Query 015359
Match_columns 408
No_of_seqs 102 out of 122
Neff 2.9
Searched_HMMs 46136
Date Fri Mar 29 05:34:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015359.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015359hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2789 Putative Zn-finger pro 100.0 1E-64 2.2E-69 503.7 17.9 381 1-402 1-476 (482)
2 KOG2789 Putative Zn-finger pro 98.9 2.6E-10 5.5E-15 115.9 2.2 66 55-121 265-352 (482)
3 PF14634 zf-RING_5: zinc-RING 96.5 0.0019 4.1E-08 46.4 2.1 42 58-103 1-44 (44)
4 PF00097 zf-C3HC4: Zinc finger 93.6 0.015 3.4E-07 40.2 -0.5 41 59-101 1-41 (41)
5 PF13923 zf-C3HC4_2: Zinc fing 93.4 0.021 4.5E-07 39.9 -0.2 39 59-101 1-39 (39)
6 KOG2164 Predicted E3 ubiquitin 93.1 0.054 1.2E-06 57.6 2.3 48 56-104 186-234 (513)
7 PF13920 zf-C3HC4_3: Zinc fing 92.9 0.035 7.6E-07 40.5 0.4 44 57-104 3-46 (50)
8 cd00162 RING RING-finger (Real 91.6 0.097 2.1E-06 34.8 1.3 43 58-104 1-44 (45)
9 PF13639 zf-RING_2: Ring finge 91.3 0.032 6.8E-07 39.6 -1.4 41 57-102 1-44 (44)
10 KOG2177 Predicted E3 ubiquitin 90.9 0.11 2.4E-06 44.8 1.3 44 54-102 11-54 (386)
11 PLN03208 E3 ubiquitin-protein 90.1 0.22 4.8E-06 47.3 2.7 49 55-104 17-77 (193)
12 PHA02929 N1R/p28-like protein; 88.6 0.34 7.3E-06 47.1 2.7 51 55-109 173-230 (238)
13 KOG3002 Zn finger protein [Gen 87.8 0.3 6.5E-06 48.8 1.9 42 53-104 45-89 (299)
14 PHA02926 zinc finger-like prot 84.9 0.59 1.3E-05 45.9 2.2 55 55-109 169-233 (242)
15 TIGR00599 rad18 DNA repair pro 84.9 1.2 2.7E-05 46.2 4.6 45 55-104 25-69 (397)
16 KOG0287 Postreplication repair 83.9 0.39 8.4E-06 49.8 0.5 59 55-124 22-81 (442)
17 PF14570 zf-RING_4: RING/Ubox 82.4 0.85 1.8E-05 35.0 1.7 43 59-104 1-46 (48)
18 smart00184 RING Ring finger. E 81.6 0.68 1.5E-05 29.5 0.8 39 59-101 1-39 (39)
19 TIGR00570 cdk7 CDK-activating 81.5 2.2 4.9E-05 43.2 4.8 45 56-104 3-52 (309)
20 smart00504 Ubox Modified RING 81.0 0.83 1.8E-05 33.7 1.2 42 58-104 3-44 (63)
21 PF15227 zf-C3HC4_4: zinc fing 80.9 0.8 1.7E-05 33.1 1.0 42 59-101 1-42 (42)
22 PF09538 FYDLN_acid: Protein o 77.3 1.3 2.9E-05 38.4 1.5 11 94-104 25-35 (108)
23 KOG3800 Predicted E3 ubiquitin 74.8 2.7 5.8E-05 42.6 3.1 82 57-142 1-86 (300)
24 COG5175 MOT2 Transcriptional r 69.0 4 8.7E-05 42.7 2.9 61 58-122 16-81 (480)
25 KOG0311 Predicted E3 ubiquitin 66.2 1.7 3.6E-05 45.2 -0.4 46 56-104 43-88 (381)
26 PF13445 zf-RING_UBOX: RING-ty 64.2 1.1 2.3E-05 33.1 -1.7 40 59-99 1-43 (43)
27 COG5236 Uncharacterized conser 61.8 3.6 7.8E-05 43.2 1.0 95 16-115 15-117 (493)
28 PF05290 Baculo_IE-1: Baculovi 60.0 3.6 7.8E-05 37.8 0.6 49 55-104 79-130 (140)
29 COG1579 Zn-ribbon protein, pos 55.3 4.4 9.4E-05 39.8 0.3 27 77-103 197-229 (239)
30 PF14447 Prok-RING_4: Prokaryo 54.3 6.5 0.00014 31.2 1.0 25 74-104 24-48 (55)
31 KOG0320 Predicted E3 ubiquitin 52.5 5.7 0.00012 38.0 0.6 45 55-103 130-175 (187)
32 COG1198 PriA Primosomal protei 52.0 15 0.00032 41.2 3.7 53 53-115 441-493 (730)
33 PF02809 UIM: Ubiquitin intera 49.7 17 0.00036 22.9 2.1 15 382-396 4-18 (18)
34 PRK00398 rpoP DNA-directed RNA 49.6 6.7 0.00014 28.6 0.4 26 79-104 5-30 (46)
35 COG5222 Uncharacterized conser 49.3 11 0.00024 39.1 2.1 49 57-108 275-323 (427)
36 TIGR02300 FYDLN_acid conserved 47.4 11 0.00024 34.3 1.6 16 94-110 25-40 (129)
37 PF02591 DUF164: Putative zinc 45.2 7 0.00015 29.5 -0.0 26 77-102 22-53 (56)
38 PRK14714 DNA polymerase II lar 44.0 18 0.00039 43.1 2.9 52 56-111 667-725 (1337)
39 PF03604 DNA_RNApol_7kD: DNA d 42.6 12 0.00026 26.4 0.9 29 79-111 2-30 (32)
40 KOG2879 Predicted E3 ubiquitin 39.7 26 0.00056 35.8 2.9 76 29-109 210-290 (298)
41 PF12861 zf-Apc11: Anaphase-pr 39.5 23 0.0005 30.1 2.2 46 56-104 21-80 (85)
42 KOG4172 Predicted E3 ubiquitin 39.1 5.8 0.00013 32.0 -1.3 44 57-104 8-52 (62)
43 TIGR02574 stabl_TIGR02574 puta 37.4 25 0.00055 27.3 2.0 15 210-224 7-21 (63)
44 KOG2635 Medium subunit of clat 36.4 41 0.0009 36.4 3.9 44 109-152 132-177 (512)
45 PF04981 NMD3: NMD3 family ; 35.2 27 0.00059 33.2 2.2 42 59-106 1-46 (236)
46 COG5219 Uncharacterized conser 34.4 12 0.00026 43.7 -0.3 49 54-104 1467-1521(1525)
47 KOG3842 Adaptor protein Pellin 32.5 33 0.00072 35.9 2.5 50 55-104 340-412 (429)
48 COG4530 Uncharacterized protei 32.3 28 0.00061 31.6 1.7 10 94-103 25-34 (129)
49 smart00734 ZnF_Rad18 Rad18-lik 30.2 16 0.00034 24.5 -0.2 11 57-67 2-12 (26)
50 smart00659 RPOLCX RNA polymera 29.2 24 0.00052 26.3 0.6 30 79-112 4-33 (44)
51 PF10276 zf-CHCC: Zinc-finger 29.1 16 0.00035 27.0 -0.3 18 84-103 20-37 (40)
52 smart00726 UIM Ubiquitin-inter 28.5 67 0.0014 21.8 2.6 20 210-229 2-21 (26)
53 PF11023 DUF2614: Protein of u 28.4 23 0.0005 31.8 0.5 40 77-123 69-108 (114)
54 KOG3161 Predicted E3 ubiquitin 27.8 19 0.00041 40.6 -0.2 46 55-107 10-58 (861)
55 COG5220 TFB3 Cdk activating ki 27.3 17 0.00036 36.8 -0.6 42 56-100 10-56 (314)
56 PRK04023 DNA polymerase II lar 26.8 1.2E+02 0.0025 36.1 5.7 53 47-108 617-676 (1121)
57 KOG4362 Transcriptional regula 26.6 22 0.00049 39.8 0.1 46 56-103 21-66 (684)
58 PF14835 zf-RING_6: zf-RING of 25.9 54 0.0012 26.9 2.1 44 56-106 7-51 (65)
59 KOG3088 Secretory carrier memb 25.9 76 0.0017 32.7 3.6 30 124-153 59-88 (313)
60 COG1996 RPC10 DNA-directed RNA 25.5 30 0.00065 26.9 0.6 32 79-113 8-39 (49)
61 PF05502 Dynactin_p62: Dynacti 25.0 31 0.00067 36.7 0.8 59 54-112 24-105 (483)
62 PF09415 CENP-X: CENP-S associ 24.2 55 0.0012 26.7 1.9 22 207-228 29-50 (72)
63 KOG0825 PHD Zn-finger protein 23.3 29 0.00062 40.1 0.2 52 55-110 122-175 (1134)
64 PF13834 DUF4193: Domain of un 22.8 29 0.00063 30.5 0.1 28 55-83 69-98 (99)
65 KOG0823 Predicted E3 ubiquitin 22.8 44 0.00095 33.1 1.3 48 55-104 46-93 (230)
66 PLN03086 PRLI-interacting fact 22.1 38 0.00082 37.2 0.8 46 55-101 452-510 (567)
67 TIGR00244 transcriptional regu 22.0 53 0.0011 30.5 1.6 14 97-110 2-15 (147)
68 PRK00420 hypothetical protein; 21.7 82 0.0018 28.0 2.6 10 95-104 40-49 (112)
69 KOG4185 Predicted E3 ubiquitin 20.9 56 0.0012 31.4 1.6 47 56-105 3-54 (296)
70 KOG1812 Predicted E3 ubiquitin 20.7 59 0.0013 33.6 1.8 45 55-99 145-194 (384)
71 COG4296 Uncharacterized protei 20.5 45 0.00096 31.2 0.8 19 370-388 96-114 (156)
72 PF14354 Lar_restr_allev: Rest 20.4 70 0.0015 23.9 1.7 17 97-113 5-21 (61)
No 1
>KOG2789 consensus Putative Zn-finger protein [General function prediction only]
Probab=100.00 E-value=1e-64 Score=503.73 Aligned_cols=381 Identities=24% Similarity=0.250 Sum_probs=297.7
Q ss_pred CCCccccccc-------ccCCCcccccccccCCCcc-hHHHHHHHHhcccCCCCCCCCCc----CCCCC------cCCcc
Q 015359 1 MGNKLGRRRQ-------VVDEKYTRPQGLYVHKDVD-IKKLRKLILESKLAPCYPGDEDC----CCDLE------ECPIC 62 (408)
Q Consensus 1 MGN~~~rr~~-------~vderyt~PqGLY~~~d~D-~k~vRkLI~e~kLAP~ypg~ed~----~~~~~------ECPIC 62 (408)
|||++||.|+ .||++|+.|||||...|.| .++|||||++++|+|||+|++.+ .+++. |||||
T Consensus 1 MGN~~Gk~rQed~~~~~~vd~~y~~pqgvy~~~d~~~s~~vRkl~~es~l~p~y~G~d~~~~ts~Hlls~~rr~~ecpic 80 (482)
T KOG2789|consen 1 MGNVPGKIRQEDSFNDVRVDSSYNTPQGVYKQYDEEASSRVRKLRTESLLNPIYNGNDARTKTSSHLLSTSRRKTECPIC 80 (482)
T ss_pred CCCccccccccccccceeccccccCccceeecCcHHHHHHHHHHHHHHhhccccCCcccccccccchhhhccccccCcee
Confidence 9999999998 9999999999999999999 89999999999999999999984 45566 99999
Q ss_pred cccCCC-CccccccCCCcchhhhhcccCCC------------------CCCC--cCCCCCCCCCceEEEcCCC-------
Q 015359 63 FLYYPS-LNRSRCCMKGICTECFLQMKNPN------------------TTRP--TQCPFCKTANYAVEYRGVK------- 114 (408)
Q Consensus 63 FlyYp~-lN~SrCC~q~ICTECflQikr~~------------------~s~p--~~CPfC~~~~f~V~Y~g~k------- 114 (408)
|||||+ +|++|||.|+||+|||++|+++. .+.| +.||||.+++|+|+|++.+
T Consensus 81 flyyps~~n~~rcC~~~Ic~ecf~~~~~~~~~~pt~~a~v~~~~~f~~~s~p~~~~cp~c~t~~~~vey~~i~~~~p~~~ 160 (482)
T KOG2789|consen 81 FLYYPSAKNLVRCCSETICGECFAPFGCYSFEKPTYDATVVKNLIFKRKSAPFYTPCPDCDTSWTRVEYIKIVDGLPLHD 160 (482)
T ss_pred eeecccccchhhhhccchhhhheecccCCCcccCccccccccccccccccccccccCCccCCcccceeeeccccCCcccc
Confidence 999996 99999999999999999999864 2667 8999999999999999999
Q ss_pred chhhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHhhhcCCCC--CC--Cccceeecc--------------C-CCCCCC
Q 015359 115 TKEEKGMEQIEEQRVIEAKIRIRQQELQDDEERMLKRQESSSM--GI--ALGEVESSV--------------S-SSRSVE 175 (408)
Q Consensus 115 t~eek~~~q~EeqrviEa~ir~r~~e~~~~e~~~~kr~es~~~--~~--~~~~v~~~~--------------~-s~~~~~ 175 (408)
+++|+.+++.+++.++++|++++++++++..++++||+.+-.. .+ -....+|.- + .+...+
T Consensus 161 t~~e~~~e~~~~p~g~l~Kst~~~~~~~~~~~k~qkr~h~~~~~~~t~~~~~~wqy~~~~~fl~~~~~~~~a~~~~s~l~ 240 (482)
T KOG2789|consen 161 TFDENLEEFEDVPIGNLRKSTFNELIDKSLSKKEQKRMHAKIFRARTYKKRILWQYNENETFLERKLEMKRAGSKSSNLE 240 (482)
T ss_pred ccCccccccccccchhhhhccchhhhcCCchHHHHHHHHhhhhhhhhhhcchhhhccchhhHHHHHHHHhhhhccccccc
Confidence 9999999999999999999999999999999999999993332 22 235556651 1 133333
Q ss_pred C-CCcccccccccC--CCccCCcccC---CCCCCccccChhHHHHHHHHHHHHHhhcCCCCCC---cCCCCCCCCccccc
Q 015359 176 G-EGNVSFQDLCAT--PMVRQPSHRR---ANGDDEFDLDLEDIMVMEAIWLSIQENGRQRNPT---YEEAAPSEQYVTED 246 (408)
Q Consensus 176 ~-~~~~~sq~s~~~--~~~~~~~~~~---~~r~~~~d~dlEdiMvmEAIwlSiQe~~~~~n~~---~~~~~~~~~~~~~~ 246 (408)
+ ..+-.+|..+-. ..-+..-.++ .+|-+.|++++|.||+|||||+|+|+.+.++|.. .++-+++.++..++
T Consensus 241 d~g~~~p~~N~~~~~~h~~~t~~~pr~~~~~r~~~~~~~~e~lm~~eai~~S~~~~q~~r~~~~~ps~EV~~~~~~~~dn 320 (482)
T KOG2789|consen 241 DNGSSQPRKNYHLPSDHLKYTLYKPRSECPIRFLYFPGPFEYLMCCEAIICSECFVQIKRADPHFPSDEVDPTEPQTNDN 320 (482)
T ss_pred ccCCCCcccccCcccccccccccCCcccCCchhhhcCccHHHHHHHHHHHHHHHHhhcccCCCCCCCCccCCCCcccccc
Confidence 3 333333333211 0001111334 7889999999999999999999999999999988 78888888888777
Q ss_pred c-cccCCC-----------CCCCCCCCCCCCChhHHHHHHHHh--hhccccccccCCCC--CcccccCC---CCchhhhc
Q 015359 247 R-YVSSTM-----------APIAGSSSSPSGGLACAIAALAER--QQVSGESSINHGGN--MSSFNMFP---GSSRLYNR 307 (408)
Q Consensus 247 ~-~~~~~~-----------~~~~~~~~s~sgGlAcAIAalAE~--Q~~~~eSs~~~n~n--~~sfnmlp---~s~r~ynr 307 (408)
. |.+++. .+..|++.-.+||++|+|-+++|+ |.+..+|..++++| +..+.|+| +++..|..
T Consensus 321 e~~~s~P~~~~~~~va~~~e~~~P~S~~~tg~~s~~ids~~e~~~q~v~~ds~~~~ih~i~s~T~~~~p~i~~n~~r~~~ 400 (482)
T KOG2789|consen 321 EKDTSEPANCPYCAVASFSETYQPPSNRETGIGSMPIDSYVEKDAQIVRADSGQPNIHAITSDTIRPDPEIKLNKERARL 400 (482)
T ss_pred cccccCCCCCCccceeeeeeccCCCccccccccccchhhhhhhhhhhhcccCCCcccccccccccccCchhccchHHHHH
Confidence 6 555443 133444444499999999999999 77777777776655 66699999 88988988
Q ss_pred ccccccccCccccccCCCCCCccceeccCcccccccCccccccc--cccccccccccCCCCCCCCCCCCCCCCCcHHHHH
Q 015359 308 MDHDVENYAPAESLINTSPDGRMTVARDEGEWGIDRGSELAEAG--TSYASSDMAEDGGGISSLPEDGGPIVPESFEEQM 385 (408)
Q Consensus 308 i~qD~~~ys~~~~~~e~~pd~~~~~tr~~gews~d~~Se~AEAg--TSyA~Sd~~~d~g~~~s~~s~~~~ivPeSFEEQM 385 (408)
|+|.++... . +.+.-+-+++++++ +||+.|.+++++--+.+-|++.+ ++||+|++||
T Consensus 401 ~~~~~~~~d----------------~----h~~~r~h~p~~st~~~~s~~~S~~~de~~h~~~pp~pli-~~~e~~~~~~ 459 (482)
T KOG2789|consen 401 MRRSANATD----------------I----HISNRLHDPSHSTRRNTSHSISPIHDESTHASRPPEPLI-NELEDQMVRE 459 (482)
T ss_pred HHHhhhhhh----------------h----hhhhhhcCccccccccccccccccccCccccCCCCCcce-ecchhHHHHH
Confidence 888876655 1 11122233555554 67777776665443333344444 8899999999
Q ss_pred HHHHHHHhhhhccCCCC
Q 015359 386 MLAMAASLAEARPMSNG 402 (408)
Q Consensus 386 MLAMAvSLAEaramts~ 402 (408)
|++|+|+.+|.|+.++-
T Consensus 460 ~~~~s~~~~~~h~~s~n 476 (482)
T KOG2789|consen 460 AIRLSLEDQDNHKKSKN 476 (482)
T ss_pred HHHhcchhhhhhhhccC
Confidence 99999999999998764
No 2
>KOG2789 consensus Putative Zn-finger protein [General function prediction only]
Probab=98.95 E-value=2.6e-10 Score=115.94 Aligned_cols=66 Identities=39% Similarity=0.985 Sum_probs=57.4
Q ss_pred CCCcCCcccccCC-CCccccccCCCcchhhhhcccCCC---------------------CCCCcCCCCCCCCCceEEEcC
Q 015359 55 DLEECPICFLYYP-SLNRSRCCMKGICTECFLQMKNPN---------------------TTRPTQCPFCKTANYAVEYRG 112 (408)
Q Consensus 55 ~~~ECPICFlyYp-~lN~SrCC~q~ICTECflQikr~~---------------------~s~p~~CPfC~~~~f~V~Y~g 112 (408)
...||||||+||| .++...||.+.|||+||+||||.+ .++|+.||||+...|..+|++
T Consensus 265 pr~~~~~r~~~~~~~~e~lm~~eai~~S~~~~q~~r~~~~~ps~EV~~~~~~~~dne~~~s~P~~~~~~~va~~~e~~~P 344 (482)
T KOG2789|consen 265 PRSECPIRFLYFPGPFEYLMCCEAIICSECFVQIKRADPHFPSDEVDPTEPQTNDNEKDTSEPANCPYCAVASFSETYQP 344 (482)
T ss_pred CcccCCchhhhcCccHHHHHHHHHHHHHHHHhhcccCCCCCCCCccCCCCcccccccccccCCCCCCccceeeeeeccCC
Confidence 3589999999999 599999999999999999999853 378999999999999999998
Q ss_pred CCchhhhhh
Q 015359 113 VKTKEEKGM 121 (408)
Q Consensus 113 ~kt~eek~~ 121 (408)
+. .++.++
T Consensus 345 ~S-~~~tg~ 352 (482)
T KOG2789|consen 345 PS-NRETGI 352 (482)
T ss_pred Cc-cccccc
Confidence 64 445544
No 3
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=96.45 E-value=0.0019 Score=46.41 Aligned_cols=42 Identities=31% Similarity=0.869 Sum_probs=33.1
Q ss_pred cCCcccccC-C-CCccccccCCCcchhhhhcccCCCCCCCcCCCCCCC
Q 015359 58 ECPICFLYY-P-SLNRSRCCMKGICTECFLQMKNPNTTRPTQCPFCKT 103 (408)
Q Consensus 58 ECPICFlyY-p-~lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC~~ 103 (408)
+|+|||.-| + .--+..=|..-||..|+.+++ .....||+|++
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~----~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK----GKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc----CCCCCCcCCCC
Confidence 699999999 2 233444568999999999999 34689999975
No 4
>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=93.63 E-value=0.015 Score=40.19 Aligned_cols=41 Identities=24% Similarity=0.733 Sum_probs=33.4
Q ss_pred CCcccccCCCCccccccCCCcchhhhhcccCCCCCCCcCCCCC
Q 015359 59 CPICFLYYPSLNRSRCCMKGICTECFLQMKNPNTTRPTQCPFC 101 (408)
Q Consensus 59 CPICFlyYp~lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC 101 (408)
||||+..|..-.+..=|...+|..|+.++-.. .....||.|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~--~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLEN--SGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHH--TSSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHh--cCCccCCcC
Confidence 89999998876656667888999999998874 345789988
No 5
>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=93.35 E-value=0.021 Score=39.88 Aligned_cols=39 Identities=31% Similarity=0.762 Sum_probs=30.2
Q ss_pred CCcccccCCCCccccccCCCcchhhhhcccCCCCCCCcCCCCC
Q 015359 59 CPICFLYYPSLNRSRCCMKGICTECFLQMKNPNTTRPTQCPFC 101 (408)
Q Consensus 59 CPICFlyYp~lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC 101 (408)
||||+..+..--....|..-+|.+|+.+....+ ..||+|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~----~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKN----PKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCT----SB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHCc----CCCcCC
Confidence 899998877633567899999999999987652 589988
No 6
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.13 E-value=0.054 Score=57.60 Aligned_cols=48 Identities=31% Similarity=0.688 Sum_probs=38.1
Q ss_pred CCcCCcccccCCCCccccccCCCcchhhhhcccCCC-CCCCcCCCCCCCC
Q 015359 56 LEECPICFLYYPSLNRSRCCMKGICTECFLQMKNPN-TTRPTQCPFCKTA 104 (408)
Q Consensus 56 ~~ECPICFlyYp~lN~SrCC~q~ICTECflQikr~~-~s~p~~CPfC~~~ 104 (408)
...|||||-+.+---++. |..-.|-.|.||+-... ...+..||-|...
T Consensus 186 ~~~CPICL~~~~~p~~t~-CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~ 234 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTN-CGHIFCGPCILQYWNYSAIKGPCSCPICRST 234 (513)
T ss_pred CCcCCcccCCCCcccccc-cCceeeHHHHHHHHhhhcccCCccCCchhhh
Confidence 678999998866444444 99999999999987654 3567899999865
No 7
>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=92.92 E-value=0.035 Score=40.46 Aligned_cols=44 Identities=34% Similarity=0.797 Sum_probs=32.7
Q ss_pred CcCCcccccCCCCccccccCCCcchhhhhcccCCCCCCCcCCCCCCCC
Q 015359 57 EECPICFLYYPSLNRSRCCMKGICTECFLQMKNPNTTRPTQCPFCKTA 104 (408)
Q Consensus 57 ~ECPICFlyYp~lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC~~~ 104 (408)
.+|+|||-.....-...|=...+|.+|+..+.. ....||+|+++
T Consensus 3 ~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~----~~~~CP~Cr~~ 46 (50)
T PF13920_consen 3 EECPICFENPRDVVLLPCGHLCFCEECAERLLK----RKKKCPICRQP 46 (50)
T ss_dssp SB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHH----TTSBBTTTTBB
T ss_pred CCCccCCccCCceEEeCCCChHHHHHHhHHhcc----cCCCCCcCChh
Confidence 589999988665544455445599999999976 24689999987
No 8
>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=91.60 E-value=0.097 Score=34.82 Aligned_cols=43 Identities=28% Similarity=0.730 Sum_probs=30.1
Q ss_pred cCCcccccCCC-CccccccCCCcchhhhhcccCCCCCCCcCCCCCCCC
Q 015359 58 ECPICFLYYPS-LNRSRCCMKGICTECFLQMKNPNTTRPTQCPFCKTA 104 (408)
Q Consensus 58 ECPICFlyYp~-lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC~~~ 104 (408)
+|+||+..+-. +-.. =|...+|.+|+...... ....||.|+..
T Consensus 1 ~C~iC~~~~~~~~~~~-~C~H~~c~~C~~~~~~~---~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEFREPVVLL-PCGHVFCRSCIDKWLKS---GKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhhhCceEec-CCCChhcHHHHHHHHHh---CcCCCCCCCCc
Confidence 59999987732 2222 28888999999876543 23579999864
No 9
>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=91.31 E-value=0.032 Score=39.60 Aligned_cols=41 Identities=27% Similarity=0.758 Sum_probs=29.7
Q ss_pred CcCCcccccCC--C-CccccccCCCcchhhhhcccCCCCCCCcCCCCCC
Q 015359 57 EECPICFLYYP--S-LNRSRCCMKGICTECFLQMKNPNTTRPTQCPFCK 102 (408)
Q Consensus 57 ~ECPICFlyYp--~-lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC~ 102 (408)
.+||||+..|. . +-... |..-+|.+|+.+.-+.+ ..||+|+
T Consensus 1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~----~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRN----NSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHS----SB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhC----CcCCccC
Confidence 47999999984 2 33334 89999999998877542 3899994
No 10
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.92 E-value=0.11 Score=44.81 Aligned_cols=44 Identities=27% Similarity=0.748 Sum_probs=36.9
Q ss_pred CCCCcCCcccccCCCCccccccCCCcchhhhhcccCCCCCCCcCCCCCC
Q 015359 54 CDLEECPICFLYYPSLNRSRCCMKGICTECFLQMKNPNTTRPTQCPFCK 102 (408)
Q Consensus 54 ~~~~ECPICFlyYp~lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC~ 102 (408)
.+...||||+-+|-.- +.-=|....|..|.-++-. .+..||.|.
T Consensus 11 ~~~~~C~iC~~~~~~p-~~l~C~H~~c~~C~~~~~~----~~~~Cp~cr 54 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP-VLLPCGHNFCRACLTRSWE----GPLSCPVCR 54 (386)
T ss_pred cccccChhhHHHhhcC-ccccccchHhHHHHHHhcC----CCcCCcccC
Confidence 4678999999998743 7777999999999988877 458999999
No 11
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=90.13 E-value=0.22 Score=47.33 Aligned_cols=49 Identities=22% Similarity=0.526 Sum_probs=34.0
Q ss_pred CCCcCCcccccCCCCccccccCCCcchhhhhcccCC------------CCCCCcCCCCCCCC
Q 015359 55 DLEECPICFLYYPSLNRSRCCMKGICTECFLQMKNP------------NTTRPTQCPFCKTA 104 (408)
Q Consensus 55 ~~~ECPICFlyYp~lN~SrCC~q~ICTECflQikr~------------~~s~p~~CPfC~~~ 104 (408)
...+||||+-.+-.--.+. |..-.|..|..+.-.. +...+..||.|+.+
T Consensus 17 ~~~~CpICld~~~dPVvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~ 77 (193)
T PLN03208 17 GDFDCNICLDQVRDPVVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSD 77 (193)
T ss_pred CccCCccCCCcCCCcEEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCc
Confidence 4579999998765433343 7889999999764210 12245789999986
No 12
>PHA02929 N1R/p28-like protein; Provisional
Probab=88.60 E-value=0.34 Score=47.15 Aligned_cols=51 Identities=27% Similarity=0.545 Sum_probs=36.5
Q ss_pred CCCcCCcccccCC--CC-----ccccccCCCcchhhhhcccCCCCCCCcCCCCCCCCCceEE
Q 015359 55 DLEECPICFLYYP--SL-----NRSRCCMKGICTECFLQMKNPNTTRPTQCPFCKTANYAVE 109 (408)
Q Consensus 55 ~~~ECPICFlyYp--~l-----N~SrCC~q~ICTECflQikr~~~s~p~~CPfC~~~~f~V~ 109 (408)
+..+||||.-.+- .. -...-|....|.+|+.+-... ...||.|.++-..|.
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~----~~tCPlCR~~~~~v~ 230 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE----KNTCPVCRTPFISVI 230 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc----CCCCCCCCCEeeEEe
Confidence 4689999998543 11 133468999999999887653 247999998755543
No 13
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=87.79 E-value=0.3 Score=48.80 Aligned_cols=42 Identities=31% Similarity=0.852 Sum_probs=27.4
Q ss_pred CCCCCcCCcccccC-CCCccccccC--CCcchhhhhcccCCCCCCCcCCCCCCCC
Q 015359 53 CCDLEECPICFLYY-PSLNRSRCCM--KGICTECFLQMKNPNTTRPTQCPFCKTA 104 (408)
Q Consensus 53 ~~~~~ECPICFlyY-p~lN~SrCC~--q~ICTECflQikr~~~s~p~~CPfC~~~ 104 (408)
..+..||||||-++ |.+-- |. .-.|+-|.... +..||||.-+
T Consensus 45 ~~~lleCPvC~~~l~~Pi~Q---C~nGHlaCssC~~~~-------~~~CP~Cr~~ 89 (299)
T KOG3002|consen 45 DLDLLDCPVCFNPLSPPIFQ---CDNGHLACSSCRTKV-------SNKCPTCRLP 89 (299)
T ss_pred chhhccCchhhccCccccee---cCCCcEehhhhhhhh-------cccCCccccc
Confidence 45789999999654 32211 22 25677777632 3589999876
No 14
>PHA02926 zinc finger-like protein; Provisional
Probab=84.94 E-value=0.59 Score=45.94 Aligned_cols=55 Identities=24% Similarity=0.584 Sum_probs=38.5
Q ss_pred CCCcCCcccc-cCCC-------CccccccCCCcchhhhhcccCCC--CCCCcCCCCCCCCCceEE
Q 015359 55 DLEECPICFL-YYPS-------LNRSRCCMKGICTECFLQMKNPN--TTRPTQCPFCKTANYAVE 109 (408)
Q Consensus 55 ~~~ECPICFl-yYp~-------lN~SrCC~q~ICTECflQikr~~--~s~p~~CPfC~~~~f~V~ 109 (408)
...+|+||+- .|-. .-..-.|....|-.|..+-+... +..-..||.|.+.-..|+
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~ 233 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNIT 233 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeec
Confidence 3699999994 3321 23455899999999999888642 112356999999855554
No 15
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=84.94 E-value=1.2 Score=46.24 Aligned_cols=45 Identities=20% Similarity=0.615 Sum_probs=33.7
Q ss_pred CCCcCCcccccCCCCccccccCCCcchhhhhcccCCCCCCCcCCCCCCCC
Q 015359 55 DLEECPICFLYYPSLNRSRCCMKGICTECFLQMKNPNTTRPTQCPFCKTA 104 (408)
Q Consensus 55 ~~~ECPICFlyYp~lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC~~~ 104 (408)
....||||+.+|-.- ...-|..-+|..|+...-.. ...||-|..+
T Consensus 25 ~~l~C~IC~d~~~~P-vitpCgH~FCs~CI~~~l~~----~~~CP~Cr~~ 69 (397)
T TIGR00599 25 TSLRCHICKDFFDVP-VLTSCSHTFCSLCIRRCLSN----QPKCPLCRAE 69 (397)
T ss_pred cccCCCcCchhhhCc-cCCCCCCchhHHHHHHHHhC----CCCCCCCCCc
Confidence 467999999887421 23469999999999865543 2479999998
No 16
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=83.92 E-value=0.39 Score=49.81 Aligned_cols=59 Identities=27% Similarity=0.675 Sum_probs=41.6
Q ss_pred CCCcCCcccccCC-CCccccccCCCcchhhhhcccCCCCCCCcCCCCCCCCCceEEEcCCCchhhhhhhHH
Q 015359 55 DLEECPICFLYYP-SLNRSRCCMKGICTECFLQMKNPNTTRPTQCPFCKTANYAVEYRGVKTKEEKGMEQI 124 (408)
Q Consensus 55 ~~~ECPICFlyYp-~lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC~~~~f~V~Y~g~kt~eek~~~q~ 124 (408)
++.-|-|||-||- .+-.. |....|+-|.-..-+- ..+||-|. |+++-..-+.+.-+++|
T Consensus 22 ~lLRC~IC~eyf~ip~itp--CsHtfCSlCIR~~L~~----~p~CP~C~-----~~~~Es~Lr~n~il~Ei 81 (442)
T KOG0287|consen 22 DLLRCGICFEYFNIPMITP--CSHTFCSLCIRKFLSY----KPQCPTCC-----VTVTESDLRNNRILDEI 81 (442)
T ss_pred HHHHHhHHHHHhcCceecc--ccchHHHHHHHHHhcc----CCCCCcee-----cccchhhhhhhhHHHHH
Confidence 5788999999998 46665 9999999995433332 24799995 45655655566666555
No 17
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=82.44 E-value=0.85 Score=34.98 Aligned_cols=43 Identities=26% Similarity=0.678 Sum_probs=22.1
Q ss_pred CCcccccCC--CCccccc-cCCCcchhhhhcccCCCCCCCcCCCCCCCC
Q 015359 59 CPICFLYYP--SLNRSRC-CMKGICTECFLQMKNPNTTRPTQCPFCKTA 104 (408)
Q Consensus 59 CPICFlyYp--~lN~SrC-C~q~ICTECflQikr~~~s~p~~CPfC~~~ 104 (408)
||+|.--.= .++.--| |.-.||-.||..|+.. +...||-|+.+
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~---~~g~CPgCr~~ 46 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILEN---EGGRCPGCREP 46 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTS---S-SB-TTT--B
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhc---cCCCCCCCCCC
Confidence 677765442 3555556 7789999999999983 35789999976
No 18
>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=81.58 E-value=0.68 Score=29.55 Aligned_cols=39 Identities=26% Similarity=0.707 Sum_probs=26.4
Q ss_pred CCcccccCCCCccccccCCCcchhhhhcccCCCCCCCcCCCCC
Q 015359 59 CPICFLYYPSLNRSRCCMKGICTECFLQMKNPNTTRPTQCPFC 101 (408)
Q Consensus 59 CPICFlyYp~lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC 101 (408)
||||+...-..-... |...+|..|+..+-. .....||.|
T Consensus 1 C~iC~~~~~~~~~~~-C~H~~c~~C~~~~~~---~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLP-CGHTFCRSCIRKWLK---SGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEec-CCChHHHHHHHHHHH---hCcCCCCCC
Confidence 899988733333344 666699999987654 123579987
No 19
>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=81.50 E-value=2.2 Score=43.23 Aligned_cols=45 Identities=29% Similarity=0.603 Sum_probs=32.9
Q ss_pred CCcCCcccc--cCC-C--CccccccCCCcchhhhhcccCCCCCCCcCCCCCCCC
Q 015359 56 LEECPICFL--YYP-S--LNRSRCCMKGICTECFLQMKNPNTTRPTQCPFCKTA 104 (408)
Q Consensus 56 ~~ECPICFl--yYp-~--lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC~~~ 104 (408)
...||||.- |+- . |-.+ =|...+|-.|.-.+-.. .+..||-|..+
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~-~CGH~~C~sCv~~l~~~---~~~~CP~C~~~ 52 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVN-VCGHTLCESCVDLLFVR---GSGSCPECDTP 52 (309)
T ss_pred CCCCCcCCCCCccCcccccccC-CCCCcccHHHHHHHhcC---CCCCCCCCCCc
Confidence 467999996 443 3 4555 68999999999987432 24589999765
No 20
>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=80.96 E-value=0.83 Score=33.70 Aligned_cols=42 Identities=10% Similarity=-0.036 Sum_probs=30.8
Q ss_pred cCCcccccCCCCccccccCCCcchhhhhcccCCCCCCCcCCCCCCCC
Q 015359 58 ECPICFLYYPSLNRSRCCMKGICTECFLQMKNPNTTRPTQCPFCKTA 104 (408)
Q Consensus 58 ECPICFlyYp~lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC~~~ 104 (408)
-||||+..+-.--.+ -|..-.|-+|+.++-.. ...||+|..+
T Consensus 3 ~Cpi~~~~~~~Pv~~-~~G~v~~~~~i~~~~~~----~~~cP~~~~~ 44 (63)
T smart00504 3 LCPISLEVMKDPVIL-PSGQTYERRAIEKWLLS----HGTDPVTGQP 44 (63)
T ss_pred CCcCCCCcCCCCEEC-CCCCEEeHHHHHHHHHH----CCCCCCCcCC
Confidence 599999776542223 34699999999988654 2479999875
No 21
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=80.85 E-value=0.8 Score=33.14 Aligned_cols=42 Identities=26% Similarity=0.693 Sum_probs=27.6
Q ss_pred CCcccccCCCCccccccCCCcchhhhhcccCCCCCCCcCCCCC
Q 015359 59 CPICFLYYPSLNRSRCCMKGICTECFLQMKNPNTTRPTQCPFC 101 (408)
Q Consensus 59 CPICFlyYp~lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC 101 (408)
||||.-+|-. -.+-=|....|-.|.-+...........||.|
T Consensus 1 CpiC~~~~~~-Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD-PVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS-EEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC-ccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999987763 11223799999999998887654444789988
No 22
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=77.31 E-value=1.3 Score=38.42 Aligned_cols=11 Identities=45% Similarity=1.026 Sum_probs=9.3
Q ss_pred CCcCCCCCCCC
Q 015359 94 RPTQCPFCKTA 104 (408)
Q Consensus 94 ~p~~CPfC~~~ 104 (408)
.|+.||||-+.
T Consensus 25 ~PivCP~CG~~ 35 (108)
T PF09538_consen 25 DPIVCPKCGTE 35 (108)
T ss_pred CCccCCCCCCc
Confidence 48999999875
No 23
>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=74.77 E-value=2.7 Score=42.64 Aligned_cols=82 Identities=23% Similarity=0.381 Sum_probs=54.5
Q ss_pred CcCCccc--ccCC-C-CccccccCCCcchhhhhcccCCCCCCCcCCCCCCCCCceEEEcCCCchhhhhhhHHHHHHHHHH
Q 015359 57 EECPICF--LYYP-S-LNRSRCCMKGICTECFLQMKNPNTTRPTQCPFCKTANYAVEYRGVKTKEEKGMEQIEEQRVIEA 132 (408)
Q Consensus 57 ~ECPICF--lyYp-~-lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC~~~~f~V~Y~g~kt~eek~~~q~EeqrviEa 132 (408)
..||+|- .|+. . .-...=|...+|-+||--|+.- -++.||=|...--..-|+- .+-|.+.++-..+-|-.=.
T Consensus 1 ~~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~---g~~~CpeC~~iLRk~nfr~-q~fED~~vekEv~iRrri~ 76 (300)
T KOG3800|consen 1 QACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSL---GPAQCPECMVILRKNNFRV-QTFEDPTVEKEVDIRRRIL 76 (300)
T ss_pred CCCcccccceecCccceeeeccccchHHHHHHHHHHhc---CCCCCCcccchhhhcccch-hhcchhHHHHHHHHHHHHH
Confidence 3699996 4443 3 2233379999999999999875 3679999988755555542 3456666666655555556
Q ss_pred HHHHHHHHhH
Q 015359 133 KIRIRQQELQ 142 (408)
Q Consensus 133 ~ir~r~~e~~ 142 (408)
+|..|.+|.-
T Consensus 77 ~~~nk~~eeF 86 (300)
T KOG3800|consen 77 RIFNKKEEEF 86 (300)
T ss_pred HHhccchhhh
Confidence 7777655433
No 24
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=68.99 E-value=4 Score=42.75 Aligned_cols=61 Identities=30% Similarity=0.643 Sum_probs=44.0
Q ss_pred cCCcccccCC--CCccccc-cCCCcchhhhhcccCCCCCCCcCCCCCCC--CCceEEEcCCCchhhhhhh
Q 015359 58 ECPICFLYYP--SLNRSRC-CMKGICTECFLQMKNPNTTRPTQCPFCKT--ANYAVEYRGVKTKEEKGME 122 (408)
Q Consensus 58 ECPICFlyYp--~lN~SrC-C~q~ICTECflQikr~~~s~p~~CPfC~~--~~f~V~Y~g~kt~eek~~~ 122 (408)
.||.|..-.- .-|.--| |.-.||--|+-.||-. ...+||-|.. .+-.|.|... +.||-.++
T Consensus 16 ~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~---lngrcpacrr~y~denv~~~~~-s~ee~kme 81 (480)
T COG5175 16 YCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQN---LNGRCPACRRKYDDENVRYVTL-SPEELKME 81 (480)
T ss_pred cCcccccccccccCCcccCCcccHHHHHHHHHHHhh---ccCCChHhhhhccccceeEEec-CHHHHHHH
Confidence 3999986443 3566667 7789999999999974 3468999975 3456888875 44555554
No 25
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=66.18 E-value=1.7 Score=45.20 Aligned_cols=46 Identities=22% Similarity=0.695 Sum_probs=36.1
Q ss_pred CCcCCcccccCCCCccccccCCCcchhhhhcccCCCCCCCcCCCCCCCC
Q 015359 56 LEECPICFLYYPSLNRSRCCMKGICTECFLQMKNPNTTRPTQCPFCKTA 104 (408)
Q Consensus 56 ~~ECPICFlyYp~lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC~~~ 104 (408)
...||||.-..-.--.++=|.+.||.+||+.--|.. .-.||-|++.
T Consensus 43 ~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~g---n~ecptcRk~ 88 (381)
T KOG0311|consen 43 QVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSG---NNECPTCRKK 88 (381)
T ss_pred hhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhc---CCCCchHHhh
Confidence 478999997766656678899999999999766542 2469999875
No 26
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=64.19 E-value=1.1 Score=33.15 Aligned_cols=40 Identities=25% Similarity=0.707 Sum_probs=18.9
Q ss_pred CCcccccCCC-Ccc--ccccCCCcchhhhhcccCCCCCCCcCCC
Q 015359 59 CPICFLYYPS-LNR--SRCCMKGICTECFLQMKNPNTTRPTQCP 99 (408)
Q Consensus 59 CPICFlyYp~-lN~--SrCC~q~ICTECflQikr~~~s~p~~CP 99 (408)
||||+. |=. -|. .-=|..-||-+|.-+|-........+||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 999999 621 111 1129999999999988753323346676
No 27
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=61.76 E-value=3.6 Score=43.18 Aligned_cols=95 Identities=24% Similarity=0.424 Sum_probs=55.1
Q ss_pred cccccccccC--CCcchHHHHHHHHhcccCCCC-CC-----CCCcCCCCCcCCcccccCCCCccccccCCCcchhhhhcc
Q 015359 16 YTRPQGLYVH--KDVDIKKLRKLILESKLAPCY-PG-----DEDCCCDLEECPICFLYYPSLNRSRCCMKGICTECFLQM 87 (408)
Q Consensus 16 yt~PqGLY~~--~d~D~k~vRkLI~e~kLAP~y-pg-----~ed~~~~~~ECPICFlyYp~lN~SrCC~q~ICTECflQi 87 (408)
|-|-||--.. +.-|-+..|| ...|=+-+. |. +||...+..-|-||-.---+.-+. =|...||.-|.|.+
T Consensus 15 frRTqgpqnNtkphndrknfrR--kqkKNnlsaEPnlttsSaddtDEen~~C~ICA~~~TYs~~~-PC~H~~CH~Ca~Rl 91 (493)
T COG5236 15 FRRTQGPQNNTKPHNDRKNFRR--KQKKNNLSAEPNLTTSSADDTDEENMNCQICAGSTTYSARY-PCGHQICHACAVRL 91 (493)
T ss_pred cccccCCccCCCccccCcchhh--hccccccccCCccccccccccccccceeEEecCCceEEEec-cCCchHHHHHHHHH
Confidence 3444554332 4456667777 444444443 22 244344556677776432111111 27889999999887
Q ss_pred cCCCCCCCcCCCCCCCCCceEEEcCCCc
Q 015359 88 KNPNTTRPTQCPFCKTANYAVEYRGVKT 115 (408)
Q Consensus 88 kr~~~s~p~~CPfC~~~~f~V~Y~g~kt 115 (408)
..--. --.||||++.+=.|.++..-.
T Consensus 92 RALY~--~K~C~~CrTE~e~V~fT~~~~ 117 (493)
T COG5236 92 RALYM--QKGCPLCRTETEAVVFTASSP 117 (493)
T ss_pred HHHHh--ccCCCccccccceEEEecCCC
Confidence 64211 136999999999999976533
No 28
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=60.03 E-value=3.6 Score=37.81 Aligned_cols=49 Identities=33% Similarity=0.689 Sum_probs=39.5
Q ss_pred CCCcCCcccccCC---CCccccccCCCcchhhhhcccCCCCCCCcCCCCCCCC
Q 015359 55 DLEECPICFLYYP---SLNRSRCCMKGICTECFLQMKNPNTTRPTQCPFCKTA 104 (408)
Q Consensus 55 ~~~ECPICFlyYp---~lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC~~~ 104 (408)
..-||-||--.-- -|-.--||.-.||--|++++=.. ...-..||-|+|.
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~-~~~ypvCPvCkTS 130 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKF-CNLYPVCPVCKTS 130 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHH-cccCCCCCccccc
Confidence 5679999987655 27788899999999999998653 2245789999997
No 29
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=55.29 E-value=4.4 Score=39.80 Aligned_cols=27 Identities=19% Similarity=0.733 Sum_probs=18.2
Q ss_pred CCcchhhhhcccCCC------CCCCcCCCCCCC
Q 015359 77 KGICTECFLQMKNPN------TTRPTQCPFCKT 103 (408)
Q Consensus 77 q~ICTECflQikr~~------~s~p~~CPfC~~ 103 (408)
..+|..||+-|-+.. ....+.||||-.
T Consensus 197 g~~C~GC~m~l~~~~~~~V~~~d~iv~CP~CgR 229 (239)
T COG1579 197 GRVCGGCHMKLPSQTLSKVRKKDEIVFCPYCGR 229 (239)
T ss_pred CCcccCCeeeecHHHHHHHhcCCCCccCCccch
Confidence 346777777666432 346799999963
No 30
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=54.26 E-value=6.5 Score=31.18 Aligned_cols=25 Identities=44% Similarity=0.971 Sum_probs=18.3
Q ss_pred ccCCCcchhhhhcccCCCCCCCcCCCCCCCC
Q 015359 74 CCMKGICTECFLQMKNPNTTRPTQCPFCKTA 104 (408)
Q Consensus 74 CC~q~ICTECflQikr~~~s~p~~CPfC~~~ 104 (408)
=|..-||..||= .++-.-||||.++
T Consensus 24 pCgH~I~~~~f~------~~rYngCPfC~~~ 48 (55)
T PF14447_consen 24 PCGHLICDNCFP------GERYNGCPFCGTP 48 (55)
T ss_pred cccceeeccccC------hhhccCCCCCCCc
Confidence 377888998882 2334589999886
No 31
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=52.51 E-value=5.7 Score=38.05 Aligned_cols=45 Identities=24% Similarity=0.654 Sum_probs=34.8
Q ss_pred CCCcCCcccccCCC-CccccccCCCcchhhhhcccCCCCCCCcCCCCCCC
Q 015359 55 DLEECPICFLYYPS-LNRSRCCMKGICTECFLQMKNPNTTRPTQCPFCKT 103 (408)
Q Consensus 55 ~~~ECPICFlyYp~-lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC~~ 103 (408)
..--||||+--|-. +-.|.=|..-+|..|.-..-.. -..||-|..
T Consensus 130 ~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~----~~~CP~C~k 175 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKN----TNKCPTCRK 175 (187)
T ss_pred cccCCCceecchhhccccccccchhHHHHHHHHHHHh----CCCCCCccc
Confidence 35789999999984 6687778999999996544332 368999985
No 32
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=52.05 E-value=15 Score=41.22 Aligned_cols=53 Identities=26% Similarity=0.445 Sum_probs=38.9
Q ss_pred CCCCCcCCcccccCCCCccccccCCCcchhhhhcccCCCCCCCcCCCCCCCCCceEEEcCCCc
Q 015359 53 CCDLEECPICFLYYPSLNRSRCCMKGICTECFLQMKNPNTTRPTQCPFCKTANYAVEYRGVKT 115 (408)
Q Consensus 53 ~~~~~ECPICFlyYp~lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC~~~~f~V~Y~g~kt 115 (408)
+.-..+||-|--++=.-..+ .+-.|+-|--|.+. |-.||-|-.. .+.|.|..|
T Consensus 441 Cg~v~~Cp~Cd~~lt~H~~~---~~L~CH~Cg~~~~~-----p~~Cp~Cgs~--~L~~~G~Gt 493 (730)
T COG1198 441 CGYIAECPNCDSPLTLHKAT---GQLRCHYCGYQEPI-----PQSCPECGSE--HLRAVGPGT 493 (730)
T ss_pred CCCcccCCCCCcceEEecCC---CeeEeCCCCCCCCC-----CCCCCCCCCC--eeEEecccH
Confidence 34579999999776532222 67788899888555 4689999998 788888754
No 33
>PF02809 UIM: Ubiquitin interaction motif; InterPro: IPR003903 The Ubiquitin Interacting Motif (UIM), or 'LALAL-motif', is a stretch of about 20 amino acid residues, which was first described in the 26S proteasome subunit PSD4/RPN-10 that is known to recognise ubiquitin [,]. In addition, the UIM is found, often in tandem or triplet arrays, in a variety of proteins either involved in ubiquitination and ubiquitin metabolism, or known to interact with ubiquitin-like modifiers. Among the UIM proteins are two different subgroups of the UBP (ubiquitin carboxy-terminal hydrolase) family of deubiquitinating enzymes, one F-box protein, one family of HECT-containing ubiquitin-ligases (E3s) from plants, and several proteins containing ubiquitin-associated UBA and/or UBX domains []. In most of these proteins, the UIM occurs in multiple copies and in association with other domains such as UBA (IPR015940 from INTERPRO), UBX (IPR001012 from INTERPRO), ENTH, EH (IPR000261 from INTERPRO), VHS (IPR002014 from INTERPRO), SH3 (IPR001452 from INTERPRO), HECT (IPR000569 from INTERPRO), VWFA (IPR002035 from INTERPRO), EF-hand calcium-binding, WD-40 (IPR001680 from INTERPRO), F-box (IPR001810 from INTERPRO), LIM (IPR001781 from INTERPRO), protein kinase (IPR000719 from INTERPRO), ankyrin (IPR002110 from INTERPRO), PX (IPR001683 from INTERPRO), phosphatidylinositol 3- and 4-kinase (IPR000403 from INTERPRO), C2 (IPR000008 from INTERPRO), OTU (IPR003323 from INTERPRO), dnaJ (IPR001623 from INTERPRO), RING-finger (IPR001841 from INTERPRO) or FYVE-finger (IPR017455 from INTERPRO). UIMs have been shown to bind ubiquitin and to serve as a specific targeting signal important for monoubiquitination. Thus, UIMs may have several functions in ubiquitin metabolism each of which may require different numbers of UIMs [, , ]. The UIM is unlikely to form an independent folding domain. Instead, based on the spacing of the conserved residues, the motif probably forms a short alpha-helix that can be embedded into different protein folds []. Some proteins known to contain an UIM are listed below: Eukaryotic PSD4/RPN-10/S5, a multi-ubiquitin binding subunit of the 26S proteasome. Vertebrate Machado-Joseph disease protein 1 (Ataxin-3), which acts as a histone-binding protein that regulates transcription; defects in Ataxin-3 cause the neurodegenerative disorder Machado-Joseph disease (MJD). Vertebrate epsin and epsin2. Vertebrate hepatocyte growth factor-regulated tyrosine kinase substrate (HRS). Mammalian epidermal growth factor receptor substrate 15 (EPS15), which is involved in cell growth regulation. Mammalian epidermal growth factor receptor substrate EPS15R. Drosophila melanogaster (Fruit fly) liquid facets (lqf), an epsin. Yeast VPS27 vacuolar sorting protein, which is required for membrane traffic to the vacuole. ; PDB: 2KDE_A 2KDF_A 1YX6_A 1YX5_A 1YX4_A 1P9C_A 1UEL_B 1P9D_S 2KLZ_A.
Probab=49.69 E-value=17 Score=22.85 Aligned_cols=15 Identities=40% Similarity=0.523 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHhhhh
Q 015359 382 EEQMMLAMAASLAEA 396 (408)
Q Consensus 382 EEQMMLAMAvSLAEa 396 (408)
++++-+|+++||.|+
T Consensus 4 d~~L~~Al~~S~~e~ 18 (18)
T PF02809_consen 4 DEDLQRALEMSLEEA 18 (18)
T ss_dssp HHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHhhhccC
Confidence 678889999999874
No 34
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=49.58 E-value=6.7 Score=28.57 Aligned_cols=26 Identities=19% Similarity=0.577 Sum_probs=19.0
Q ss_pred cchhhhhcccCCCCCCCcCCCCCCCC
Q 015359 79 ICTECFLQMKNPNTTRPTQCPFCKTA 104 (408)
Q Consensus 79 ICTECflQikr~~~s~p~~CPfC~~~ 104 (408)
+|..|--++.-........||||..+
T Consensus 5 ~C~~CG~~~~~~~~~~~~~Cp~CG~~ 30 (46)
T PRK00398 5 KCARCGREVELDEYGTGVRCPYCGYR 30 (46)
T ss_pred ECCCCCCEEEECCCCCceECCCCCCe
Confidence 57788777765444447899999876
No 35
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=49.31 E-value=11 Score=39.09 Aligned_cols=49 Identities=22% Similarity=0.663 Sum_probs=35.0
Q ss_pred CcCCcccccCCCCccccccCCCcchhhhhcccCCCCCCCcCCCCCCCCCceE
Q 015359 57 EECPICFLYYPSLNRSRCCMKGICTECFLQMKNPNTTRPTQCPFCKTANYAV 108 (408)
Q Consensus 57 ~ECPICFlyYp~lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC~~~~f~V 108 (408)
.-||.|--..-.--+++||...+|-||.-.--- ++ --.||-|-.-+.-+
T Consensus 275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~-ds--Df~CpnC~rkdvll 323 (427)
T COG5222 275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALL-DS--DFKCPNCSRKDVLL 323 (427)
T ss_pred ccCcchhhhhhCcccCccccchHHHHHHhhhhh-hc--cccCCCcccccchh
Confidence 789999877666556699999999999642211 11 25799999875433
No 36
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=47.41 E-value=11 Score=34.30 Aligned_cols=16 Identities=25% Similarity=0.559 Sum_probs=11.9
Q ss_pred CCcCCCCCCCCCceEEE
Q 015359 94 RPTQCPFCKTANYAVEY 110 (408)
Q Consensus 94 ~p~~CPfC~~~~f~V~Y 110 (408)
.|+.||||.+. |-..|
T Consensus 25 ~p~vcP~cg~~-~~~~~ 40 (129)
T TIGR02300 25 RPAVSPYTGEQ-FPPEE 40 (129)
T ss_pred CCccCCCcCCc-cCcch
Confidence 38999999887 55443
No 37
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=45.22 E-value=7 Score=29.49 Aligned_cols=26 Identities=23% Similarity=0.712 Sum_probs=17.6
Q ss_pred CCcchhhhhcccCCC------CCCCcCCCCCC
Q 015359 77 KGICTECFLQMKNPN------TTRPTQCPFCK 102 (408)
Q Consensus 77 q~ICTECflQikr~~------~s~p~~CPfC~ 102 (408)
...|+.|++.|.+.. ..+.+.||+|.
T Consensus 22 ~~~C~gC~~~l~~~~~~~i~~~~~i~~Cp~Cg 53 (56)
T PF02591_consen 22 GGTCSGCHMELPPQELNEIRKGDEIVFCPNCG 53 (56)
T ss_pred CCccCCCCEEcCHHHHHHHHcCCCeEECcCCC
Confidence 356777777776531 24568999995
No 38
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=44.00 E-value=18 Score=43.08 Aligned_cols=52 Identities=21% Similarity=0.457 Sum_probs=34.5
Q ss_pred CCcCCcccccCCCCcccccc--CCC-----cchhhhhcccCCCCCCCcCCCCCCCCCceEEEc
Q 015359 56 LEECPICFLYYPSLNRSRCC--MKG-----ICTECFLQMKNPNTTRPTQCPFCKTANYAVEYR 111 (408)
Q Consensus 56 ~~ECPICFlyYp~lN~SrCC--~q~-----ICTECflQikr~~~s~p~~CPfC~~~~f~V~Y~ 111 (408)
..-||-|--.=+.. +|. ... .|..|-.++....+. .+.||||.++--...+.
T Consensus 667 ~rkCPkCG~~t~~~---fCP~CGs~te~vy~CPsCGaev~~des~-a~~CP~CGtplv~~~~~ 725 (1337)
T PRK14714 667 RRRCPSCGTETYEN---RCPDCGTHTEPVYVCPDCGAEVPPDESG-RVECPRCDVELTPYQRR 725 (1337)
T ss_pred EEECCCCCCccccc---cCcccCCcCCCceeCccCCCccCCCccc-cccCCCCCCcccccceE
Confidence 46788887653332 553 333 499999988765434 77999999995554443
No 39
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=42.63 E-value=12 Score=26.42 Aligned_cols=29 Identities=31% Similarity=0.761 Sum_probs=17.3
Q ss_pred cchhhhhcccCCCCCCCcCCCCCCCCCceEEEc
Q 015359 79 ICTECFLQMKNPNTTRPTQCPFCKTANYAVEYR 111 (408)
Q Consensus 79 ICTECflQikr~~~s~p~~CPfC~~~~f~V~Y~ 111 (408)
||.+|-..+.- ....+++||+|- +.|.|+
T Consensus 2 ~C~~Cg~~~~~-~~~~~irC~~CG---~RIlyK 30 (32)
T PF03604_consen 2 ICGECGAEVEL-KPGDPIRCPECG---HRILYK 30 (32)
T ss_dssp BESSSSSSE-B-STSSTSSBSSSS----SEEBE
T ss_pred CCCcCCCeeEc-CCCCcEECCcCC---CeEEEe
Confidence 67888655542 223578999995 345553
No 40
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.74 E-value=26 Score=35.76 Aligned_cols=76 Identities=22% Similarity=0.475 Sum_probs=46.2
Q ss_pred chHHHHHHHHhcccC----CCCCCCCCcCCCCCcCCcccccCCCCcc-ccccCCCcchhhhhcccCCCCCCCcCCCCCCC
Q 015359 29 DIKKLRKLILESKLA----PCYPGDEDCCCDLEECPICFLYYPSLNR-SRCCMKGICTECFLQMKNPNTTRPTQCPFCKT 103 (408)
Q Consensus 29 D~k~vRkLI~e~kLA----P~ypg~ed~~~~~~ECPICFlyYp~lN~-SrCC~q~ICTECflQikr~~~s~p~~CPfC~~ 103 (408)
+..++|++.+.-+++ |-+- -....+..|||+|-.. |.+-+ --||..--|--|..-=.-.+ -.-.||-|.+
T Consensus 210 ~~~k~r~~l~sw~~~l~~ap~~s--ss~~t~~~~C~~Cg~~-PtiP~~~~~C~HiyCY~Ci~ts~~~~--asf~Cp~Cg~ 284 (298)
T KOG2879|consen 210 NFRKLRRVLKSWKLDLDRAPKFS--SSTGTSDTECPVCGEP-PTIPHVIGKCGHIYCYYCIATSRLWD--ASFTCPLCGE 284 (298)
T ss_pred HHHHHHHHHHhhcccccCCCCcc--cccccCCceeeccCCC-CCCCeeeccccceeehhhhhhhhcch--hhcccCccCC
Confidence 444566655555555 3332 1224578999999876 75444 45788877777754333222 2368999998
Q ss_pred CCceEE
Q 015359 104 ANYAVE 109 (408)
Q Consensus 104 ~~f~V~ 109 (408)
+--.++
T Consensus 285 ~~~~lq 290 (298)
T KOG2879|consen 285 NVEPLQ 290 (298)
T ss_pred CCcchh
Confidence 844333
No 41
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=39.51 E-value=23 Score=30.14 Aligned_cols=46 Identities=22% Similarity=0.548 Sum_probs=23.8
Q ss_pred CCcCCcccccCC---------CCccccccCCCcchhhhhc-----ccCCCCCCCcCCCCCCCC
Q 015359 56 LEECPICFLYYP---------SLNRSRCCMKGICTECFLQ-----MKNPNTTRPTQCPFCKTA 104 (408)
Q Consensus 56 ~~ECPICFlyYp---------~lN~SrCC~q~ICTECflQ-----ikr~~~s~p~~CPfC~~~ 104 (408)
.+.|+||.+.|- +.+-.-+ -+.|+-+|-. --...+++ ..||.|.++
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv--~g~C~H~FH~hCI~kWl~~~~~~-~~CPmCR~~ 80 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLV--WGKCSHNFHMHCILKWLSTQSSK-GQCPMCRQP 80 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCcee--eccCccHHHHHHHHHHHccccCC-CCCCCcCCe
Confidence 567777776643 2221111 1235555533 22333343 489999986
No 42
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.14 E-value=5.8 Score=32.02 Aligned_cols=44 Identities=30% Similarity=0.736 Sum_probs=33.1
Q ss_pred CcCCcccccCC-CCccccccCCCcchhhhhcccCCCCCCCcCCCCCCCC
Q 015359 57 EECPICFLYYP-SLNRSRCCMKGICTECFLQMKNPNTTRPTQCPFCKTA 104 (408)
Q Consensus 57 ~ECPICFlyYp-~lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC~~~ 104 (408)
.||-||+.. | .--.-.|=.--.|-+|-+..|+. ...+||.|..+
T Consensus 8 dECTICye~-pvdsVlYtCGHMCmCy~Cg~rl~~~---~~g~CPiCRap 52 (62)
T KOG4172|consen 8 DECTICYEH-PVDSVLYTCGHMCMCYACGLRLKKA---LHGCCPICRAP 52 (62)
T ss_pred cceeeeccC-cchHHHHHcchHHhHHHHHHHHHHc---cCCcCcchhhH
Confidence 899999876 5 21112365667899999999986 35799999876
No 43
>TIGR02574 stabl_TIGR02574 putative addiction module component, TIGR02574 family. Members of this family are bacterial proteins, typically are about 75 amino acids long, always found as part of a pair (at least) of two small genes. The other in the pair always belongs to a subfamily of the larger family pfam05016 (although not necessarily scoring above the designated cutoff), which contains plasmid stabilization proteins. It is likely that this protein and its pfam05016 member partner comprise some form of addiction module, although these gene pairs usually are found on the bacterial main chromosome.
Probab=37.35 E-value=25 Score=27.34 Aligned_cols=15 Identities=47% Similarity=0.738 Sum_probs=13.4
Q ss_pred hHHHHHHHHHHHHHh
Q 015359 210 EDIMVMEAIWLSIQE 224 (408)
Q Consensus 210 EdiMvmEAIwlSiQe 224 (408)
|-|.|||.||.||-.
T Consensus 7 ERl~Lve~LwdSL~~ 21 (63)
T TIGR02574 7 ERIQLVEDIWDSIAA 21 (63)
T ss_pred HHHHHHHHHHHHhcc
Confidence 679999999999974
No 44
>KOG2635 consensus Medium subunit of clathrin adaptor complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=36.41 E-value=41 Score=36.42 Aligned_cols=44 Identities=27% Similarity=0.342 Sum_probs=35.9
Q ss_pred EEcCCCchhhhhhhHHHHHHHHHHHHHH--HHHHhHHHHHHHHhhh
Q 015359 109 EYRGVKTKEEKGMEQIEEQRVIEAKIRI--RQQELQDDEERMLKRQ 152 (408)
Q Consensus 109 ~Y~g~kt~eek~~~q~EeqrviEa~ir~--r~~e~~~~e~~~~kr~ 152 (408)
||.-.++-|||-.+.+.+-+-+|||-.| |++|||+...+--+|-
T Consensus 132 ty~eMdSHEEKi~e~v~~nke~ea~q~mkrKaKElqr~r~ea~rrg 177 (512)
T KOG2635|consen 132 TYLEMDSHEEKIHELVMRNKEREAKQEMKRKAKELQRARKEAERRG 177 (512)
T ss_pred hhhccccHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhhhccc
Confidence 5777899999999999999999999755 6788877766666665
No 45
>PF04981 NMD3: NMD3 family ; InterPro: IPR007064 The NMD3 protein is involved in nonsense mediated mRNA decay. This N-terminal region contains four conserved CXXC motifs that could be metal binding. NMD3 is involved in export of the 60S ribosomal subunit is mediated by the adapter protein Nmd3p in a Crm1p-dependent pathway [].
Probab=35.24 E-value=27 Score=33.18 Aligned_cols=42 Identities=31% Similarity=0.746 Sum_probs=26.5
Q ss_pred CCcccccCCCCccccccCCCcchhhhhcccC----CCCCCCcCCCCCCCCCc
Q 015359 59 CPICFLYYPSLNRSRCCMKGICTECFLQMKN----PNTTRPTQCPFCKTANY 106 (408)
Q Consensus 59 CPICFlyYp~lN~SrCC~q~ICTECflQikr----~~~s~p~~CPfC~~~~f 106 (408)
||+|-.--..+ .. .+|.+||+.-.+ |+.-+-..||.|..--+
T Consensus 1 C~~CG~~~~~~-~~-----~lC~~C~~~~~~i~ei~~~i~v~~C~~Cg~~~~ 46 (236)
T PF04981_consen 1 CPRCGREIEPL-ID-----GLCPDCYLKRFDIIEIPDRIEVTICPKCGRYRI 46 (236)
T ss_pred CCCCCCCCCCc-cc-----ccChHHhcccCCeeecCCccCceECCCCCCEEC
Confidence 88888721112 11 699999997664 22234578999976433
No 46
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=34.39 E-value=12 Score=43.73 Aligned_cols=49 Identities=31% Similarity=0.800 Sum_probs=34.8
Q ss_pred CCCCcCCcccccCC----CCccccc--cCCCcchhhhhcccCCCCCCCcCCCCCCCC
Q 015359 54 CDLEECPICFLYYP----SLNRSRC--CMKGICTECFLQMKNPNTTRPTQCPFCKTA 104 (408)
Q Consensus 54 ~~~~ECPICFlyYp----~lN~SrC--C~q~ICTECflQikr~~~s~p~~CPfC~~~ 104 (408)
.+.+||+||.-..- .|-..|| |+.-.=+-|.+.-=++ +....||-|...
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~S--s~~s~CPlCRse 1521 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFAS--SARSNCPLCRSE 1521 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHh--cCCCCCCccccc
Confidence 46899999975433 4666777 7777888888765443 344689999843
No 47
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=32.48 E-value=33 Score=35.93 Aligned_cols=50 Identities=32% Similarity=0.610 Sum_probs=28.0
Q ss_pred CCCcCCcccccCCCCccccccC-----------------CCcchhhh----hcccCCCCC--CCcCCCCCCCC
Q 015359 55 DLEECPICFLYYPSLNRSRCCM-----------------KGICTECF----LQMKNPNTT--RPTQCPFCKTA 104 (408)
Q Consensus 55 ~~~ECPICFlyYp~lN~SrCC~-----------------q~ICTECf----lQikr~~~s--~p~~CPfC~~~ 104 (408)
...|||||...=|+.-..-=|- --.|+|=- -||.-||-. -.+.||||.+.
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~ 412 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQ 412 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhh
Confidence 3689999998766432222222 22455432 244444421 24789999875
No 48
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.29 E-value=28 Score=31.58 Aligned_cols=10 Identities=20% Similarity=0.551 Sum_probs=8.1
Q ss_pred CCcCCCCCCC
Q 015359 94 RPTQCPFCKT 103 (408)
Q Consensus 94 ~p~~CPfC~~ 103 (408)
.|+.||||-.
T Consensus 25 dPiVsPytG~ 34 (129)
T COG4530 25 DPIVSPYTGK 34 (129)
T ss_pred CccccCcccc
Confidence 5899999954
No 49
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=30.20 E-value=16 Score=24.46 Aligned_cols=11 Identities=45% Similarity=1.274 Sum_probs=9.0
Q ss_pred CcCCcccccCC
Q 015359 57 EECPICFLYYP 67 (408)
Q Consensus 57 ~ECPICFlyYp 67 (408)
..||||+.-++
T Consensus 2 v~CPiC~~~v~ 12 (26)
T smart00734 2 VQCPVCFREVP 12 (26)
T ss_pred CcCCCCcCccc
Confidence 57999998776
No 50
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=29.16 E-value=24 Score=26.32 Aligned_cols=30 Identities=23% Similarity=0.497 Sum_probs=20.3
Q ss_pred cchhhhhcccCCCCCCCcCCCCCCCCCceEEEcC
Q 015359 79 ICTECFLQMKNPNTTRPTQCPFCKTANYAVEYRG 112 (408)
Q Consensus 79 ICTECflQikr~~~s~p~~CPfC~~~~f~V~Y~g 112 (408)
||.+|--.+.-. ...++.||+|-. -|.|..
T Consensus 4 ~C~~Cg~~~~~~-~~~~irC~~CG~---rIlyK~ 33 (44)
T smart00659 4 ICGECGRENEIK-SKDVVRCRECGY---RILYKK 33 (44)
T ss_pred ECCCCCCEeecC-CCCceECCCCCc---eEEEEe
Confidence 788887655432 345799999965 577743
No 51
>PF10276 zf-CHCC: Zinc-finger domain; InterPro: IPR019401 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 a short conserved zinc-finger domain. It contains the sequence motif Cx8Hx14Cx2C. ; PDB: 2JVM_A 2JRR_A 2JZ8_A.
Probab=29.12 E-value=16 Score=27.05 Aligned_cols=18 Identities=33% Similarity=1.056 Sum_probs=10.8
Q ss_pred hhcccCCCCCCCcCCCCCCC
Q 015359 84 FLQMKNPNTTRPTQCPFCKT 103 (408)
Q Consensus 84 flQikr~~~s~p~~CPfC~~ 103 (408)
||.|... .+++.||||-+
T Consensus 20 yl~l~~~--~~~~~CpYCg~ 37 (40)
T PF10276_consen 20 YLNLDDE--PGPVVCPYCGT 37 (40)
T ss_dssp EEE-TTT--TCEEEETTTTE
T ss_pred EEecCCC--CCeEECCCCCC
Confidence 3444442 24789999964
No 52
>smart00726 UIM Ubiquitin-interacting motif. Present in proteasome subunit S5a and other ubiquitin-associated proteins.
Probab=28.50 E-value=67 Score=21.78 Aligned_cols=20 Identities=35% Similarity=0.268 Sum_probs=16.7
Q ss_pred hHHHHHHHHHHHHHhhcCCC
Q 015359 210 EDIMVMEAIWLSIQENGRQR 229 (408)
Q Consensus 210 EdiMvmEAIwlSiQe~~~~~ 229 (408)
||-|+.=||-+|+|+.....
T Consensus 2 EDe~Lq~Ai~lSl~e~e~~~ 21 (26)
T smart00726 2 EDEDLQLALELSLQEAEESX 21 (26)
T ss_pred hHHHHHHHHHHhHHHhhhcc
Confidence 67888999999999987553
No 53
>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=28.40 E-value=23 Score=31.76 Aligned_cols=40 Identities=25% Similarity=0.408 Sum_probs=22.7
Q ss_pred CCcchhhhhcccCCCCCCCcCCCCCCCCCceEEEcCCCchhhhhhhH
Q 015359 77 KGICTECFLQMKNPNTTRPTQCPFCKTANYAVEYRGVKTKEEKGMEQ 123 (408)
Q Consensus 77 q~ICTECflQikr~~~s~p~~CPfC~~~~f~V~Y~g~kt~eek~~~q 123 (408)
|-+|.+|--+.|--. +--.|+||++| .|- .++.|.|+.+|
T Consensus 69 ~V~CP~C~K~TKmLG--r~D~CM~C~~p---LTL--d~~legkef~~ 108 (114)
T PF11023_consen 69 QVECPNCGKQTKMLG--RVDACMHCKEP---LTL--DPSLEGKEFDE 108 (114)
T ss_pred eeECCCCCChHhhhc--hhhccCcCCCc---Ccc--CchhhcchhhH
Confidence 445666655555221 12389999998 222 44556666554
No 54
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=27.80 E-value=19 Score=40.58 Aligned_cols=46 Identities=30% Similarity=0.525 Sum_probs=34.4
Q ss_pred CCCcCCcc-cccCCC--CccccccCCCcchhhhhcccCCCCCCCcCCCCCCCCCce
Q 015359 55 DLEECPIC-FLYYPS--LNRSRCCMKGICTECFLQMKNPNTTRPTQCPFCKTANYA 107 (408)
Q Consensus 55 ~~~ECPIC-FlyYp~--lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC~~~~f~ 107 (408)
+..-|+|| -+|+-. +-+|-=|.+.||--|.-..-+ ++|| |+..+-.
T Consensus 10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn------~scp-~~~De~~ 58 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN------ASCP-TKRDEDS 58 (861)
T ss_pred HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh------ccCC-CCccccc
Confidence 45679999 566663 778888999999999866555 4788 7766443
No 55
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=27.30 E-value=17 Score=36.80 Aligned_cols=42 Identities=29% Similarity=0.815 Sum_probs=28.4
Q ss_pred CCcCCccc--ccC-CC--CccccccCCCcchhhhhcccCCCCCCCcCCCC
Q 015359 56 LEECPICF--LYY-PS--LNRSRCCMKGICTECFLQMKNPNTTRPTQCPF 100 (408)
Q Consensus 56 ~~ECPICF--lyY-p~--lN~SrCC~q~ICTECflQikr~~~s~p~~CPf 100 (408)
...||||- .|. |. |-.+-=|-..+|-.|.-.|=.. .|++|||
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~---GpAqCP~ 56 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSR---GPAQCPY 56 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcC---CCCCCCC
Confidence 45899996 333 32 4444456777888887776543 5899994
No 56
>PRK04023 DNA polymerase II large subunit; Validated
Probab=26.84 E-value=1.2e+02 Score=36.08 Aligned_cols=53 Identities=21% Similarity=0.450 Sum_probs=33.0
Q ss_pred CCCCCcCCCCCcCCcccccCCCCccccc--cCC-----CcchhhhhcccCCCCCCCcCCCCCCCCCceE
Q 015359 47 PGDEDCCCDLEECPICFLYYPSLNRSRC--CMK-----GICTECFLQMKNPNTTRPTQCPFCKTANYAV 108 (408)
Q Consensus 47 pg~ed~~~~~~ECPICFlyYp~lN~SrC--C~q-----~ICTECflQikr~~~s~p~~CPfC~~~~f~V 108 (408)
.|...-......||-|-... ...+| |.. -.|.+|--+. .+..||-|....-..
T Consensus 617 ~g~~eVEVg~RfCpsCG~~t---~~frCP~CG~~Te~i~fCP~CG~~~------~~y~CPKCG~El~~~ 676 (1121)
T PRK04023 617 KGTIEVEIGRRKCPSCGKET---FYRRCPFCGTHTEPVYRCPRCGIEV------EEDECEKCGREPTPY 676 (1121)
T ss_pred CCceeecccCccCCCCCCcC---CcccCCCCCCCCCcceeCccccCcC------CCCcCCCCCCCCCcc
Confidence 44444455678899998774 34566 543 3688883333 235699998874433
No 57
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=26.64 E-value=22 Score=39.77 Aligned_cols=46 Identities=26% Similarity=0.571 Sum_probs=30.6
Q ss_pred CCcCCcccccCCCCccccccCCCcchhhhhcccCCCCCCCcCCCCCCC
Q 015359 56 LEECPICFLYYPSLNRSRCCMKGICTECFLQMKNPNTTRPTQCPFCKT 103 (408)
Q Consensus 56 ~~ECPICFlyYp~lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC~~ 103 (408)
..||||||-.|=. +.+.=|..+||.-|..-....... +.+||-|+.
T Consensus 21 ~lEc~ic~~~~~~-p~~~kc~~~~l~~~~n~~f~~~~~-~~~~~lc~~ 66 (684)
T KOG4362|consen 21 ILECPICLEHVKE-PSLLKCDHIFLKFCLNKLFESKKG-PKQCALCKS 66 (684)
T ss_pred hccCCceeEEeec-cchhhhhHHHHhhhhhceeeccCc-cccchhhhh
Confidence 4799999965541 134458999999887655542211 568888874
No 58
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=25.89 E-value=54 Score=26.92 Aligned_cols=44 Identities=27% Similarity=0.705 Sum_probs=19.4
Q ss_pred CCcCCcccccCCC-CccccccCCCcchhhhhcccCCCCCCCcCCCCCCCCCc
Q 015359 56 LEECPICFLYYPS-LNRSRCCMKGICTECFLQMKNPNTTRPTQCPFCKTANY 106 (408)
Q Consensus 56 ~~ECPICFlyYp~-lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC~~~~f 106 (408)
+.-|+|||-++-. ..... |..-.|+-|.=+ - -...||-|.+|..
T Consensus 7 lLrCs~C~~~l~~pv~l~~-CeH~fCs~Ci~~---~---~~~~CPvC~~Paw 51 (65)
T PF14835_consen 7 LLRCSICFDILKEPVCLGG-CEHIFCSSCIRD---C---IGSECPVCHTPAW 51 (65)
T ss_dssp TTS-SSS-S--SS-B---S-SS--B-TTTGGG---G---TTTB-SSS--B-S
T ss_pred hcCCcHHHHHhcCCceecc-CccHHHHHHhHH---h---cCCCCCCcCChHH
Confidence 4579999988553 22222 788889999732 1 1246999999954
No 59
>KOG3088 consensus Secretory carrier membrane protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.87 E-value=76 Score=32.73 Aligned_cols=30 Identities=20% Similarity=0.349 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHhhhc
Q 015359 124 IEEQRVIEAKIRIRQQELQDDEERMLKRQE 153 (408)
Q Consensus 124 ~EeqrviEa~ir~r~~e~~~~e~~~~kr~e 153 (408)
..+-+.-|+.+..||+||.+.|++.+||+.
T Consensus 59 a~~~~~kq~eL~~rqeEL~Rke~ELdRREr 88 (313)
T KOG3088|consen 59 AKDLAKKQAELLKKQEELRRKEQELDRRER 88 (313)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 344444556666777777777777777766
No 60
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=25.55 E-value=30 Score=26.86 Aligned_cols=32 Identities=22% Similarity=0.559 Sum_probs=20.6
Q ss_pred cchhhhhcccCCCCCCCcCCCCCCCCCceEEEcCC
Q 015359 79 ICTECFLQMKNPNTTRPTQCPFCKTANYAVEYRGV 113 (408)
Q Consensus 79 ICTECflQikr~~~s~p~~CPfC~~~~f~V~Y~g~ 113 (408)
+|..|--++.-......+.||||- |.|.|.+-
T Consensus 8 ~C~~Cg~~~~~~~~~~~irCp~Cg---~rIl~K~R 39 (49)
T COG1996 8 KCARCGREVELDQETRGIRCPYCG---SRILVKER 39 (49)
T ss_pred EhhhcCCeeehhhccCceeCCCCC---cEEEEecc
Confidence 577776666322234569999995 56777553
No 61
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=25.03 E-value=31 Score=36.72 Aligned_cols=59 Identities=25% Similarity=0.674 Sum_probs=35.9
Q ss_pred CCCCcCCcccccCCC----Ccccccc-CCCcchhhhhcc--cCCCC------------CCC--cCCCCCCC--CCceEEE
Q 015359 54 CDLEECPICFLYYPS----LNRSRCC-MKGICTECFLQM--KNPNT------------TRP--TQCPFCKT--ANYAVEY 110 (408)
Q Consensus 54 ~~~~ECPICFlyYp~----lN~SrCC-~q~ICTECflQi--kr~~~------------s~p--~~CPfC~~--~~f~V~Y 110 (408)
.+.--||.|+..||+ +...||. .=..|..|+--+ ...+. .++ -.|+||.= .+.||.|
T Consensus 24 i~~~yCp~CL~~~p~~e~~~~~nrC~r~Cf~CP~C~~~L~~~~~~~~~~~~~~~~~~~~~~~~l~C~~C~Wss~~igi~F 103 (483)
T PF05502_consen 24 IDSYYCPNCLFEVPSSEARSEKNRCSRNCFDCPICFSPLSVRASDTPPSPPDPSSDSGGKPYYLSCSYCRWSSRDIGIKF 103 (483)
T ss_pred cceeECccccccCChhhheeccceeccccccCCCCCCcceeEecccccccccccccCCCCCEEEECCCceeeccccCccc
Confidence 467789999999994 4556776 335566665333 32211 122 38999984 4466665
Q ss_pred cC
Q 015359 111 RG 112 (408)
Q Consensus 111 ~g 112 (408)
.-
T Consensus 104 dk 105 (483)
T PF05502_consen 104 DK 105 (483)
T ss_pred cC
Confidence 33
No 62
>PF09415 CENP-X: CENP-S associating Centromere protein X; InterPro: IPR018552 Centromere protein X (CENP-X) is a component of the CENP-S complex. The CENP-S complex is composed of at least of CENP-S and CENP-X and is essential for the stable assembly of the outer kinetchore []. CENP-X is also a DNA-binding component of the Fanconi anemia (FA) core complex involved in DNA damage repair and genome maintenance. The FA complex is composed of CENPS, FANCA, FANCB, FANCC, FANCE, FANCF, FANCG, FANCL/PHF9, FANCM, FAAP24 and CENPX. Interacts with CENPS, FANCM and FAAP24 [, ].; PDB: 4DRB_L 4DRA_H 3V9R_D.
Probab=24.23 E-value=55 Score=26.69 Aligned_cols=22 Identities=18% Similarity=0.194 Sum_probs=17.0
Q ss_pred cChhHHHHHHHHHHHHHhhcCC
Q 015359 207 LDLEDIMVMEAIWLSIQENGRQ 228 (408)
Q Consensus 207 ~dlEdiMvmEAIwlSiQe~~~~ 228 (408)
..+=+|.|.|||+|++++....
T Consensus 29 ~eyl~iFV~EAv~Ra~~~a~~e 50 (72)
T PF09415_consen 29 AEYLRIFVREAVARAAEQAEAE 50 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHHHHc
Confidence 3456899999999999965443
No 63
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=23.29 E-value=29 Score=40.07 Aligned_cols=52 Identities=17% Similarity=0.321 Sum_probs=38.3
Q ss_pred CCCcCCcccccCC-C-CccccccCCCcchhhhhcccCCCCCCCcCCCCCCCCCceEEE
Q 015359 55 DLEECPICFLYYP-S-LNRSRCCMKGICTECFLQMKNPNTTRPTQCPFCKTANYAVEY 110 (408)
Q Consensus 55 ~~~ECPICFlyYp-~-lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC~~~~f~V~Y 110 (408)
+..-||||.+-+- . .-.-+=|...+|-+||.-+.|-. -.||-|...-..|..
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~a----qTCPiDR~EF~~v~V 175 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCA----QTCPVDRGEFGEVKV 175 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhc----ccCchhhhhhheeee
Confidence 4677888888887 3 44556688899999999988842 369999887554443
No 64
>PF13834 DUF4193: Domain of unknown function (DUF4193)
Probab=22.78 E-value=29 Score=30.46 Aligned_cols=28 Identities=39% Similarity=0.742 Sum_probs=19.3
Q ss_pred CCCcCCcccccCC-C-CccccccCCCcchhh
Q 015359 55 DLEECPICFLYYP-S-LNRSRCCMKGICTEC 83 (408)
Q Consensus 55 ~~~ECPICFlyYp-~-lN~SrCC~q~ICTEC 83 (408)
|---|--|||... + |-+.+= .++||.+|
T Consensus 69 DEFTCssCFLV~HRSqLa~~~~-g~~iC~DC 98 (99)
T PF13834_consen 69 DEFTCSSCFLVHHRSQLAREKD-GQPICRDC 98 (99)
T ss_pred CceeeeeeeeEechhhhccccC-CCEecccc
Confidence 4556888888877 3 555322 57888888
No 65
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.77 E-value=44 Score=33.08 Aligned_cols=48 Identities=23% Similarity=0.555 Sum_probs=34.6
Q ss_pred CCCcCCcccccCCCCccccccCCCcchhhhhcccCCCCCCCcCCCCCCCC
Q 015359 55 DLEECPICFLYYPSLNRSRCCMKGICTECFLQMKNPNTTRPTQCPFCKTA 104 (408)
Q Consensus 55 ~~~ECPICFlyYp~lN~SrCC~q~ICTECflQikr~~~s~p~~CPfC~~~ 104 (408)
..-+|-||+-. +.=-.-.||..-.|--|+.|---... ....||-||..
T Consensus 46 ~~FdCNICLd~-akdPVvTlCGHLFCWpClyqWl~~~~-~~~~cPVCK~~ 93 (230)
T KOG0823|consen 46 GFFDCNICLDL-AKDPVVTLCGHLFCWPCLYQWLQTRP-NSKECPVCKAE 93 (230)
T ss_pred Cceeeeeeccc-cCCCEEeecccceehHHHHHHHhhcC-CCeeCCccccc
Confidence 45799999865 44445569999999999987653221 13578999864
No 66
>PLN03086 PRLI-interacting factor K; Provisional
Probab=22.08 E-value=38 Score=37.22 Aligned_cols=46 Identities=17% Similarity=0.496 Sum_probs=0.0
Q ss_pred CCCcCCcccccCCC---CccccccCCCc-chhhhhcccCCC---------CCCCcCCCCC
Q 015359 55 DLEECPICFLYYPS---LNRSRCCMKGI-CTECFLQMKNPN---------TTRPTQCPFC 101 (408)
Q Consensus 55 ~~~ECPICFlyYp~---lN~SrCC~q~I-CTECflQikr~~---------~s~p~~CPfC 101 (408)
++..|++|-..|+. -.+-+=|.+++ |. |-..+.+.+ +.+|..|+||
T Consensus 452 ~H~~C~~Cgk~f~~s~LekH~~~~Hkpv~Cp-Cg~~~~R~~L~~H~~thCp~Kpi~C~fC 510 (567)
T PLN03086 452 NHVHCEKCGQAFQQGEMEKHMKVFHEPLQCP-CGVVLEKEQMVQHQASTCPLRLITCRFC 510 (567)
T ss_pred cCccCCCCCCccchHHHHHHHHhcCCCccCC-CCCCcchhHHHhhhhccCCCCceeCCCC
No 67
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=21.95 E-value=53 Score=30.55 Aligned_cols=14 Identities=43% Similarity=0.911 Sum_probs=11.9
Q ss_pred CCCCCCCCCceEEE
Q 015359 97 QCPFCKTANYAVEY 110 (408)
Q Consensus 97 ~CPfC~~~~f~V~Y 110 (408)
.||||..++-.|.=
T Consensus 2 ~CP~C~~~dtkViD 15 (147)
T TIGR00244 2 HCPFCQHHNTRVLD 15 (147)
T ss_pred CCCCCCCCCCEeee
Confidence 69999999888864
No 68
>PRK00420 hypothetical protein; Validated
Probab=21.66 E-value=82 Score=27.97 Aligned_cols=10 Identities=20% Similarity=0.501 Sum_probs=8.1
Q ss_pred CcCCCCCCCC
Q 015359 95 PTQCPFCKTA 104 (408)
Q Consensus 95 p~~CPfC~~~ 104 (408)
...||-|...
T Consensus 40 ~~~Cp~Cg~~ 49 (112)
T PRK00420 40 EVVCPVHGKV 49 (112)
T ss_pred ceECCCCCCe
Confidence 4789999884
No 69
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.85 E-value=56 Score=31.38 Aligned_cols=47 Identities=32% Similarity=0.732 Sum_probs=33.4
Q ss_pred CCcCCcccccCCCCc-----cccccCCCcchhhhhcccCCCCCCCcCCCCCCCCC
Q 015359 56 LEECPICFLYYPSLN-----RSRCCMKGICTECFLQMKNPNTTRPTQCPFCKTAN 105 (408)
Q Consensus 56 ~~ECPICFlyYp~lN-----~SrCC~q~ICTECflQikr~~~s~p~~CPfC~~~~ 105 (408)
..+|-||-+-|-+.. +-.=|...||.-|+-.+-... -..||||..+-
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~---~i~cpfcR~~~ 54 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNS---RILCPFCRETT 54 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCc---eeeccCCCCcc
Confidence 357899998887431 111288899999988877542 35789999984
No 70
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.67 E-value=59 Score=33.62 Aligned_cols=45 Identities=29% Similarity=0.604 Sum_probs=30.3
Q ss_pred CCCcCCcccccCCCCccccc---cCCCcchhhhhcccC--CCCCCCcCCC
Q 015359 55 DLEECPICFLYYPSLNRSRC---CMKGICTECFLQMKN--PNTTRPTQCP 99 (408)
Q Consensus 55 ~~~ECPICFlyYp~lN~SrC---C~q~ICTECflQikr--~~~s~p~~CP 99 (408)
...+|.|||--+|.-+...+ |...+|.+|+.|.-- -...-...||
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~ 194 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCP 194 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCC
Confidence 46899999977785444445 888999999875432 1122346674
No 71
>COG4296 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.50 E-value=45 Score=31.22 Aligned_cols=19 Identities=58% Similarity=0.910 Sum_probs=15.8
Q ss_pred CCCCCCCCCCcHHHHHHHH
Q 015359 370 PEDGGPIVPESFEEQMMLA 388 (408)
Q Consensus 370 ~s~~~~ivPeSFEEQMMLA 388 (408)
-.|+.+|-||||-|-|||-
T Consensus 96 eEDe~~iTpE~fk~Rm~Le 114 (156)
T COG4296 96 EEDEQPITPESFKERMALE 114 (156)
T ss_pred hccCCccCHHHHHHHhhhh
Confidence 3566679999999999995
No 72
>PF14354 Lar_restr_allev: Restriction alleviation protein Lar
Probab=20.44 E-value=70 Score=23.94 Aligned_cols=17 Identities=29% Similarity=0.735 Sum_probs=12.5
Q ss_pred CCCCCCCCCceEEEcCC
Q 015359 97 QCPFCKTANYAVEYRGV 113 (408)
Q Consensus 97 ~CPfC~~~~f~V~Y~g~ 113 (408)
-||||-.+...+.+...
T Consensus 5 PCPFCG~~~~~~~~~~~ 21 (61)
T PF14354_consen 5 PCPFCGSADVLIRQDEG 21 (61)
T ss_pred CCCCCCCcceEeecccC
Confidence 49999888777776443
Done!