGQIIPPWAQRWVASAYLK-LHQP--EKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALT 331 (765)
T ss_pred HHHHHHHHhhccCCCCCHHHHHHHHHHHHh-cCCc--HHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHH
Confidence 3445565555543 44444444555555 4555 5665554211 111 123446667888999999998
Q ss_pred HHHHhcCCCCCC--------ccCHH----HH-HHHHHHHHhcCChhHHHHHhhhhchHHHhhhhccCCCCCcccccccCc
Q 002059 493 VLRWSGRDGGSL--------LVSLS----EA-VTAVRIRVECALLTEAFTYQRMLCTKVREKKLKFGTIGETFDDLQGGF 559 (973)
Q Consensus 493 ylr~~g~d~~P~--------l~Sls----EA-~l~l~VlLan~lItEAF~~qR~~~~~v~e~~~~~~~~~~~~~dL~g~~ 559 (973)
++....... |+ ...+. ++ .+...+++..|...||....+....... .+ .+
T Consensus 332 ~l~~~~~~~-P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P---------~n--~~----- 394 (765)
T PRK10049 332 VTAHTINNS-PPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAP---------GN--QG----- 394 (765)
T ss_pred HHHHHhhcC-CceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC---------CC--HH-----
Confidence 877653211 21 00011 12 3455677888888999888665422211 00 01
Q ss_pred chhHHHHHHHHHHHHHHhhhhhhHHHhhcCCCCchhHHHHHHHHcccCCCCCCCCcchhhHHHHHhhcChHHHHHHHHHh
Q 002059 560 KTWEQWLEVLVTEICCLCIRRNLVDRMIELPWNTDEEKYLHKCLLDSATDDPSTTVGSLLVVFYIQRYRYAEAYQVNLKL 639 (973)
Q Consensus 560 ~~w~~~~E~Ll~~~f~~C~~~~~ld~LL~LPLd~eEEk~L~k~L~~~~~~~~~~~~~sLLlVyyLQR~RYiEAv~v~~kL 639 (973)
+.. .+...+...=..+.-++.|.+-|...+. ++ ...-.+.+-+++.++|.+|.++.+++
T Consensus 395 ---------l~~---------~lA~l~~~~g~~~~A~~~l~~al~l~Pd-~~--~l~~~~a~~al~~~~~~~A~~~~~~l 453 (765)
T PRK10049 395 ---------LRI---------DYASVLQARGWPRAAENELKKAEVLEPR-NI--NLEVEQAWTALDLQEWRQMDVLTDDV 453 (765)
T ss_pred ---------HHH---------HHHHHHHhcCCHHHHHHHHHHHHhhCCC-Ch--HHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence 111 1122222233334555666666644322 10 01124445688999999999999998
Q ss_pred h
Q 002059 640 Q 640 (973)
Q Consensus 640 ~ 640 (973)
.
T Consensus 454 l 454 (765)
T PRK10049 454 V 454 (765)
T ss_pred H
Confidence 6
No 57
>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.92 E-value=3.1e+02 Score=34.60 Aligned_cols=70 Identities=24% Similarity=0.258 Sum_probs=53.6
Q ss_pred CCchHHHHHhhhCCCCCCCCChHHHHHHHHhCCCchhHHHHHHHhcCCCCCCccCHHHHHHHHHHHHhcCChhHHHHHhh
Q 002059 453 QADEALQEACHLLPEISGPTTHPKIAQVLLERENPEAALMVLRWSGRDGGSLLVSLSEAVTAVRIRVECALLTEAFTYQR 532 (973)
Q Consensus 453 h~d~aleeAl~LLP~is~pw~h~kIlqvLl~rg~~d~AL~ylr~~g~d~~P~l~SlsEA~l~l~VlLan~lItEAF~~qR 532 (973)
+.|+ +.|-..||.|. ..++.+++.-|-.+|-++.||.+ .+ | | .--..++|.-|.+.+|+..++
T Consensus 599 rrd~--~~a~~vLp~I~-k~~rt~va~Fle~~g~~e~AL~~---s~-D--~--------d~rFelal~lgrl~iA~~la~ 661 (794)
T KOG0276|consen 599 RRDL--EVADGVLPTIP-KEIRTKVAHFLESQGMKEQALEL---ST-D--P--------DQRFELALKLGRLDIAFDLAV 661 (794)
T ss_pred hccc--cccccccccCc-hhhhhhHHhHhhhccchHhhhhc---CC-C--h--------hhhhhhhhhcCcHHHHHHHHH
Confidence 4676 88888999988 56788899999999999999987 21 1 1 135667888999999999988
Q ss_pred hhchHHH
Q 002059 533 MLCTKVR 539 (973)
Q Consensus 533 ~~~~~v~ 539 (973)
...+..+
T Consensus 662 e~~s~~K 668 (794)
T KOG0276|consen 662 EANSEVK 668 (794)
T ss_pred hhcchHH
Confidence 7554433
No 58
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.71 E-value=24 Score=38.73 Aligned_cols=41 Identities=29% Similarity=0.724 Sum_probs=30.8
Q ss_pred chhhcccCCchhhhhHhhhh-------ccCCCcccccccCCccccchhhHHH
Q 002059 72 VQYVLNSCGHASLCAECRQR-------CDFCPICRIPVPKKRNSIRLRLYDE 116 (973)
Q Consensus 72 ~~~vl~~c~h~~lc~~c~~~-------~~~cpicr~~Ipk~G~~~~~rLY~~ 116 (973)
-|-|+..|||. -|--|--+ |+.||.|+..|... .|. .||.+
T Consensus 58 kdPVvTlCGHL-FCWpClyqWl~~~~~~~~cPVCK~~Vs~~--~vv-PlYGr 105 (230)
T KOG0823|consen 58 KDPVVTLCGHL-FCWPCLYQWLQTRPNSKECPVCKAEVSID--TVV-PLYGR 105 (230)
T ss_pred CCCEEeecccc-eehHHHHHHHhhcCCCeeCCccccccccc--eEE-eeecc
Confidence 47899999996 69999765 68899999888653 232 46655
No 59
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=30.09 E-value=20 Score=29.67 Aligned_cols=18 Identities=33% Similarity=0.942 Sum_probs=11.8
Q ss_pred hhcccCCchhhhhHhhhhc
Q 002059 74 YVLNSCGHASLCAECRQRC 92 (973)
Q Consensus 74 ~vl~~c~h~~lc~~c~~~~ 92 (973)
-++++|||. .|..|.++.
T Consensus 14 P~~L~CGH~-~c~~cl~~l 31 (43)
T PF13445_consen 14 PMVLPCGHV-FCKDCLQKL 31 (43)
T ss_dssp EEE-SSS-E-EEHHHHHHH
T ss_pred CEEEeCccH-HHHHHHHHH
Confidence 467889995 688887764
No 60
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=28.60 E-value=31 Score=39.94 Aligned_cols=34 Identities=35% Similarity=0.904 Sum_probs=25.8
Q ss_pred hhcccchhh-cccCCchhhhhHhhhh------ccCCCccccc
Q 002059 67 SCGRYVQYV-LNSCGHASLCAECRQR------CDFCPICRIP 101 (973)
Q Consensus 67 scg~~~~~v-l~~c~h~~lc~~c~~~------~~~cpicr~~ 101 (973)
-|.+-+-++ ++||+|. .|-.|+=| -+-|||||..
T Consensus 66 ICA~~~TYs~~~PC~H~-~CH~Ca~RlRALY~~K~C~~CrTE 106 (493)
T COG5236 66 ICAGSTTYSARYPCGHQ-ICHACAVRLRALYMQKGCPLCRTE 106 (493)
T ss_pred EecCCceEEEeccCCch-HHHHHHHHHHHHHhccCCCccccc
Confidence 366655544 7899997 48999865 5889999975
No 61
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=28.07 E-value=2.3e+02 Score=27.71 Aligned_cols=97 Identities=19% Similarity=0.129 Sum_probs=60.1
Q ss_pred HHHHHhHcCCC--hhhHHHHhHhhhccCCCchHHHHHhhhCCCCC----CC----CChHHHHHHHHhCCCchhHHHHHHH
Q 002059 427 VDDFAATFSIT--RHSLLESLTFYLLDDQADEALQEACHLLPEIS----GP----TTHPKIAQVLLERENPEAALMVLRW 496 (973)
Q Consensus 427 le~Fa~tF~Ip--~~~~l~iqgfWlLDdh~d~aleeAl~LLP~is----~p----w~h~kIlqvLl~rg~~d~AL~ylr~ 496 (973)
++.|...+.=+ ..+..+..+--+++ -+++ ++|...|-.+. .| .-.-.+..+++..|+++.|+..+..
T Consensus 34 ~~~l~~~~~~s~ya~~A~l~lA~~~~~-~g~~--~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~ 110 (145)
T PF09976_consen 34 AEQLAKDYPSSPYAALAALQLAKAAYE-QGDY--DEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQ 110 (145)
T ss_pred HHHHHHHCCCChHHHHHHHHHHHHHHH-CCCH--HHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence 44555555444 23444455555566 6777 77877762211 11 2233478889999999999999977
Q ss_pred hcCCCCCCccCHHHHHHHHHHHHhcCChhHHHHH
Q 002059 497 SGRDGGSLLVSLSEAVTAVRIRVECALLTEAFTY 530 (973)
Q Consensus 497 ~g~d~~P~l~SlsEA~l~l~VlLan~lItEAF~~ 530 (973)
... + .....-..+.=.|.+..|...+|...
T Consensus 111 ~~~---~-~~~~~~~~~~Gdi~~~~g~~~~A~~~ 140 (145)
T PF09976_consen 111 IPD---E-AFKALAAELLGDIYLAQGDYDEARAA 140 (145)
T ss_pred ccC---c-chHHHHHHHHHHHHHHCCCHHHHHHH
Confidence 531 2 22334445566678888988888765
No 62
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=27.93 E-value=7.4e+02 Score=32.98 Aligned_cols=82 Identities=17% Similarity=0.013 Sum_probs=50.6
Q ss_pred hHhhhccCCCchHHHHHhhhCCC-----CCCCCChHHHHHHHHhCCCchhHHHHHHHh-cCCCCCCccCHHHHHHHH-HH
Q 002059 445 LTFYLLDDQADEALQEACHLLPE-----ISGPTTHPKIAQVLLERENPEAALMVLRWS-GRDGGSLLVSLSEAVTAV-RI 517 (973)
Q Consensus 445 qgfWlLDdh~d~aleeAl~LLP~-----is~pw~h~kIlqvLl~rg~~d~AL~ylr~~-g~d~~P~l~SlsEA~l~l-~V 517 (973)
++-.+++ .+++ ++|+..+-. ...+|.+-.+..++...|+++.|..+++.. ... | .. .++...+ ..
T Consensus 467 ~a~~~~~-~g~~--~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~--P--~~-~~~~~a~al~ 538 (1157)
T PRK11447 467 QAEALEN-QGKW--AQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQK--P--ND-PEQVYAYGLY 538 (1157)
T ss_pred HHHHHHH-CCCH--HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--C--CC-HHHHHHHHHH
Confidence 4555566 5665 555554421 234688888999999999999999888764 211 2 12 2232222 23
Q ss_pred HHhcCChhHHHHHhhhh
Q 002059 518 RVECALLTEAFTYQRML 534 (973)
Q Consensus 518 lLan~lItEAF~~qR~~ 534 (973)
+.+.+...+|+.+.+..
T Consensus 539 l~~~~~~~~Al~~l~~l 555 (1157)
T PRK11447 539 LSGSDRDRAALAHLNTL 555 (1157)
T ss_pred HHhCCCHHHHHHHHHhC
Confidence 44577888888876654
No 63
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=26.90 E-value=26 Score=28.51 Aligned_cols=19 Identities=37% Similarity=0.859 Sum_probs=13.7
Q ss_pred hhhcccCCchhhhhHhhhhc
Q 002059 73 QYVLNSCGHASLCAECRQRC 92 (973)
Q Consensus 73 ~~vl~~c~h~~lc~~c~~~~ 92 (973)
+-|.++|||. .|..|-++.
T Consensus 10 ~Pv~l~CGH~-FC~~Cl~~~ 28 (42)
T PF15227_consen 10 DPVSLPCGHS-FCRSCLERL 28 (42)
T ss_dssp SEEE-SSSSE-EEHHHHHHH
T ss_pred CccccCCcCH-HHHHHHHHH
Confidence 5578999995 688887654
No 64
>PRK12928 lipoyl synthase; Provisional
Probab=26.61 E-value=63 Score=36.38 Aligned_cols=57 Identities=16% Similarity=0.382 Sum_probs=44.2
Q ss_pred CCcHHHHHHHHHhccCChHHHhHHhhHHHhhccchhhhh--cccchhhcccCCchhhhhHhhhhccCCCccc
Q 002059 30 YNSRAVQEALEHLASIDLCELRYEAKVEHCRATRDLRSC--GRYVQYVLNSCGHASLCAECRQRCDFCPICR 99 (973)
Q Consensus 30 ~~~~~~~~~l~~la~~~~~~l~~ea~~e~cra~rd~~sc--g~~~~~vl~~c~h~~lc~~c~~~~~~cpicr 99 (973)
.++.-..++++-+.+.||-.+|.||+--+ .+-| |+.+-.|.+ ...|...|..|-+-+
T Consensus 23 ~~~~~~~~~~~l~~~~~l~tv~~~A~~~~------~~~~~~~~~~tfv~i-------s~gC~~~C~FCa~~~ 81 (290)
T PRK12928 23 GKASELETVQRLVKQRRLHTICEEARCPN------RGECYAQGTATFLIM-------GSICTRRCAFCQVDK 81 (290)
T ss_pred CCChhHHHHHHHHHcCCHHHHHHHhCCCc------ccccCCCCEEEEEEe-------cccccCcCCCCCccC
Confidence 45666889999999999999999997332 3456 777777766 678889999987644
No 65
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=25.57 E-value=77 Score=34.11 Aligned_cols=107 Identities=17% Similarity=0.126 Sum_probs=57.4
Q ss_pred hhHHHHHHhHcCCChh--hHHHHhHhhhccCCCch-HHHHHhhhCCC--CCCCCChHHHHHHHHhCCCchhHHHHHHHhc
Q 002059 424 RHIVDDFAATFSITRH--SLLESLTFYLLDDQADE-ALQEACHLLPE--ISGPTTHPKIAQVLLERENPEAALMVLRWSG 498 (973)
Q Consensus 424 ~~lle~Fa~tF~Ip~~--~~l~iqgfWlLDdh~d~-aleeAl~LLP~--is~pw~h~kIlqvLl~rg~~d~AL~ylr~~g 498 (973)
...+..|..+..+.|. .+....++.++| .+++ .+.+++..+-. ...|.++..+..+++..|+++.||.+++..-
T Consensus 163 ~~A~~~~~~al~~~P~~~~~~~~l~~~li~-~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~ 241 (280)
T PF13429_consen 163 DKALRDYRKALELDPDDPDARNALAWLLID-MGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKAL 241 (280)
T ss_dssp HHHHHHHHHHHHH-TT-HHHHHHHHHHHCT-TCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHHHHHHH-CCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccc
Confidence 3456778888887775 334445666676 7766 23345544321 2456777889999999999999998887653
Q ss_pred CCCCCCccCHHHHHHHHHHHHhcCChhHHHHHhhhh
Q 002059 499 RDGGSLLVSLSEAVTAVRIRVECALLTEAFTYQRML 534 (973)
Q Consensus 499 ~d~~P~l~SlsEA~l~l~VlLan~lItEAF~~qR~~ 534 (973)
.- ....+.-....-.++...|..-||+.+-|..
T Consensus 242 ~~---~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~ 274 (280)
T PF13429_consen 242 KL---NPDDPLWLLAYADALEQAGRKDEALRLRRQA 274 (280)
T ss_dssp HH---STT-HHHHHHHHHHHT---------------
T ss_pred cc---ccccccccccccccccccccccccccccccc
Confidence 10 1123444556778889999999999987654
No 66
>PLN03218 maturation of RBCL 1; Provisional
Probab=24.95 E-value=7.5e+02 Score=33.09 Aligned_cols=25 Identities=16% Similarity=0.046 Sum_probs=19.0
Q ss_pred chhhHHHHHhhcChHHHHHHHHHhh
Q 002059 616 GSLLVVFYIQRYRYAEAYQVNLKLQ 640 (973)
Q Consensus 616 ~sLLlVyyLQR~RYiEAv~v~~kL~ 640 (973)
=..++--|.+.|++.+|.+++..+.
T Consensus 545 YnsLI~a~~k~G~~deA~~lf~eM~ 569 (1060)
T PLN03218 545 FNALISACGQSGAVDRAFDVLAEMK 569 (1060)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 4456666778888888888888875
No 67
>PLN03218 maturation of RBCL 1; Provisional
Probab=24.30 E-value=6.5e+02 Score=33.67 Aligned_cols=58 Identities=9% Similarity=-0.004 Sum_probs=36.0
Q ss_pred ChHHHHHHHHhCCCchhHHHHHHHhcCCCC-CCccCHHHHHHHHHHHHhcCChhHHHHHhhh
Q 002059 473 THPKIAQVLLERENPEAALMVLRWSGRDGG-SLLVSLSEAVTAVRIRVECALLTEAFTYQRM 533 (973)
Q Consensus 473 ~h~kIlqvLl~rg~~d~AL~ylr~~g~d~~-P~l~SlsEA~l~l~VlLan~lItEAF~~qR~ 533 (973)
...-+|..+...|+.+.|+.++..+...|. |...+ --..+.....+|.+.+|+.+.+.
T Consensus 474 tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvT---ynaLI~gy~k~G~~eeAl~lf~~ 532 (1060)
T PLN03218 474 LYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHT---FGALIDGCARAGQVAKAFGAYGI 532 (1060)
T ss_pred HHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHH---HHHHHHHHHHCcCHHHHHHHHHH
Confidence 334577777788888888887777743321 21211 22456667777888888776543
No 68
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.99 E-value=1.9e+02 Score=37.13 Aligned_cols=101 Identities=17% Similarity=0.087 Sum_probs=66.2
Q ss_pred HHHHHHHHhCCCchhHHHHHHHhcCCCCCCccCHHHHHHHHHHHHhcCChhHHHHHhhhhchHHHhhhhccCCCCCcccc
Q 002059 475 PKIAQVLLERENPEAALMVLRWSGRDGGSLLVSLSEAVTAVRIRVECALLTEAFTYQRMLCTKVREKKLKFGTIGETFDD 554 (973)
Q Consensus 475 ~kIlqvLl~rg~~d~AL~ylr~~g~d~~P~l~SlsEA~l~l~VlLan~lItEAF~~qR~~~~~v~e~~~~~~~~~~~~~d 554 (973)
..=+.+|+.++.++.||+.+...+.-. |-......+.+++.-+|..+-.-||=+..-.....
T Consensus 360 ~Dhi~Wll~~k~yeeAl~~~k~~~~~~-~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn----------------- 421 (846)
T KOG2066|consen 360 EDHIDWLLEKKKYEEALDAAKASIGNE-ERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGN----------------- 421 (846)
T ss_pred chhHHHHHHhhHHHHHHHHHHhccCCc-cccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcc-----------------
Confidence 445789999999999999999886321 22334567888999999999988887654332211
Q ss_pred cccCcchhHHHHHHHHHHHHHHhhhhhhHHHhhcCCCCchh-------HHHHHHHHc
Q 002059 555 LQGGFKTWEQWLEVLVTEICCLCIRRNLVDRMIELPWNTDE-------EKYLHKCLL 604 (973)
Q Consensus 555 L~g~~~~w~~~~E~Ll~~~f~~C~~~~~ld~LL~LPLd~eE-------Ek~L~k~L~ 604 (973)
...-|..|+... .+.+.+.++..++=+.+. |.+|+.||.
T Consensus 422 ---~~~eWe~~V~~f--------~e~~~l~~Ia~~lPt~~~rL~p~vYemvLve~L~ 467 (846)
T KOG2066|consen 422 ---NAAEWELWVFKF--------AELDQLTDIAPYLPTGPPRLKPLVYEMVLVEFLA 467 (846)
T ss_pred ---hHHHHHHHHHHh--------ccccccchhhccCCCCCcccCchHHHHHHHHHHH
Confidence 234577666543 233556666666555555 556666664
No 69
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=23.91 E-value=32 Score=38.97 Aligned_cols=39 Identities=31% Similarity=0.754 Sum_probs=31.0
Q ss_pred cchhhcccCCchhhhhHhhhhcc-----CCCcccccccCCccccc
Q 002059 71 YVQYVLNSCGHASLCAECRQRCD-----FCPICRIPVPKKRNSIR 110 (973)
Q Consensus 71 ~~~~vl~~c~h~~lc~~c~~~~~-----~cpicr~~Ipk~G~~~~ 110 (973)
.+-..+++|||. +|-.|-.+=. .||-|-+++-|++-++.
T Consensus 15 ~lk~~in~C~H~-lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr~q 58 (300)
T KOG3800|consen 15 DLKLMINECGHR-LCESCVDRIFSLGPAQCPECMVILRKNNFRVQ 58 (300)
T ss_pred cceeeeccccch-HHHHHHHHHHhcCCCCCCcccchhhhcccchh
Confidence 455667899997 7999988753 69999999999887664
No 70
>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.71 E-value=3.5e+02 Score=34.74 Aligned_cols=93 Identities=17% Similarity=0.151 Sum_probs=70.0
Q ss_pred HHHHHhHcCCChhhHHHHhHhhhccCCCchHHHHHhhhCCCCCC-C-CChHHHHHHHHhCCCchhHHHHHHHhcCCCCCC
Q 002059 427 VDDFAATFSITRHSLLESLTFYLLDDQADEALQEACHLLPEISG-P-TTHPKIAQVLLERENPEAALMVLRWSGRDGGSL 504 (973)
Q Consensus 427 le~Fa~tF~Ip~~~~l~iqgfWlLDdh~d~aleeAl~LLP~is~-p-w~h~kIlqvLl~rg~~d~AL~ylr~~g~d~~P~ 504 (973)
+++....|.||.+-+...+.+-|-| -.+. +.++-+....+ | .+-| ++++.+.+|+.+.|.+|+-..+
T Consensus 703 a~ql~~~FkipdKr~~wLk~~aLa~-~~kw---eeLekfAkskksPIGy~P-FVe~c~~~~n~~EA~KYiprv~------ 771 (829)
T KOG2280|consen 703 AEQLKSDFKIPDKRLWWLKLTALAD-IKKW---EELEKFAKSKKSPIGYLP-FVEACLKQGNKDEAKKYIPRVG------ 771 (829)
T ss_pred HHHHHHhcCCcchhhHHHHHHHHHh-hhhH---HHHHHHHhccCCCCCchh-HHHHHHhcccHHHHhhhhhccC------
Confidence 6789999999999888888888888 6665 44444433333 6 5666 8999999999999999976664
Q ss_pred ccCHHHHHHHHHHHHhcCChhHHHHHhhhhc
Q 002059 505 LVSLSEAVTAVRIRVECALLTEAFTYQRMLC 535 (973)
Q Consensus 505 l~SlsEA~l~l~VlLan~lItEAF~~qR~~~ 535 (973)
.+. ..+...+++|.+.||...+=.+.
T Consensus 772 --~l~---ekv~ay~~~~~~~eAad~A~~~r 797 (829)
T KOG2280|consen 772 --GLQ---EKVKAYLRVGDVKEAADLAAEHR 797 (829)
T ss_pred --ChH---HHHHHHHHhccHHHHHHHHHHhc
Confidence 122 45667788999999998875543
No 71
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.18 E-value=42 Score=39.66 Aligned_cols=33 Identities=36% Similarity=0.897 Sum_probs=26.0
Q ss_pred cchhhcccCCchhhhhHhhhhc----cCCCcccccccC
Q 002059 71 YVQYVLNSCGHASLCAECRQRC----DFCPICRIPVPK 104 (973)
Q Consensus 71 ~~~~vl~~c~h~~lc~~c~~~~----~~cpicr~~Ipk 104 (973)
...-|..||||. .|..|-+|| .-||+||.++++
T Consensus 94 l~~pv~tpcghs-~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 94 LYPPVVTPCGHS-FCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cCCCcccccccc-ccHHHHHHHhccCCCCccccccccc
Confidence 345567799995 688886665 689999999988
No 72
>PRK12370 invasion protein regulator; Provisional
Probab=21.82 E-value=8.9e+02 Score=29.38 Aligned_cols=142 Identities=11% Similarity=-0.012 Sum_probs=0.0
Q ss_pred HHHHHhhhCCCCCCCCChHHHHHHHHhCCCchhHHHHHHHhcCCCCCCccCHHHHHHHHHHHHhcCChhHHHHHhhhhch
Q 002059 457 ALQEACHLLPEISGPTTHPKIAQVLLERENPEAALMVLRWSGRDGGSLLVSLSEAVTAVRIRVECALLTEAFTYQRMLCT 536 (973)
Q Consensus 457 aleeAl~LLP~is~pw~h~kIlqvLl~rg~~d~AL~ylr~~g~d~~P~l~SlsEA~l~l~VlLan~lItEAF~~qR~~~~ 536 (973)
.+++|+++ ....++.|-....++...|+++.|+.+++..- .-...+..-....-.+++..|...||..+.+....
T Consensus 326 ~~~~Al~l--dP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al---~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~ 400 (553)
T PRK12370 326 HAIKATEL--DHNNPQALGLLGLINTIHSEYIVGSLLFKQAN---LLSPISADIKYYYGWNLFMAGQLEEALQTINECLK 400 (553)
T ss_pred HHHHHHhc--CCCCHHHHHHHHHHHHHccCHHHHHHHHHHHH---HhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Q ss_pred HHHhhhhccCCCCCcccccccCcchhHHHHHHHHHHHHHHhhhhhhHHHhhcCCCCchhHHHHHHHHcccCCCCCCCCcc
Q 002059 537 KVREKKLKFGTIGETFDDLQGGFKTWEQWLEVLVTEICCLCIRRNLVDRMIELPWNTDEEKYLHKCLLDSATDDPSTTVG 616 (973)
Q Consensus 537 ~v~e~~~~~~~~~~~~~dL~g~~~~w~~~~E~Ll~~~f~~C~~~~~ld~LL~LPLd~eEEk~L~k~L~~~~~~~~~~~~~ 616 (973)
- ...+. .............+..+ +=++++.+.|.......+ ...
T Consensus 401 l-------------~P~~~------------~~~~~~~~~~~~~g~~e---------eA~~~~~~~l~~~~p~~~--~~~ 444 (553)
T PRK12370 401 L-------------DPTRA------------AAGITKLWITYYHTGID---------DAIRLGDELRSQHLQDNP--ILL 444 (553)
T ss_pred c-------------CCCCh------------hhHHHHHHHHHhccCHH---------HHHHHHHHHHHhccccCH--HHH
Q ss_pred hhhHHHHHhhcChHHHHHHHHHh
Q 002059 617 SLLVVFYIQRYRYAEAYQVNLKL 639 (973)
Q Consensus 617 sLLlVyyLQR~RYiEAv~v~~kL 639 (973)
.++-..|.+.||+.||.+...++
T Consensus 445 ~~la~~l~~~G~~~eA~~~~~~~ 467 (553)
T PRK12370 445 SMQVMFLSLKGKHELARKLTKEI 467 (553)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHh
No 73
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=21.47 E-value=1.5e+03 Score=27.40 Aligned_cols=23 Identities=13% Similarity=-0.141 Sum_probs=18.2
Q ss_pred hhHHHHHhhcChHHHHHHHHHhh
Q 002059 618 LLVVFYIQRYRYAEAYQVNLKLQ 640 (973)
Q Consensus 618 LLlVyyLQR~RYiEAv~v~~kL~ 640 (973)
++-..|.+.|+|.+|.+..++.-
T Consensus 198 ~~~~~~~~~g~~~~A~~~~~~a~ 220 (899)
T TIGR02917 198 LKGDLLLSLGNIELALAAYRKAI 220 (899)
T ss_pred HHHHHHHhcCCHHHHHHHHHHHH
Confidence 44456778899999999998874
No 74
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.47 E-value=55 Score=37.47 Aligned_cols=31 Identities=29% Similarity=0.656 Sum_probs=24.1
Q ss_pred hhcccCCchhhhhHhhh-----hccCCCcccccccCC
Q 002059 74 YVLNSCGHASLCAECRQ-----RCDFCPICRIPVPKK 105 (973)
Q Consensus 74 ~vl~~c~h~~lc~~c~~-----~~~~cpicr~~Ipk~ 105 (973)
=|-++|+|. .|-.|-+ .-.-|++||.||+.+
T Consensus 20 Pv~l~C~Hk-FCyiCiKGsy~ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 20 PVNLYCFHK-FCYICIKGSYKNDKKTCAVCRFPIDST 55 (324)
T ss_pred Cccccccch-hhhhhhcchhhcCCCCCceecCCCCcc
Confidence 378899995 6777754 344599999999976
Done!