Query 005405
Match_columns 698
No_of_seqs 148 out of 202
Neff 4.7
Searched_HMMs 46136
Date Thu Mar 28 22:55:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005405.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005405hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1356 Putative transcription 100.0 3E-176 7E-181 1471.9 28.7 600 1-677 265-871 (889)
2 PF02373 JmjC: JmjC domain, hy 99.5 8.9E-15 1.9E-19 131.0 5.3 84 539-638 29-114 (114)
3 PF13621 Cupin_8: Cupin-like d 99.0 4.3E-11 9.3E-16 119.7 0.9 40 603-642 207-249 (251)
4 smart00558 JmjC A domain famil 96.8 0.00044 9.6E-09 55.9 1.2 54 376-447 3-56 (57)
5 KOG2131 Uncharacterized conser 96.7 0.0017 3.7E-08 70.8 4.4 59 600-658 263-322 (427)
6 cd02340 ZZ_NBR1_like Zinc fing 95.9 0.0034 7.3E-08 49.1 1.4 30 94-123 1-31 (43)
7 KOG1356 Putative transcription 95.7 0.0059 1.3E-07 72.4 2.4 76 42-125 185-261 (889)
8 PF10497 zf-4CXXC_R1: Zinc-fin 95.6 0.0044 9.4E-08 57.2 0.9 25 8-32 62-86 (105)
9 cd02249 ZZ Zinc finger, ZZ typ 95.4 0.0063 1.4E-07 47.9 1.0 32 95-126 2-34 (46)
10 cd02335 ZZ_ADA2 Zinc finger, Z 95.3 0.0084 1.8E-07 47.9 1.4 30 95-124 2-33 (49)
11 cd02339 ZZ_Mind_bomb Zinc fing 94.9 0.013 2.7E-07 46.5 1.4 30 94-123 1-32 (45)
12 PF00569 ZZ: Zinc finger, ZZ t 94.7 0.017 3.6E-07 45.6 1.7 35 92-126 3-39 (46)
13 smart00291 ZnF_ZZ Zinc-binding 94.0 0.026 5.6E-07 44.1 1.2 35 93-127 4-39 (44)
14 cd02344 ZZ_HERC2 Zinc finger, 93.5 0.038 8.2E-07 43.9 1.4 31 94-124 1-33 (45)
15 PF07883 Cupin_2: Cupin domain 93.4 0.034 7.4E-07 45.5 1.1 26 606-631 38-63 (71)
16 cd02341 ZZ_ZZZ3 Zinc finger, Z 92.9 0.054 1.2E-06 43.5 1.5 31 95-125 2-36 (48)
17 KOG2130 Phosphatidylserine-spe 92.9 0.061 1.3E-06 58.2 2.3 43 603-645 261-303 (407)
18 COG1917 Uncharacterized conser 92.9 0.044 9.6E-07 51.1 1.2 57 574-635 56-114 (131)
19 cd02338 ZZ_PCMF_like Zinc fing 91.5 0.09 2E-06 42.2 1.3 31 94-124 1-33 (49)
20 cd02345 ZZ_dah Zinc finger, ZZ 91.2 0.1 2.2E-06 42.0 1.2 33 94-126 1-35 (49)
21 COG0662 {ManC} Mannose-6-phosp 90.4 0.18 3.8E-06 47.4 2.3 41 604-644 74-114 (127)
22 cd02337 ZZ_CBP Zinc finger, ZZ 89.4 0.15 3.2E-06 39.7 0.7 29 95-124 2-31 (41)
23 TIGR03214 ura-cupin putative a 87.7 0.27 5.9E-06 51.8 1.7 30 600-629 213-242 (260)
24 cd02334 ZZ_dystrophin Zinc fin 85.3 0.54 1.2E-05 38.0 1.8 34 94-127 1-36 (49)
25 PRK09943 DNA-binding transcrip 83.4 0.74 1.6E-05 45.6 2.3 55 583-642 129-183 (185)
26 cd02343 ZZ_EF Zinc finger, ZZ 83.2 0.58 1.3E-05 37.8 1.2 33 94-126 1-34 (48)
27 PF07649 C1_3: C1-like domain; 82.9 0.49 1.1E-05 34.0 0.6 27 95-121 2-29 (30)
28 PRK13290 ectC L-ectoine syntha 82.7 0.75 1.6E-05 43.7 1.9 37 604-642 74-110 (125)
29 TIGR00218 manA mannose-6-phosp 80.0 0.9 2E-05 48.8 1.6 15 610-624 156-170 (302)
30 cd02342 ZZ_UBA_plant Zinc fing 79.4 1.1 2.3E-05 35.6 1.3 31 94-124 1-33 (43)
31 PF01050 MannoseP_isomer: Mann 78.7 1.1 2.4E-05 43.9 1.6 22 610-631 107-128 (151)
32 PRK15131 mannose-6-phosphate i 77.9 1.1 2.5E-05 50.1 1.6 17 608-624 240-256 (389)
33 COG4101 Predicted mannose-6-ph 77.8 0.95 2E-05 43.2 0.8 26 606-631 89-114 (142)
34 PRK04190 glucose-6-phosphate i 74.6 2.2 4.8E-05 43.5 2.5 30 603-632 118-147 (191)
35 KOG2508 Predicted phospholipas 73.8 3.5 7.6E-05 45.9 3.9 39 268-306 33-74 (437)
36 COG1482 ManA Phosphomannose is 72.8 1.9 4E-05 47.2 1.5 19 607-625 160-178 (312)
37 PF13248 zf-ribbon_3: zinc-rib 70.7 2 4.4E-05 30.1 0.9 25 93-117 2-26 (26)
38 KOG4582 Uncharacterized conser 69.8 2 4.4E-05 46.1 1.0 32 94-125 153-186 (278)
39 PLN02288 mannose-6-phosphate i 69.6 2.3 5.1E-05 47.8 1.5 15 610-624 256-270 (394)
40 PF10571 UPF0547: Uncharacteri 69.2 2.9 6.3E-05 29.7 1.4 23 95-117 2-24 (26)
41 PF13240 zinc_ribbon_2: zinc-r 68.8 2.4 5.2E-05 29.2 0.9 23 95-117 1-23 (23)
42 TIGR01479 GMP_PMI mannose-1-ph 64.2 3.3 7.2E-05 47.3 1.4 30 602-631 412-441 (468)
43 PF00190 Cupin_1: Cupin; Inte 63.5 5.4 0.00012 38.0 2.4 38 606-643 81-125 (144)
44 KOG2583 Ubiquinol cytochrome c 61.2 5.7 0.00012 44.8 2.4 46 237-284 158-206 (429)
45 PRK15460 cpsB mannose-1-phosph 59.3 5.3 0.00012 46.0 1.9 30 601-630 420-449 (478)
46 PTZ00194 60S ribosomal protein 58.6 4.5 9.7E-05 39.7 1.0 43 578-622 18-60 (143)
47 smart00835 Cupin_1 Cupin. This 55.0 9.7 0.00021 36.3 2.6 52 578-629 47-99 (146)
48 KOG0457 Histone acetyltransfer 54.3 5.1 0.00011 45.4 0.7 33 91-123 12-46 (438)
49 cd02336 ZZ_RSC8 Zinc finger, Z 54.0 6.5 0.00014 31.4 1.0 35 95-132 2-37 (45)
50 PF08007 Cupin_4: Cupin superf 53.7 12 0.00025 40.8 3.3 41 605-645 176-216 (319)
51 COG5114 Histone acetyltransfer 53.5 3.9 8.5E-05 44.8 -0.4 31 93-123 5-37 (432)
52 PF02041 Auxin_BP: Auxin bindi 52.6 7.9 0.00017 38.5 1.6 41 584-629 75-115 (167)
53 TIGR03214 ura-cupin putative a 51.2 11 0.00024 40.0 2.5 47 579-630 77-123 (260)
54 TIGR03404 bicupin_oxalic bicup 50.8 11 0.00023 42.2 2.5 84 575-660 259-343 (367)
55 PF01238 PMI_typeI: Phosphoman 47.4 6.8 0.00015 43.7 0.3 18 608-625 253-270 (373)
56 PRK01191 rpl24p 50S ribosomal 45.8 9.4 0.0002 36.5 0.9 42 578-621 17-58 (120)
57 PF03107 C1_2: C1 domain; Int 45.6 12 0.00026 27.0 1.3 26 96-121 3-29 (30)
58 PF02938 GAD: GAD domain; Int 45.4 7.5 0.00016 34.9 0.2 41 577-627 53-93 (95)
59 PRK11171 hypothetical protein; 43.6 13 0.00029 39.4 1.7 28 602-629 98-125 (266)
60 KOG1280 Uncharacterized conser 43.4 9.4 0.0002 42.3 0.6 34 90-123 5-40 (381)
61 PRK14892 putative transcriptio 41.0 15 0.00033 34.0 1.4 27 89-115 17-50 (99)
62 KOG2107 Uncharacterized conser 39.9 22 0.00048 35.9 2.5 56 553-625 80-136 (179)
63 KOG3905 Dynein light intermedi 38.9 13 0.00029 41.3 0.9 22 545-566 242-263 (473)
64 PF14446 Prok-RING_1: Prokaryo 38.2 15 0.00033 30.6 0.9 24 89-115 17-44 (54)
65 PRK12380 hydrogenase nickel in 37.7 18 0.00038 33.9 1.4 24 92-115 69-94 (113)
66 PRK10371 DNA-binding transcrip 36.5 25 0.00054 37.7 2.5 33 600-632 59-91 (302)
67 TIGR03037 anthran_nbaC 3-hydro 36.0 23 0.00051 35.4 2.0 45 603-647 68-112 (159)
68 PRK13264 3-hydroxyanthranilate 35.9 24 0.00052 35.9 2.1 44 603-646 74-117 (177)
69 PF05899 Cupin_3: Protein of u 34.9 21 0.00045 30.7 1.3 17 606-622 45-61 (74)
70 PF02944 BESS: BESS motif; In 33.7 49 0.0011 25.0 3.0 24 47-70 6-29 (37)
71 PF08990 Docking: Erythronolid 32.8 33 0.00072 24.8 1.8 17 551-567 3-19 (27)
72 PRK11171 hypothetical protein; 31.7 27 0.00059 37.1 1.8 30 600-629 218-247 (266)
73 TIGR03404 bicupin_oxalic bicup 31.5 41 0.00088 37.7 3.2 28 603-630 108-135 (367)
74 PF08115 Toxin_28: SFI toxin f 31.5 23 0.0005 26.7 0.8 17 14-30 14-30 (35)
75 PRK14559 putative protein seri 31.4 28 0.00061 41.8 2.0 33 90-124 12-50 (645)
76 PF08271 TF_Zn_Ribbon: TFIIB z 31.1 27 0.00058 27.0 1.2 22 94-115 1-27 (43)
77 PF12852 Cupin_6: Cupin 30.7 29 0.00063 34.1 1.7 43 578-630 38-80 (186)
78 TIGR01080 rplX_A_E ribosomal p 30.5 28 0.00062 33.0 1.5 44 578-623 13-56 (114)
79 PF09567 RE_MamI: MamI restric 28.0 26 0.00056 37.6 0.8 21 95-115 84-104 (314)
80 PF02311 AraC_binding: AraC-li 26.0 42 0.00091 29.6 1.8 46 600-646 36-83 (136)
81 PF06249 EutQ: Ethanolamine ut 25.9 51 0.0011 32.8 2.4 21 602-622 110-130 (152)
82 PF06220 zf-U1: U1 zinc finger 25.8 30 0.00064 26.6 0.6 12 93-104 3-14 (38)
83 PRK15457 ethanolamine utilizat 25.6 39 0.00085 35.8 1.7 75 540-628 142-216 (233)
84 TIGR02297 HpaA 4-hydroxyphenyl 24.2 54 0.0012 34.0 2.4 31 600-630 57-87 (287)
85 PRK13503 transcriptional activ 23.8 36 0.00078 35.1 1.0 31 600-630 48-78 (278)
86 PF14816 FAM178: Family of unk 23.8 46 0.001 37.6 1.9 28 588-616 63-91 (377)
87 PF01783 Ribosomal_L32p: Ribos 23.7 53 0.0012 27.1 1.8 22 93-115 26-47 (56)
88 PRK12286 rpmF 50S ribosomal pr 23.5 47 0.001 27.8 1.5 22 93-115 27-48 (57)
89 smart00647 IBR In Between Ring 23.5 51 0.0011 26.5 1.6 32 92-123 17-56 (64)
90 KOG4286 Dystrophin-like protei 23.5 39 0.00085 41.1 1.3 35 95-129 605-641 (966)
91 TIGR00100 hypA hydrogenase nic 23.1 44 0.00095 31.4 1.3 24 92-115 69-94 (115)
92 PF10367 Vps39_2: Vacuolar sor 22.8 70 0.0015 28.3 2.5 22 84-105 69-90 (109)
93 PF12773 DZR: Double zinc ribb 22.4 51 0.0011 25.8 1.4 26 90-115 9-37 (50)
94 PRK13501 transcriptional activ 22.1 49 0.0011 34.7 1.6 28 600-627 51-78 (290)
No 1
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=100.00 E-value=3.4e-176 Score=1471.88 Aligned_cols=600 Identities=43% Similarity=0.711 Sum_probs=539.4
Q ss_pred CChhHHHhhCcCcCCCcccccccCCCCCccccccC----CChHHHHHHHH--HHHHHHhhhhHhhcHHHhhhhhhhhhhc
Q 005405 1 MSELDVAEICPFCRRNCNCSVCLHTSGFIETSKIN----MTDCEKVEHLR--YLMVSLLPFIRQICEEQTQEIEFEASIQ 74 (698)
Q Consensus 1 ls~~ei~~~CP~CrgnCNCk~CLr~~~~i~~~k~e----~s~~~k~~~~~--yll~~lLP~lkqi~~EQ~~E~e~Eaki~ 74 (698)
++.+|++++|+||+.+|||.+|++.++++.+.+.. .+..+++.++. |+|..++|+|+.++..|-.+.+.||+||
T Consensus 265 ~~~~e~a~k~~~~~~~C~~~q~h~~~~Lm~Tq~i~~~al~~~~~~~h~~r~k~~I~~~cpcl~~~~~~~~~~~~~e~~vq 344 (889)
T KOG1356|consen 265 LSKEEVAEKCEFSWLKCNKGQCHALSELMPTQIIPGSALLDLSDRVHAVREKFGIKAHCPCLKKQNKQQPLDAETEASVQ 344 (889)
T ss_pred chHhHhhhhhhHHHHhcCCccccchhhcccccccchhhhhhHHHHHHHHHHHhhHHhhChhHHhhhhhccccHHHHHHHh
Confidence 46899999999999999999999999999988777 77789999999 9999999999999999999999999999
Q ss_pred cccCCcccccccccCCCCceecCCCccccccccccCCCCCcccchhchHHHhcCcCCCccccceeeeccCCccccCCCCC
Q 005405 75 RVHSSKVGVSETLCGNDERVYCNHCATSIIDLHRSCPKCSYELCLTCCKEICEGRLSGRAEMKFQYVNRGYGYMQGGDPL 154 (698)
Q Consensus 75 G~~~se~~i~~a~~~~DERvyCD~C~TSI~D~HRsC~~CsydLCL~CC~ELR~g~~~g~~~~~~~~~~~g~~~~~g~~~~ 154 (698)
|..++. +++.+...++|++|||+|.|||.|+||+||+|+|++||.||.+||+|.+.-..+..+.|.+||..|.||.++.
T Consensus 345 ~~~~~~-~~~~~~~~~~e~~~~~~~~~si~~l~r~cP~~s~~~~l~~~~~i~~g~l~~~~e~~~~~~~r~~~~~~g~~~~ 423 (889)
T KOG1356|consen 345 GTEPTS-KPPVTQANPEEPLYCDHCATSIGDLKRSCPDSSYAICLPWLADLRRGDLKEKEECELMLRSRGVKYEHGPDPI 423 (889)
T ss_pred cCCCCC-CccccccCcCCCccccccccchhhccccCCCccccccchHHHHhhcCCcccchhHHHHHHHHHHHhhcCcccc
Confidence 999988 7777778889999999999999999999999999999999999999988777666889999999999998876
Q ss_pred CCccCCCCCCCCCCCCcccccCCCCCccCCCCCCCCCCCccccccccCCcchHHHHHHHHHHHHHHhcccccccccC-cc
Q 005405 155 PESCLHQTPDVHVEPSVMWSADDNGTISCPPTEMGGCGDCVLELTRILPDRWISDLEKEARDLVLILDNKLTNLRQN-RA 233 (698)
Q Consensus 155 ~~~~~~~~~~~~~~~~~~W~a~~dgsI~CpP~e~ggCg~~~L~L~~if~~~~i~~L~~~aee~~~~~~~~~~~~~~c-~~ 233 (698)
..+-....... +++ ++++|+|.|-|...+||+...|+|+|++|.-|.+.++.+||.-+..+.+.... .-| +.
T Consensus 424 ~~~~~s~~~~~---~~~---~~~ng~~r~l~~~~~g~~~~~l~lkr~lpn~~~s~i~~~vE~k~~~~~~~~~l-~~~~~~ 496 (889)
T KOG1356|consen 424 EPSLSSVSVDE---PSS---ANENGSLRDLLLSLAGCLDRGLKLKRILPNILDSIIASVVENKLTSKLSKPPL-RLCRSS 496 (889)
T ss_pred ccccCCCCCCC---Ccc---cccccchhhcccccCccchhhhhhhhcCchHHHHHHHHHHHhhcccccCCchh-hcCccc
Confidence 54322211111 112 88999999999999999999999999999999999999999888775554432 233 22
Q ss_pred cCCcccchhcccccCCCCCeeecCCCCCCCchhhHHHHHHHhhcCCCEEEEccccccCCCCCChhHHHHHHhhhcccccc
Q 005405 234 ETGTDMLCKAASREGSDDNLLYCPDSTKIQEDEELFRFQKHWIKGEPVIVRNVLDKVTGLSWEPMVMWRALCENVDSEVS 313 (698)
Q Consensus 234 ~~~~~~~r~aa~re~s~dn~lYcP~~~d~~~~~~~~~FQ~hW~kGePVIVr~vl~~~s~lsW~P~~mwra~~e~~~~~~~ 313 (698)
..+.+.++++|.|+.+.|||||||.+.+.+. +|+.|||+||++|||||||||++++++++|+||+|||+|+++.+.-..
T Consensus 497 ~~~~~~~~s~~~~~~~cdn~Ll~l~~d~~~~-~n~~~FQEhWkqGqPViVs~V~~~l~g~lW~P~a~~~~~g~q~~~l~n 575 (889)
T KOG1356|consen 497 QDGSGLLLSAASHSWLCDNRLLSLKVDPLNQ-NNLKHFQEHWKQGQPVIVSGVHKKLNGLLWKPEALSRAFGDQVVDLSN 575 (889)
T ss_pred cccccCccccCCCCcCCCCceecCccCccch-hHHHHHHHHHhcCCcEEehHhhhhccccccchHHHHHHhccchhhhhc
Confidence 3456778999999999999999999955555 999999999999999999999999999999999999999998776666
Q ss_pred ccCCceeEeecCCCceeecchhhhhccccCCccCCCCccceeecCCCCCCCchhhhcccchHHHHhCCCCcccCCCCCcc
Q 005405 314 SKMSEVKAIDCLASCEVEISTRQFFKGYTQGRTYDNFWPEMLKLKDWPPSDKFEDLMPRHCDEFISALPFQEYSDPRAGI 393 (698)
Q Consensus 314 ~~~~~vkaidCl~~~evei~~~~Ff~Gy~~gr~~~~~wp~mLKLKDWPps~~F~e~lP~h~~efi~~LP~~eYt~pr~G~ 393 (698)
..+.++.++||++ ++.+||.||++|+++++|||+|||||||||+++|+++||+||+|||++|||||||| |+|.
T Consensus 576 ~~~~~i~s~d~~~------~fwegFe~~~kr~~~~~g~p~vLKLKDWpp~~~Fkd~lP~r~eell~sLPlpEYt~-r~G~ 648 (889)
T KOG1356|consen 576 CNNSQIISNDCVD------NFWEGFEGYSKRLKSENGWPEVLKLKDWPPGEDFKDMLPRRFEELLASLPLPEYTD-RDGK 648 (889)
T ss_pred CCCCCccccchhh------hHHHhhcccccCcccccCCeeEEeecCCCchHhHhhhhhHHHHHHHHcCCchhhhc-CCCc
Confidence 6777888899887 78999999999999999999999999999999999999999999999999999999 9999
Q ss_pred ccccccCCCCCCCCCCCcchhhccccccccCCCCCcccccccccccchhhhcccccccchhhHHHHHHHHHHHHhhhhhh
Q 005405 394 LNLAVKLPSGVLKPDLGPKTYIAYGVAEELGRGDSVTKLHCDMSDAVNILTHTEEVLLTEEQHSAVERLKKEHRAQDLKE 473 (698)
Q Consensus 394 LNLA~~LP~~~lkPDLGPK~YIAYG~~eelg~gdSvTkLH~DmSDAVNiL~h~~ev~~~~~~~~~i~~l~~~~~~q~~~e 473 (698)
||||++||.++++||||||||||||+++++|||||||||||||||||||||||++++. +...|++++++..+++..|
T Consensus 649 LNlAs~LP~~fv~PDLGPk~y~AYG~~~e~gr~~gtTnLH~dvSDaVNILvyv~e~~~---~~~~~~~~~k~~~~~~~de 725 (889)
T KOG1356|consen 649 LNLASKLPEGFVRPDLGPKLYNAYGVSTELGRGDGTTNLHLDVSDAVNILVYVGEPPG---QIEQIAKVLKKIQEGDLDE 725 (889)
T ss_pred cchHhhCcccccCCCCCchhhhhccccccccCCCCceeeceehhhhhhheeeeccCCc---hHHhHHHHHHhhhhcchhh
Confidence 9999999999999999999999999999999999999999999999999999998876 4455666666665544322
Q ss_pred hhccCCCCccccCCCCCCCCCCCccccccccCCCCCCcccccccccccccCCccccCCCCCCcCCCCceEEEeecCCChh
Q 005405 474 NLVQDGMDESIEEPNSDNNKEDTDVSEINDSELLPSGIRGEFKMSRDEMQGTAFTCPHSEGTMVESGGALWDIFRRQDVP 553 (698)
Q Consensus 474 ~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~GAlWdIFrreDv~ 553 (698)
+... ++ . +..+.+|||||||||||||
T Consensus 726 ~~~~----------------------~~----------------~----------------~~~e~~GALWhIF~~~Dv~ 751 (889)
T KOG1356|consen 726 ITRS----------------------RI----------------S----------------SVSETPGALWHIFRAQDVP 751 (889)
T ss_pred hhhh----------------------hc----------------c----------------ccccCCcchhhhhhhcchH
Confidence 2110 00 0 0136899999999999999
Q ss_pred HHHHHHHHHHHhhccccCCCCCccccCccCcceecCHHHHHHHHHHhCccceEEEeecCceEEecCCCcccccccccccc
Q 005405 554 KLEAYLRKHFKEFRHVYCSPVEQVIHPIHDQCFYLSSEHKKKLKEEFGVEPWTFEQKLGEAVFIPAGCPHQVRNLKSCTK 633 (698)
Q Consensus 554 KLreyL~kh~~Ef~~~~~~p~~~v~dPIHDQ~fYL~~~hk~kLkeEyGVepWtf~Q~~GEAVFIPAGcPHQVrNL~SCIK 633 (698)
||||||+||++||+| ++.+|+||||||+||||++||+|||||||||||||+|+||||||||||||||||||+||||
T Consensus 752 KireyL~k~~~E~~~----~~~~v~hPIhDQS~YLd~~lr~RLkeEyGVe~WtfvQ~LGdAVfIPAGaPHQVrNLkSCik 827 (889)
T KOG1356|consen 752 KIREYLRKVCKEQGH----EVPKVHHPIHDQSWYLDRYLRRRLKEEYGVEPWTFVQFLGDAVFIPAGAPHQVRNLKSCIK 827 (889)
T ss_pred HHHHHHHHhhHHhcC----CCCcccCCCcccceeccHHHHHHHHHHhCCCccchhhcccceEEecCCCcHHhhhhhhHHH
Confidence 999999999999998 7899999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCcccHHHHHHHHHHhhcCCchhhcccchhhhhheeeee
Q 005405 634 VAVDFVSPENVDECLRLTKEFRLLPKNHRAREDKLEVYLVFIKR 677 (698)
Q Consensus 634 VAlDFVSPEnV~ec~rLteEfR~Lp~~H~~keDkLevkkm~l~~ 677 (698)
||+||||||||.||+|||+|||+||++|.|||||||||||+||+
T Consensus 828 Va~DFVSPE~v~ec~rLT~EfR~Lp~~h~~~eDKLqvK~mi~hA 871 (889)
T KOG1356|consen 828 VAEDFVSPEHVSECFRLTQEFRQLPQNHKNHEDKLQVKNMIYHA 871 (889)
T ss_pred HHHhhCChhhHHHHHHHHHHHhhCCCcccchHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999998
No 2
>PF02373 JmjC: JmjC domain, hydroxylase; InterPro: IPR013129 Jumonji protein is required for neural tube formation in mice [].There is evidence of domain swapping within the jumonji family of transcription factors []. This domain is often associated with jmjN (see IPR003349 from INTERPRO) and belongs to the Cupin superfamily [].; PDB: 2YU2_A 2YU1_A 3AVR_A 3AVS_A 2OX0_B 2OQ6_B 2WWJ_A 2Q8D_A 3PDQ_A 2YBK_A ....
Probab=99.52 E-value=8.9e-15 Score=130.97 Aligned_cols=84 Identities=36% Similarity=0.578 Sum_probs=64.0
Q ss_pred CCceEEEeecCCChhHHHHHHHHHHHhhccccCCCCCccccCc--cCcceecCHHHHHHHHHHhCccceEEEeecCceEE
Q 005405 539 SGGALWDIFRRQDVPKLEAYLRKHFKEFRHVYCSPVEQVIHPI--HDQCFYLSSEHKKKLKEEFGVEPWTFEQKLGEAVF 616 (698)
Q Consensus 539 ~~GAlWdIFrreDv~KLreyL~kh~~Ef~~~~~~p~~~v~dPI--HDQ~fYL~~~hk~kLkeEyGVepWtf~Q~~GEAVF 616 (698)
.+..+|-+++++|.+|++++++++... .+|+ +.+...+.++. ..+.||+.|+|+|++||+||
T Consensus 29 g~~k~W~~v~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~p~~----l~~~gi~~~~~~Q~~Ge~V~ 92 (114)
T PF02373_consen 29 GGSKVWYIVPPEDADKFEKFLRSKESQ------------NCPQFLDHKNIFVSPEQ----LKKAGIPVYRFVQKPGEFVF 92 (114)
T ss_dssp ESEEEEEEE-GGGHHHHHHHHHHHHHH------------HSTTGGCTGGEEEGHHH----HHHTTS--EEEEEETT-EEE
T ss_pred CcceEeEEechhhhhhHHHHHhhcccc------------cccccccccccccceee----eeccCcccccceECCCCEEE
Confidence 457899999999999999999987221 2344 44444444444 67799999999999999999
Q ss_pred ecCCCccccccccccccccccc
Q 005405 617 IPAGCPHQVRNLKSCTKVAVDF 638 (698)
Q Consensus 617 IPAGcPHQVrNL~SCIKVAlDF 638 (698)
||+|++|||.|+-.||++|.+|
T Consensus 93 i~pg~~H~v~n~g~~i~~a~Nf 114 (114)
T PF02373_consen 93 IPPGAYHQVFNLGDNISEAVNF 114 (114)
T ss_dssp E-TT-EEEEEESSSEEEEEEEE
T ss_pred ECCCceEEEEeCCceEEEEecC
Confidence 9999999999999999999988
No 3
>PF13621 Cupin_8: Cupin-like domain; PDB: 3AL6_C 3AL5_C 2XUM_A 2Y0I_A 1MZE_A 3KCY_A 1MZF_A 1YCI_A 2ILM_A 1H2L_A ....
Probab=99.04 E-value=4.3e-11 Score=119.70 Aligned_cols=40 Identities=35% Similarity=0.544 Sum_probs=33.2
Q ss_pred cceEEEeecCceEEecCCCccccccc--cc-cccccccccCcc
Q 005405 603 EPWTFEQKLGEAVFIPAGCPHQVRNL--KS-CTKVAVDFVSPE 642 (698)
Q Consensus 603 epWtf~Q~~GEAVFIPAGcPHQVrNL--~S-CIKVAlDFVSPE 642 (698)
.+|++++.+||++|||+|-.|||+|| .. ||.|...|.+|.
T Consensus 207 ~~~~~~l~pGD~LfiP~gWwH~V~~~~~~~~sisvn~w~~~~~ 249 (251)
T PF13621_consen 207 PPYEVVLEPGDVLFIPPGWWHQVENLSDDDLSISVNYWFRTPF 249 (251)
T ss_dssp -EEEEEEETT-EEEE-TT-EEEEEESTTSSCEEEEEEEEESS-
T ss_pred ceeEEEECCCeEEEECCCCeEEEEEcCCCCeEEEEEEEecccc
Confidence 89999999999999999999999999 76 999999998764
No 4
>smart00558 JmjC A domain family that is part of the cupin metalloenzyme superfamily. Probable enzymes, but of unknown functions, that regulate chromatin reorganisation processes (Clissold and Ponting, in press).
Probab=96.83 E-value=0.00044 Score=55.90 Aligned_cols=54 Identities=41% Similarity=0.632 Sum_probs=42.8
Q ss_pred HHHhCCCCcccCCCCCccccccccCCCCCCCCCCCcchhhccccccccCCCCCcccccccccccchhhhccc
Q 005405 376 EFISALPFQEYSDPRAGILNLAVKLPSGVLKPDLGPKTYIAYGVAEELGRGDSVTKLHCDMSDAVNILTHTE 447 (698)
Q Consensus 376 efi~~LP~~eYt~pr~G~LNLA~~LP~~~lkPDLGPK~YIAYG~~eelg~gdSvTkLH~DmSDAVNiL~h~~ 447 (698)
..+..||+ .+||+.+++.....|+. +|+.+|. .+|+|.+|.|..|.+|++.+.+
T Consensus 3 ~~l~~lP~---------~~~ll~~~~~~~~~~~~---~~~~~G~------~~s~t~~H~d~~~~~n~~~~~~ 56 (57)
T smart00558 3 NNLAKLPF---------KLNLLSDLPEDILGPDV---PYLYMGM------AGSVTPWHIDDYDLVNYLHQGA 56 (57)
T ss_pred chhhhCCC---------cchHHHHCCcccCCCCc---ceEEEeC------CCCccceeEcCCCeEEEEEecC
Confidence 34567776 67999999988887777 6666664 4789999999999999887643
No 5
>KOG2131 consensus Uncharacterized conserved protein, contains JmjC domain [Chromatin structure and dynamics; Signal transduction mechanisms]
Probab=96.66 E-value=0.0017 Score=70.83 Aligned_cols=59 Identities=27% Similarity=0.416 Sum_probs=49.3
Q ss_pred hCccceEEEeecCceEEecCCCccccccccccccccccccCcccHHHHHH-HHHHhhcCC
Q 005405 600 FGVEPWTFEQKLGEAVFIPAGCPHQVRNLKSCTKVAVDFVSPENVDECLR-LTKEFRLLP 658 (698)
Q Consensus 600 yGVepWtf~Q~~GEAVFIPAGcPHQVrNL~SCIKVAlDFVSPEnV~ec~r-LteEfR~Lp 658 (698)
+.+.+.++-|.+||+||+|.|-=|||-||-..|.|.-.++--=|+..=.+ |-+++..++
T Consensus 263 ~~~~~lei~Qepge~VFvPsGW~hQV~NL~dTISINHNW~N~~nl~~~w~~Lk~~y~a~~ 322 (427)
T KOG2131|consen 263 FRGPLLEIFQEPGETVFVPSGWHHQVLNLGDTISINHNWCNATNLAWMWDALKEDYPALA 322 (427)
T ss_pred cccchhhhhccCCceeeccCccccccccccceeeecccccccccHHHHHHHHHhhhhhhh
Confidence 45677899999999999999999999999999999999999888887666 344444443
No 6
>cd02340 ZZ_NBR1_like Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears to control the multiplication of sigma rhabdovirus. NBR1 (Next to BRCA1 gene 1 protein) interacts with fasciculation and elongation protein zeta-1 (FEZ1) and calcium and integrin binding protein (CIB), and may function in cell signalling pathways. Sequestosome 1 is a phosphotyrosine independent ligand for the Lck SH2 domain and binds noncovalently to ubiquitin via its UBA domain.
Probab=95.95 E-value=0.0034 Score=49.13 Aligned_cols=30 Identities=33% Similarity=0.952 Sum_probs=28.4
Q ss_pred eecCCCccccccccccCCCC-CcccchhchH
Q 005405 94 VYCNHCATSIIDLHRSCPKC-SYELCLTCCK 123 (698)
Q Consensus 94 vyCD~C~TSI~D~HRsC~~C-sydLCL~CC~ 123 (698)
+.||.|+++|..+...|..| .||||..|..
T Consensus 1 v~Cd~C~~~i~G~ry~C~~C~d~dLC~~C~~ 31 (43)
T cd02340 1 VICDGCQGPIVGVRYKCLVCPDYDLCESCEA 31 (43)
T ss_pred CCCCCCCCcCcCCeEECCCCCCccchHHhhC
Confidence 57999999999999999999 7999999987
No 7
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=95.66 E-value=0.0059 Score=72.38 Aligned_cols=76 Identities=26% Similarity=0.633 Sum_probs=50.5
Q ss_pred HHHHHHHHHHHhhhhHhhcHHHhhhhhhhhhhccccC-CcccccccccCCCCceecCCCccccccccccCCCCCcccchh
Q 005405 42 VEHLRYLMVSLLPFIRQICEEQTQEIEFEASIQRVHS-SKVGVSETLCGNDERVYCNHCATSIIDLHRSCPKCSYELCLT 120 (698)
Q Consensus 42 ~~~~~yll~~lLP~lkqi~~EQ~~E~e~Eaki~G~~~-se~~i~~a~~~~DERvyCD~C~TSI~D~HRsC~~CsydLCL~ 120 (698)
++-+.|+|-.+ =.++++.=+.|.|.=+ +..+ ..+.... -....|-+||.|.|++|++|+.|++|++.+|+.
T Consensus 185 ~e~~k~il~~~---gd~~c~~~~se~eAl~---~~~~~~~~a~k~--a~~g~~~mC~~C~~tlfn~hw~C~~C~~~~Cl~ 256 (889)
T KOG1356|consen 185 TETAKYILANL---GDQFCQLVRSEKEALS---MQRPDQKVAWKR--AVKGIREMCDRCETTLFNIHWRCPRCGFGVCLD 256 (889)
T ss_pred hHHHHHHhhhc---cchhhhhhhccchhhc---ccCcccccchhh--cccCcchhhhhhcccccceeEEccccCCeeeec
Confidence 34555554332 1366666666655433 1111 1122222 246778899999999999999999999999999
Q ss_pred chHHH
Q 005405 121 CCKEI 125 (698)
Q Consensus 121 CC~EL 125 (698)
|.+.-
T Consensus 257 C~r~~ 261 (889)
T KOG1356|consen 257 CYRKW 261 (889)
T ss_pred chhhc
Confidence 98865
No 8
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=95.62 E-value=0.0044 Score=57.23 Aligned_cols=25 Identities=44% Similarity=0.966 Sum_probs=21.6
Q ss_pred hhCcCcCCCcccccccCCCCCcccc
Q 005405 8 EICPFCRRNCNCSVCLHTSGFIETS 32 (698)
Q Consensus 8 ~~CP~CrgnCNCk~CLr~~~~i~~~ 32 (698)
-.||.|||+|||..|++.+|...+.
T Consensus 62 W~CP~CrgiCnCs~Crrk~g~~PTg 86 (105)
T PF10497_consen 62 WKCPKCRGICNCSFCRRKRGWAPTG 86 (105)
T ss_pred eECCCCCCeeCCHhhhccCCCCCcH
Confidence 4699999999999999999876543
No 9
>cd02249 ZZ Zinc finger, ZZ type. Zinc finger present in dystrophin, CBP/p300 and many other proteins. The ZZ motif coordinates one or two zinc ions and most likely participates in ligand binding or molecular scaffolding. Many proteins containing ZZ motifs have other zinc-binding motifs as well, and the majority serve as scaffolds in pathways involving acetyltransferase, protein kinase, or ubiqitin-related activity. ZZ proteins can be grouped into the following functional classes: chromatin modifying, cytoskeletal scaffolding, ubiquitin binding or conjugating, and membrane receptor or ion-channel modifying proteins.
Probab=95.40 E-value=0.0063 Score=47.88 Aligned_cols=32 Identities=25% Similarity=0.783 Sum_probs=29.4
Q ss_pred ecCCCccccccccccCCCCC-cccchhchHHHh
Q 005405 95 YCNHCATSIIDLHRSCPKCS-YELCLTCCKEIC 126 (698)
Q Consensus 95 yCD~C~TSI~D~HRsC~~Cs-ydLCL~CC~ELR 126 (698)
.||.|..+|...+..|..|. ||||..|..+-.
T Consensus 2 ~C~~C~~~i~g~r~~C~~C~d~dLC~~Cf~~~~ 34 (46)
T cd02249 2 SCDGCLKPIVGVRYHCLVCEDFDLCSSCYAKGK 34 (46)
T ss_pred CCcCCCCCCcCCEEECCCCCCCcCHHHHHCcCc
Confidence 59999999999999999999 999999998543
No 10
>cd02335 ZZ_ADA2 Zinc finger, ZZ type. Zinc finger present in ADA2, a putative transcriptional adaptor, and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=95.28 E-value=0.0084 Score=47.92 Aligned_cols=30 Identities=30% Similarity=1.000 Sum_probs=28.1
Q ss_pred ecCCCcccccc-ccccCCCC-CcccchhchHH
Q 005405 95 YCNHCATSIID-LHRSCPKC-SYELCLTCCKE 124 (698)
Q Consensus 95 yCD~C~TSI~D-~HRsC~~C-sydLCL~CC~E 124 (698)
.||+|...|.. ++-.|..| .||||+.|...
T Consensus 2 ~Cd~C~~~~~~g~r~~C~~C~d~dLC~~Cf~~ 33 (49)
T cd02335 2 HCDYCSKDITGTIRIKCAECPDFDLCLECFSA 33 (49)
T ss_pred CCCCcCCCCCCCcEEECCCCCCcchhHHhhhC
Confidence 59999999999 99999999 99999999983
No 11
>cd02339 ZZ_Mind_bomb Zinc finger, ZZ type. Zinc finger present in Drosophila Mind bomb (D-mib) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Mind bomb is an E3 ubiqitin ligase that has been shown to regulate signaling by the Notch ligand Delta in Drosophila melanogaster.
Probab=94.90 E-value=0.013 Score=46.50 Aligned_cols=30 Identities=37% Similarity=1.124 Sum_probs=28.0
Q ss_pred eecCCCc-cccccccccCCCC-CcccchhchH
Q 005405 94 VYCNHCA-TSIIDLHRSCPKC-SYELCLTCCK 123 (698)
Q Consensus 94 vyCD~C~-TSI~D~HRsC~~C-sydLCL~CC~ 123 (698)
+.||.|+ .+|.-....|..| .||||..|..
T Consensus 1 i~Cd~C~~~~i~G~RykC~~C~dyDLC~~C~~ 32 (45)
T cd02339 1 IICDTCRKQGIIGIRWKCAECPNYDLCTTCYH 32 (45)
T ss_pred CCCCCCCCCCcccCeEECCCCCCccchHHHhC
Confidence 5799999 7899999999999 7999999998
No 12
>PF00569 ZZ: Zinc finger, ZZ type; InterPro: IPR000433 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 ZZ-type zinc finger domains, named because of their ability to bind two zinc ions []. These domains contain 4-6 Cys residues that participate in zinc binding (plus additional Ser/His residues), including a Cys-X2-Cys motif found in other zinc finger domains. These zinc fingers are thought to be involved in protein-protein interactions. The structure of the ZZ domain shows that it belongs to the family of cross-brace zinc finger motifs that include the PHD, RING, and FYVE domains []. ZZ-type zinc finger domains are found in: Transcription factors P300 and CBP. Plant proteins involved in light responses, such as Hrb1. E3 ubiquitin ligases MEX and MIB2 (6.3.2 from EC). Dystrophin and its homologues. Single copies of the ZZ zinc finger occur in the transcriptional adaptor/coactivator proteins P300, in cAMP response element-binding protein (CREB)-binding protein (CBP) and ADA2. CBP provides several binding sites for transcriptional coactivators. The site of interaction with the tumour suppressor protein p53 and the oncoprotein E1A with CBP/P300 is a Cys-rich region that incorporates two zinc-binding motifs: ZZ-type and TAZ2-type. The ZZ-type zinc finger of CBP contains two twisted anti-parallel beta-sheets and a short alpha-helix, and binds two zinc ions []. One zinc ion is coordinated by four cysteine residues via 2 Cys-X2-Cys motifs, and the third zinc ion via a third Cys-X-Cys motif and a His-X-His motif. The first zinc cluster is strictly conserved, whereas the second zinc cluster displays variability in the position of the two His residues. In Arabidopsis thaliana (Mouse-ear cress), the hypersensitive to red and blue 1 (Hrb1) protein, which regulating both red and blue light responses, contains a ZZ-type zinc finger domain []. ZZ-type zinc finger domains have also been identified in the testis-specific E3 ubiquitin ligase MEX that promotes death receptor-induced apoptosis []. MEX has four putative zinc finger domains: one ZZ-type, one SWIM-type and two RING-type. The region containing the ZZ-type and RING-type zinc fingers is required for interaction with UbcH5a and MEX self-association, whereas the SWIM domain was critical for MEX ubiquitination. In addition, the Cys-rich domains of dystrophin, utrophin and an 87kDa post-synaptic protein contain a ZZ-type zinc finger with high sequence identity to P300/CBP ZZ-type zinc fingers. In dystrophin and utrophin, the ZZ-type zinc finger lies between a WW domain (flanked by and EF hand) and the C-terminal coiled-coil domain. Dystrophin is thought to act as a link between the actin cytoskeleton and the extracellular matrix, and perturbations of the dystrophin-associated complex, for example, between dystrophin and the transmembrane glycoprotein beta-dystroglycan, may lead to muscular dystrophy. Dystrophin and its autosomal homologue utrophin interact with beta-dystroglycan via their C-terminal regions, which are comprised of a WW domain, an EF hand domain and a ZZ-type zinc finger domain []. The WW domain is the primary site of interaction between dystrophin or utrophin and dystroglycan, while the EF hand and ZZ-type zinc finger domains stabilise and strengthen this interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1TOT_A 2DIP_A 2FC7_A 2E5R_A.
Probab=94.74 E-value=0.017 Score=45.65 Aligned_cols=35 Identities=31% Similarity=0.762 Sum_probs=27.4
Q ss_pred CceecCCCcc-ccccccccCCCCC-cccchhchHHHh
Q 005405 92 ERVYCNHCAT-SIIDLHRSCPKCS-YELCLTCCKEIC 126 (698)
Q Consensus 92 ERvyCD~C~T-SI~D~HRsC~~Cs-ydLCL~CC~ELR 126 (698)
..+.||.|++ +|.-....|..|. ||||..|..+-+
T Consensus 3 ~~~~C~~C~~~~i~g~Ry~C~~C~d~dLC~~C~~~g~ 39 (46)
T PF00569_consen 3 HGYTCDGCGTDPIIGVRYHCLVCPDYDLCEDCFSKGR 39 (46)
T ss_dssp SSCE-SSS-SSSEESSEEEESSSSS-EEEHHHHHH--
T ss_pred CCeECcCCCCCcCcCCeEECCCCCCCchhhHHHhCcC
Confidence 4578999999 9999999999998 999999998733
No 13
>smart00291 ZnF_ZZ Zinc-binding domain, present in Dystrophin, CREB-binding protein. Putative zinc-binding domain present in dystrophin-like proteins, and CREB-binding protein/p300 homologues. The ZZ in dystrophin appears to bind calmodulin. A missense mutation of one of the conserved cysteines in dystrophin results in a patient with Duchenne muscular dystrophy [3].
Probab=93.95 E-value=0.026 Score=44.13 Aligned_cols=35 Identities=26% Similarity=0.788 Sum_probs=30.8
Q ss_pred ceecCCCccccccccccCCCC-CcccchhchHHHhc
Q 005405 93 RVYCNHCATSIIDLHRSCPKC-SYELCLTCCKEICE 127 (698)
Q Consensus 93 RvyCD~C~TSI~D~HRsC~~C-sydLCL~CC~ELR~ 127 (698)
.+.||.|...|......|..| .||||..|..+-|.
T Consensus 4 ~~~C~~C~~~i~g~ry~C~~C~d~dlC~~Cf~~~~~ 39 (44)
T smart00291 4 SYSCDTCGKPIVGVRYHCLVCPDYDLCQSCFAKGSA 39 (44)
T ss_pred CcCCCCCCCCCcCCEEECCCCCCccchHHHHhCcCc
Confidence 357999999999999999999 89999999986544
No 14
>cd02344 ZZ_HERC2 Zinc finger, ZZ type. Zinc finger present in HERC2 and related proteins. HERC2 is a potential E3 ubiquitin protein ligase and/or guanine nucleotide exchange factor. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=93.47 E-value=0.038 Score=43.94 Aligned_cols=31 Identities=29% Similarity=0.834 Sum_probs=28.1
Q ss_pred eecCCCcc-ccccccccCCCCC-cccchhchHH
Q 005405 94 VYCNHCAT-SIIDLHRSCPKCS-YELCLTCCKE 124 (698)
Q Consensus 94 vyCD~C~T-SI~D~HRsC~~Cs-ydLCL~CC~E 124 (698)
|.||.|.+ +|+-....|..|. ||||..|...
T Consensus 1 V~Cd~C~~~pI~G~RykC~~C~dyDLC~~Cf~~ 33 (45)
T cd02344 1 VTCDGCQMFPINGPRFKCRNCDDFDFCENCFKT 33 (45)
T ss_pred CCCCCCCCCCCccCeEECCCCCCccchHHhhCC
Confidence 56999985 8999999999998 9999999975
No 15
>PF07883 Cupin_2: Cupin domain; InterPro: IPR013096 This family represents the conserved barrel domain of the cupin superfamily [] (cupa is the Latin term for a small barrel). ; PDB: 2OPK_C 3BU7_B 2PHD_D 3NVC_A 3NKT_A 3NJZ_A 3NW4_A 3NST_A 3NL1_A 2H0V_A ....
Probab=93.39 E-value=0.034 Score=45.53 Aligned_cols=26 Identities=50% Similarity=0.814 Sum_probs=22.4
Q ss_pred EEEeecCceEEecCCCcccccccccc
Q 005405 606 TFEQKLGEAVFIPAGCPHQVRNLKSC 631 (698)
Q Consensus 606 tf~Q~~GEAVFIPAGcPHQVrNL~SC 631 (698)
++.=..||+++||||++|+++|..+-
T Consensus 38 ~~~l~~Gd~~~i~~~~~H~~~n~~~~ 63 (71)
T PF07883_consen 38 RVELKPGDAIYIPPGVPHQVRNPGDE 63 (71)
T ss_dssp EEEEETTEEEEEETTSEEEEEEESSS
T ss_pred EeEccCCEEEEECCCCeEEEEECCCC
Confidence 55557899999999999999998754
No 16
>cd02341 ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present in ZZZ3 (ZZ finger containing 3) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=92.91 E-value=0.054 Score=43.55 Aligned_cols=31 Identities=26% Similarity=0.809 Sum_probs=28.4
Q ss_pred ecCCCcc-ccccccccCCCCC---cccchhchHHH
Q 005405 95 YCNHCAT-SIIDLHRSCPKCS---YELCLTCCKEI 125 (698)
Q Consensus 95 yCD~C~T-SI~D~HRsC~~Cs---ydLCL~CC~EL 125 (698)
-||+|.. +|.-+...|..|. ||||-.|...-
T Consensus 2 ~Cd~C~~~pI~G~R~~C~~C~~~d~DlC~~C~~~~ 36 (48)
T cd02341 2 KCDSCGIEPIPGTRYHCSECDDGDFDLCQDCVVKG 36 (48)
T ss_pred CCCCCCCCccccceEECCCCCCCCCccCHHHHhCc
Confidence 4999998 9999999999999 99999998843
No 17
>KOG2130 consensus Phosphatidylserine-specific receptor PtdSerR, contains JmjC domain [Chromatin structure and dynamics; Signal transduction mechanisms]
Probab=92.89 E-value=0.061 Score=58.25 Aligned_cols=43 Identities=37% Similarity=0.560 Sum_probs=40.3
Q ss_pred cceEEEeecCceEEecCCCccccccccccccccccccCcccHH
Q 005405 603 EPWTFEQKLGEAVFIPAGCPHQVRNLKSCTKVAVDFVSPENVD 645 (698)
Q Consensus 603 epWtf~Q~~GEAVFIPAGcPHQVrNL~SCIKVAlDFVSPEnV~ 645 (698)
+|=...|++||.||||.|-=|=|-||.-.|-|...|+|=||.+
T Consensus 261 kPIEc~q~pGEt~fVP~GWWHvVlNle~TIAiTqNf~s~eNf~ 303 (407)
T KOG2130|consen 261 KPIECLQKPGETMFVPSGWWHVVLNLEPTIAITQNFASKENFP 303 (407)
T ss_pred CCceeeecCCceEEecCCeEEEEeccCceeeeeeccccccCCc
Confidence 4667899999999999999999999999999999999999964
No 18
>COG1917 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=92.88 E-value=0.044 Score=51.06 Aligned_cols=57 Identities=21% Similarity=0.366 Sum_probs=45.3
Q ss_pred CCccccCccCcceecCHHHHHHHHHHhCccceEEEeecCceEEecCCCcccccccccc--cccc
Q 005405 574 VEQVIHPIHDQCFYLSSEHKKKLKEEFGVEPWTFEQKLGEAVFIPAGCPHQVRNLKSC--TKVA 635 (698)
Q Consensus 574 ~~~v~dPIHDQ~fYL~~~hk~kLkeEyGVepWtf~Q~~GEAVFIPAGcPHQVrNL~SC--IKVA 635 (698)
+....||-++|.+|..+-.-+ |.+++=+++=+.||.|+||||.+|-+.|..+. +.++
T Consensus 56 ~~~H~hp~~~~~~~Vl~G~~~-----~~~~g~~~~l~~Gd~i~ip~g~~H~~~a~~~~~~~~l~ 114 (131)
T COG1917 56 IPWHTHPLGEQTIYVLEGEGT-----VQLEGEKKELKAGDVIIIPPGVVHGLKAVEDEPMVLLL 114 (131)
T ss_pred cccccCCCcceEEEEEecEEE-----EEecCCceEecCCCEEEECCCCeeeeccCCCCceeEEE
Confidence 345689989999998776543 55556666778999999999999999999999 5554
No 19
>cd02338 ZZ_PCMF_like Zinc finger, ZZ type. Zinc finger present in potassium channel modulatory factor (PCMF) 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Human potassium channel modulatory factor 1 or FIGC has been shown to possess intrinsic E3 ubiquitin ligase activity and to promote ubiquitination.
Probab=91.52 E-value=0.09 Score=42.18 Aligned_cols=31 Identities=29% Similarity=0.870 Sum_probs=27.9
Q ss_pred eecCCCc-cccccccccCCCC-CcccchhchHH
Q 005405 94 VYCNHCA-TSIIDLHRSCPKC-SYELCLTCCKE 124 (698)
Q Consensus 94 vyCD~C~-TSI~D~HRsC~~C-sydLCL~CC~E 124 (698)
|.||.|+ .+|.-....|..| .||||..|...
T Consensus 1 i~C~~C~~~~i~g~R~~C~~C~d~dlC~~Cf~~ 33 (49)
T cd02338 1 VSCDGCGKSNFTGRRYKCLICYDYDLCADCYDS 33 (49)
T ss_pred CCCCCCcCCCcEEeeEEeCCCCCCccchhHHhC
Confidence 5799999 8999999999998 79999999983
No 20
>cd02345 ZZ_dah Zinc finger, ZZ type. Zinc finger present in Drosophila dah and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dah (discontinuous actin hexagon) is a membrane associated protein essential for cortical furrow formation in Drosophila.
Probab=91.21 E-value=0.1 Score=41.97 Aligned_cols=33 Identities=30% Similarity=0.803 Sum_probs=28.7
Q ss_pred eecCCCcc-ccccccccCCCC-CcccchhchHHHh
Q 005405 94 VYCNHCAT-SIIDLHRSCPKC-SYELCLTCCKEIC 126 (698)
Q Consensus 94 vyCD~C~T-SI~D~HRsC~~C-sydLCL~CC~ELR 126 (698)
+.||+|+. +|.-++..|..| .||||+.|...-+
T Consensus 1 ~~C~~C~~~~i~g~R~~C~~C~dydLC~~Cf~~~~ 35 (49)
T cd02345 1 LSCSACRKQDISGIRFPCQVCRDYSLCLGCYTKGR 35 (49)
T ss_pred CcCCCCCCCCceEeeEECCCCCCcCchHHHHhCCC
Confidence 36999998 999999999999 4999999998443
No 21
>COG0662 {ManC} Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=90.40 E-value=0.18 Score=47.44 Aligned_cols=41 Identities=39% Similarity=0.611 Sum_probs=30.5
Q ss_pred ceEEEeecCceEEecCCCccccccccccccccccccCcccH
Q 005405 604 PWTFEQKLGEAVFIPAGCPHQVRNLKSCTKVAVDFVSPENV 644 (698)
Q Consensus 604 pWtf~Q~~GEAVFIPAGcPHQVrNL~SCIKVAlDFVSPEnV 644 (698)
.=.++=+.||+|+||||.||.++|.-+.-=+.++=-+|+..
T Consensus 74 ~~~~~v~~gd~~~iP~g~~H~~~N~G~~~L~liei~~p~~~ 114 (127)
T COG0662 74 GEEVEVKAGDSVYIPAGTPHRVRNTGKIPLVLIEVQSPPYL 114 (127)
T ss_pred CEEEEecCCCEEEECCCCcEEEEcCCCcceEEEEEecCCcC
Confidence 55677789999999999999999999843333333355543
No 22
>cd02337 ZZ_CBP Zinc finger, ZZ type. Zinc finger present in CBP/p300 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. CREB-binding protein (CBP) is a large multidomain protein that provides binding sites for transcriptional coactivators, the role of the ZZ domain in CBP/p300 is unclear.
Probab=89.43 E-value=0.15 Score=39.73 Aligned_cols=29 Identities=34% Similarity=1.040 Sum_probs=25.6
Q ss_pred ecCCCccccccccccCCCC-CcccchhchHH
Q 005405 95 YCNHCATSIIDLHRSCPKC-SYELCLTCCKE 124 (698)
Q Consensus 95 yCD~C~TSI~D~HRsC~~C-sydLCL~CC~E 124 (698)
.||.|.. |.--.+.|..| .||||..|...
T Consensus 2 ~C~~C~~-~~~~r~~C~~C~dfDLC~~C~~~ 31 (41)
T cd02337 2 TCNECKH-HVETRWHCTVCEDYDLCITCYNT 31 (41)
T ss_pred cCCCCCC-cCCCceECCCCcchhhHHHHhCC
Confidence 4999988 66799999999 89999999875
No 23
>TIGR03214 ura-cupin putative allantoin catabolism protein. This model represents a protein containing a tandem arrangement of cupin domains (N-terminal part of pfam07883 and C-terminal more distantly related to pfam00190). This protein is found in the vicinity of genes involved in the catabolism of allantoin, a breakdown product of urate and sometimes of urate iteslf. The distribution of pathway components in the genomes in which this family is observed suggests that the function is linked to the allantoate catabolism to glyoxylate pathway (GenProp0686) since it is sometimes found in genomes lacking any elements of the xanthine-to-allantoin pathways (e.g. in Enterococcus faecalis).
Probab=87.72 E-value=0.27 Score=51.85 Aligned_cols=30 Identities=13% Similarity=0.287 Sum_probs=24.5
Q ss_pred hCccceEEEeecCceEEecCCCcccccccc
Q 005405 600 FGVEPWTFEQKLGEAVFIPAGCPHQVRNLK 629 (698)
Q Consensus 600 yGVepWtf~Q~~GEAVFIPAGcPHQVrNL~ 629 (698)
|.+.+=...=..||+|||||||||+..|.=
T Consensus 213 ~~~~g~~~~V~~GD~i~i~~~~~h~~~~~G 242 (260)
T TIGR03214 213 YNLDNNWVPVEAGDYIWMGAYCPQACYAGG 242 (260)
T ss_pred EEECCEEEEecCCCEEEECCCCCEEEEecC
Confidence 455555666678999999999999999963
No 24
>cd02334 ZZ_dystrophin Zinc finger, ZZ type. Zinc finger present in dystrophin and dystrobrevin. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dystrophin attaches actin filaments to an integral membrane glycoprotein complex in muscle cells. The ZZ domain in dystrophin has been shown to be essential for binding to the membrane protein beta-dystroglycan.
Probab=85.31 E-value=0.54 Score=38.00 Aligned_cols=34 Identities=32% Similarity=0.766 Sum_probs=28.5
Q ss_pred eecCCCcc-ccccccccCCCC-CcccchhchHHHhc
Q 005405 94 VYCNHCAT-SIIDLHRSCPKC-SYELCLTCCKEICE 127 (698)
Q Consensus 94 vyCD~C~T-SI~D~HRsC~~C-sydLCL~CC~ELR~ 127 (698)
+-||.|+. +|.-+...|..| .||||..|...-+.
T Consensus 1 ~~Cd~C~~~pi~g~RykC~~C~d~DLC~~Cf~~g~~ 36 (49)
T cd02334 1 AKCNICKEFPITGFRYRCLKCFNYDLCQSCFFSGRT 36 (49)
T ss_pred CCCCCCCCCCceeeeEECCCCCCcCchHHHHhCCCc
Confidence 46999995 799999999988 49999999975443
No 25
>PRK09943 DNA-binding transcriptional repressor PuuR; Provisional
Probab=83.44 E-value=0.74 Score=45.63 Aligned_cols=55 Identities=13% Similarity=0.160 Sum_probs=41.3
Q ss_pred CcceecCHHHHHHHHHHhCccceEEEeecCceEEecCCCccccccccccccccccccCcc
Q 005405 583 DQCFYLSSEHKKKLKEEFGVEPWTFEQKLGEAVFIPAGCPHQVRNLKSCTKVAVDFVSPE 642 (698)
Q Consensus 583 DQ~fYL~~~hk~kLkeEyGVepWtf~Q~~GEAVFIPAGcPHQVrNL~SCIKVAlDFVSPE 642 (698)
++.+|+-.-.- ++-|..=++.-..||.++||||.||..+|..+.-=+++-+++|-
T Consensus 129 ~E~~~Vl~G~~-----~~~~~~~~~~l~~Gd~~~~~~~~~H~~~n~~~~~~~~l~~~~p~ 183 (185)
T PRK09943 129 EEIGTVLEGEI-----VLTINGQDYHLVAGQSYAINTGIPHSFSNTSAGICRIISAHTPT 183 (185)
T ss_pred cEEEEEEEeEE-----EEEECCEEEEecCCCEEEEcCCCCeeeeCCCCCCeEEEEEeCCC
Confidence 45555544332 25567778889999999999999999999877766777777774
No 26
>cd02343 ZZ_EF Zinc finger, ZZ type. Zinc finger present in proteins with an EF_hand motif. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=83.19 E-value=0.58 Score=37.84 Aligned_cols=33 Identities=24% Similarity=0.559 Sum_probs=26.5
Q ss_pred eecCCCccccccccccCCCC-CcccchhchHHHh
Q 005405 94 VYCNHCATSIIDLHRSCPKC-SYELCLTCCKEIC 126 (698)
Q Consensus 94 vyCD~C~TSI~D~HRsC~~C-sydLCL~CC~ELR 126 (698)
+.||.|...|.-+.-.|-.| .||||..|...=+
T Consensus 1 i~CdgC~~~~~~~RykCl~C~d~DlC~~Cf~~g~ 34 (48)
T cd02343 1 ISCDGCDEIAPWHRYRCLQCTDMDLCKTCFLGGV 34 (48)
T ss_pred CCCCCCCCcCCCceEECCCCCCchhHHHHHhCCc
Confidence 35999999888887778877 4999999987433
No 27
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=82.86 E-value=0.49 Score=33.99 Aligned_cols=27 Identities=26% Similarity=0.806 Sum_probs=12.9
Q ss_pred ecCCCcccccc-ccccCCCCCcccchhc
Q 005405 95 YCNHCATSIID-LHRSCPKCSYELCLTC 121 (698)
Q Consensus 95 yCD~C~TSI~D-~HRsC~~CsydLCL~C 121 (698)
.|+.|+.+|.. ..-+|+.|.|.|.+.|
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~C 29 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEEC 29 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhc
Confidence 59999999998 8889999999999887
No 28
>PRK13290 ectC L-ectoine synthase; Reviewed
Probab=82.72 E-value=0.75 Score=43.67 Aligned_cols=37 Identities=16% Similarity=0.098 Sum_probs=27.1
Q ss_pred ceEEEeecCceEEecCCCccccccccccccccccccCcc
Q 005405 604 PWTFEQKLGEAVFIPAGCPHQVRNLKSCTKVAVDFVSPE 642 (698)
Q Consensus 604 pWtf~Q~~GEAVFIPAGcPHQVrNL~SCIKVAlDFVSPE 642 (698)
.=++.=..||+++||||-||+.+|...+.=++. ++|.
T Consensus 74 g~~~~L~aGD~i~~~~~~~H~~~N~e~~~~l~v--~tP~ 110 (125)
T PRK13290 74 GEVHPIRPGTMYALDKHDRHYLRAGEDMRLVCV--FNPP 110 (125)
T ss_pred CEEEEeCCCeEEEECCCCcEEEEcCCCEEEEEE--ECCC
Confidence 334555789999999999999999855544333 5553
No 29
>TIGR00218 manA mannose-6-phosphate isomerase, class I. The names phosphomannose isomerase and mannose-6-phosphate isomerase are synonomous. This family contains two rather deeply branched groups. One group contains an experimentally determined phosphomannose isomerase of Streptococcus mutans as well as three uncharacterized paralogous proteins of Bacillus subtilis, all at more than 50 % identity to each other, plus a more distant homolog from Archaeoglobus fulgidus. The other group contains members from E. coli, budding yeast, Borrelia burgdorferi, etc.
Probab=79.96 E-value=0.9 Score=48.78 Aligned_cols=15 Identities=40% Similarity=0.986 Sum_probs=13.7
Q ss_pred ecCceEEecCCCccc
Q 005405 610 KLGEAVFIPAGCPHQ 624 (698)
Q Consensus 610 ~~GEAVFIPAGcPHQ 624 (698)
++||+||||||.||=
T Consensus 156 ~~Gd~i~ipaGt~HA 170 (302)
T TIGR00218 156 KPGDFFYVPSGTPHA 170 (302)
T ss_pred CCCCEEEeCCCCccc
Confidence 479999999999995
No 30
>cd02342 ZZ_UBA_plant Zinc finger, ZZ type. Zinc finger present in plant ubiquitin-associated (UBA) proteins. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=79.35 E-value=1.1 Score=35.64 Aligned_cols=31 Identities=23% Similarity=0.599 Sum_probs=27.0
Q ss_pred eecCCCc-cccccccccCCCC-CcccchhchHH
Q 005405 94 VYCNHCA-TSIIDLHRSCPKC-SYELCLTCCKE 124 (698)
Q Consensus 94 vyCD~C~-TSI~D~HRsC~~C-sydLCL~CC~E 124 (698)
+.||.|. ++|+=.-..|..| .||||-.|..+
T Consensus 1 I~CDgCg~~PI~G~RykC~~C~dyDLC~~C~~~ 33 (43)
T cd02342 1 IQCDGCGVLPITGPRYKSKVKEDYDLCTICFSR 33 (43)
T ss_pred CCCCCCCCCcccccceEeCCCCCCccHHHHhhh
Confidence 4699999 5999999999977 69999999875
No 31
>PF01050 MannoseP_isomer: Mannose-6-phosphate isomerase; InterPro: IPR001538 Mannose-6-phosphate isomerase or phosphomannose isomerase (5.3.1.8 from EC) (PMI) is the enzyme that catalyses the interconversion of mannose-6-phosphate and fructose-6-phosphate. In eukaryotes PMI is involved in the synthesis of GDP-mannose, a constituent of N- and O-linked glycans and GPI anchors and in prokaryotes it participates in a variety of pathways, including capsular polysaccharide biosynthesis and D-mannose metabolism. PMI's belong to the cupin superfamily whose functions range from isomerase and epimerase activities involved in the modification of cell wall carbohydrates in bacteria and plants, to non-enzymatic storage proteins in plant seeds, and transcription factors linked to congenital baldness in mammals []. Three classes of PMI have been defined []. The type II phosphomannose isomerases are bifunctional enzymes 5.3.1.8 from EC. This entry covers the isomerase region of the protein []. The guanosine diphospho-D-mannose pyrophosphorylase region is described in another InterPro entry (see IPR005836 from INTERPRO).; GO: 0016779 nucleotidyltransferase activity, 0005976 polysaccharide metabolic process
Probab=78.70 E-value=1.1 Score=43.94 Aligned_cols=22 Identities=36% Similarity=0.724 Sum_probs=19.4
Q ss_pred ecCceEEecCCCcccccccccc
Q 005405 610 KLGEAVFIPAGCPHQVRNLKSC 631 (698)
Q Consensus 610 ~~GEAVFIPAGcPHQVrNL~SC 631 (698)
..||.|+||+|+.|++.|.-+.
T Consensus 107 ~~g~sv~Ip~g~~H~i~n~g~~ 128 (151)
T PF01050_consen 107 KEGDSVYIPRGAKHRIENPGKT 128 (151)
T ss_pred cCCCEEEECCCCEEEEECCCCc
Confidence 5799999999999999997654
No 32
>PRK15131 mannose-6-phosphate isomerase; Provisional
Probab=77.88 E-value=1.1 Score=50.09 Aligned_cols=17 Identities=41% Similarity=0.643 Sum_probs=15.0
Q ss_pred EeecCceEEecCCCccc
Q 005405 608 EQKLGEAVFIPAGCPHQ 624 (698)
Q Consensus 608 ~Q~~GEAVFIPAGcPHQ 624 (698)
.=++|||+|||||.||=
T Consensus 240 ~l~pGeaifipAg~~HA 256 (389)
T PRK15131 240 KLNPGEAMFLFAETPHA 256 (389)
T ss_pred EeCCCCEEEeCCCCCeE
Confidence 34689999999999996
No 33
>COG4101 Predicted mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=77.82 E-value=0.95 Score=43.25 Aligned_cols=26 Identities=38% Similarity=0.604 Sum_probs=23.1
Q ss_pred EEEeecCceEEecCCCcccccccccc
Q 005405 606 TFEQKLGEAVFIPAGCPHQVRNLKSC 631 (698)
Q Consensus 606 tf~Q~~GEAVFIPAGcPHQVrNL~SC 631 (698)
+.+-.+||...||+|.|||--||.+=
T Consensus 89 ha~~~pGDf~YiPpgVPHqp~N~S~e 114 (142)
T COG4101 89 HAEVGPGDFFYIPPGVPHQPANLSTE 114 (142)
T ss_pred eEEecCCCeEEcCCCCCCcccccCCC
Confidence 56778999999999999999999753
No 34
>PRK04190 glucose-6-phosphate isomerase; Provisional
Probab=74.57 E-value=2.2 Score=43.46 Aligned_cols=30 Identities=23% Similarity=0.293 Sum_probs=26.2
Q ss_pred cceEEEeecCceEEecCCCccccccccccc
Q 005405 603 EPWTFEQKLGEAVFIPAGCPHQVRNLKSCT 632 (698)
Q Consensus 603 epWtf~Q~~GEAVFIPAGcPHQVrNL~SCI 632 (698)
+.+.+.=..||+|+||+|..|++.|.-+.-
T Consensus 118 ~~~~~~v~pGd~v~IPpg~~H~~iN~G~ep 147 (191)
T PRK04190 118 EARWIEMEPGTVVYVPPYWAHRSVNTGDEP 147 (191)
T ss_pred cEEEEEECCCCEEEECCCCcEEeEECCCCC
Confidence 378899999999999999999999976543
No 35
>KOG2508 consensus Predicted phospholipase [Lipid transport and metabolism]
Probab=73.76 E-value=3.5 Score=45.90 Aligned_cols=39 Identities=26% Similarity=0.491 Sum_probs=31.9
Q ss_pred HHHHHHHh-hcCCCEEEEccccccCCC-CCChh-HHHHHHhh
Q 005405 268 LFRFQKHW-IKGEPVIVRNVLDKVTGL-SWEPM-VMWRALCE 306 (698)
Q Consensus 268 ~~~FQ~hW-~kGePVIVr~vl~~~s~l-sW~P~-~mwra~~e 306 (698)
-.+|-+-| .+..|||+|+.+..-.++ .|.+. ++..|++.
T Consensus 33 pl~Fyr~fvs~n~PvIIrkAL~hWpal~lWs~p~Yl~~algd 74 (437)
T KOG2508|consen 33 PLDFYRKFVSTNTPVIIRKALPHWPALKLWSQPDYLLSALGD 74 (437)
T ss_pred hHHHHHhhhcCCCcEEEecccccCchhhccCchHHHHHhccC
Confidence 46788888 789999999999877777 89888 77777654
No 36
>COG1482 ManA Phosphomannose isomerase [Carbohydrate transport and metabolism]
Probab=72.77 E-value=1.9 Score=47.22 Aligned_cols=19 Identities=53% Similarity=0.903 Sum_probs=16.5
Q ss_pred EEeecCceEEecCCCcccc
Q 005405 607 FEQKLGEAVFIPAGCPHQV 625 (698)
Q Consensus 607 f~Q~~GEAVFIPAGcPHQV 625 (698)
+.=++|||+|||||.||=.
T Consensus 160 v~lkpGe~~fl~Agt~HA~ 178 (312)
T COG1482 160 VKLKPGEAFFLPAGTPHAY 178 (312)
T ss_pred EecCCCCEEEecCCCceee
Confidence 5567999999999999964
No 37
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=70.69 E-value=2 Score=30.08 Aligned_cols=25 Identities=28% Similarity=0.814 Sum_probs=22.2
Q ss_pred ceecCCCccccccccccCCCCCccc
Q 005405 93 RVYCNHCATSIIDLHRSCPKCSYEL 117 (698)
Q Consensus 93 RvyCD~C~TSI~D~HRsC~~CsydL 117 (698)
.++|.+|.+.|-+=.+-|++|+..|
T Consensus 2 ~~~Cp~Cg~~~~~~~~fC~~CG~~L 26 (26)
T PF13248_consen 2 EMFCPNCGAEIDPDAKFCPNCGAKL 26 (26)
T ss_pred cCCCcccCCcCCcccccChhhCCCC
Confidence 3689999999999999999999765
No 38
>KOG4582 consensus Uncharacterized conserved protein, contains ZZ-type Zn-finger [General function prediction only]
Probab=69.75 E-value=2 Score=46.07 Aligned_cols=32 Identities=31% Similarity=0.853 Sum_probs=28.8
Q ss_pred eecCCCcc-ccccccccCCCCC-cccchhchHHH
Q 005405 94 VYCNHCAT-SIIDLHRSCPKCS-YELCLTCCKEI 125 (698)
Q Consensus 94 vyCD~C~T-SI~D~HRsC~~Cs-ydLCL~CC~EL 125 (698)
+-||+|.+ .|+-.-..|.-|. ||||=.|-...
T Consensus 153 v~CD~C~~~~IvG~RyKC~~C~dYDLCe~Ce~~~ 186 (278)
T KOG4582|consen 153 VPCDNCGKPGIVGARYKCTVCPDYDLCERCEAGN 186 (278)
T ss_pred ccCCCccCCccccceeeecCCCccchhHHhhcCC
Confidence 78999999 9999999999885 99999998753
No 39
>PLN02288 mannose-6-phosphate isomerase
Probab=69.59 E-value=2.3 Score=47.80 Aligned_cols=15 Identities=40% Similarity=0.720 Sum_probs=14.0
Q ss_pred ecCceEEecCCCccc
Q 005405 610 KLGEAVFIPAGCPHQ 624 (698)
Q Consensus 610 ~~GEAVFIPAGcPHQ 624 (698)
.+|||||||||-||=
T Consensus 256 ~PGeaifl~ag~~HA 270 (394)
T PLN02288 256 NPGEALYLGANEPHA 270 (394)
T ss_pred CCCCEEEecCCCCce
Confidence 589999999999996
No 40
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=69.18 E-value=2.9 Score=29.70 Aligned_cols=23 Identities=26% Similarity=0.959 Sum_probs=20.9
Q ss_pred ecCCCccccccccccCCCCCccc
Q 005405 95 YCNHCATSIIDLHRSCPKCSYEL 117 (698)
Q Consensus 95 yCD~C~TSI~D~HRsC~~CsydL 117 (698)
.|..|..-|-.--+.||.|+|++
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCC
Confidence 48899999999999999999985
No 41
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=68.85 E-value=2.4 Score=29.20 Aligned_cols=23 Identities=39% Similarity=0.969 Sum_probs=20.7
Q ss_pred ecCCCccccccccccCCCCCccc
Q 005405 95 YCNHCATSIIDLHRSCPKCSYEL 117 (698)
Q Consensus 95 yCD~C~TSI~D~HRsC~~CsydL 117 (698)
||-+|...|-|=.+-|++|+..|
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~~l 23 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGTPL 23 (23)
T ss_pred CCcccCCCCCCcCcchhhhCCcC
Confidence 69999999999999999999865
No 42
>TIGR01479 GMP_PMI mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase. This enzyme is known to be bifunctional, as both mannose-6-phosphate isomerase (EC 5.3.1.8) (PMI) and mannose-1-phosphate guanylyltransferase (EC 2.7.7.22) in Pseudomonas aeruginosa, Xanthomonas campestris, and Gluconacetobacter xylinus. The literature on the enzyme from E. coli attributes mannose-6-phosphate isomerase activity to an adjacent gene, but the present sequence has not been shown to lack the activity. The PMI domain is C-terminal.
Probab=64.18 E-value=3.3 Score=47.28 Aligned_cols=30 Identities=23% Similarity=0.317 Sum_probs=24.6
Q ss_pred ccceEEEeecCceEEecCCCcccccccccc
Q 005405 602 VEPWTFEQKLGEAVFIPAGCPHQVRNLKSC 631 (698)
Q Consensus 602 VepWtf~Q~~GEAVFIPAGcPHQVrNL~SC 631 (698)
+..=++.=..||.|+||+|.||+.+|.-+-
T Consensus 412 ~dg~~~~l~~GDsi~ip~~~~H~~~N~g~~ 441 (468)
T TIGR01479 412 IGDETLLLTENESTYIPLGVIHRLENPGKI 441 (468)
T ss_pred ECCEEEEecCCCEEEECCCCcEEEEcCCCC
Confidence 344456678999999999999999998763
No 43
>PF00190 Cupin_1: Cupin; InterPro: IPR006045 This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' is the Latin term for a small barrel). This family contains 11S and 7S plant seed storage proteins, and germins. Plant seed storage proteins provide the major nitrogen source for the developing plant. ; GO: 0045735 nutrient reservoir activity; PDB: 2E9Q_A 2EVX_A 1OD5_A 1UCX_A 1UD1_C 1FXZ_C 3KGL_C 3KSC_D 1UIJ_F 1IPK_B ....
Probab=63.47 E-value=5.4 Score=37.97 Aligned_cols=38 Identities=32% Similarity=0.496 Sum_probs=26.6
Q ss_pred EEEee----cCceEEecCCCccccccc--ccccccccccc-Cccc
Q 005405 606 TFEQK----LGEAVFIPAGCPHQVRNL--KSCTKVAVDFV-SPEN 643 (698)
Q Consensus 606 tf~Q~----~GEAVFIPAGcPHQVrNL--~SCIKVAlDFV-SPEn 643 (698)
.+.|. .||.++||+|.||=+.|. .+.+.++.=+. +|++
T Consensus 81 ~~~~~v~l~~Gdv~~vP~G~~h~~~n~~~~~~~~~~~f~~~~~~~ 125 (144)
T PF00190_consen 81 DFSQKVRLKAGDVFVVPAGHPHWIINDGDDEALVLIIFDTNNPPN 125 (144)
T ss_dssp EEEEEEEEETTEEEEE-TT-EEEEEECSSSSEEEEEEEEESSTTG
T ss_pred eeeceeeeecccceeeccceeEEEEcCCCCCCEEEEEEECCCCcc
Confidence 45565 999999999999999999 56666655444 3444
No 44
>KOG2583 consensus Ubiquinol cytochrome c reductase, subunit QCR2 [Energy production and conversion]
Probab=61.23 E-value=5.7 Score=44.81 Aligned_cols=46 Identities=37% Similarity=0.557 Sum_probs=39.5
Q ss_pred cccchhcccccCCCCCeeecCC--CCCCCchhhHHHH-HHHhhcCCCEEEE
Q 005405 237 TDMLCKAASREGSDDNLLYCPD--STKIQEDEELFRF-QKHWIKGEPVIVR 284 (698)
Q Consensus 237 ~~~~r~aa~re~s~dn~lYcP~--~~d~~~~~~~~~F-Q~hW~kGePVIVr 284 (698)
-++|.+||+|. +-.|-||||. ...+.. .+|++| ++|..+|.-|+|.
T Consensus 158 ~e~lH~aAfRn-gLgnslY~p~~~vg~vss-~eL~~Fa~k~fv~gn~~lvg 206 (429)
T KOG2583|consen 158 IEQLHAAAFRN-GLGNSLYSPGYQVGSVSS-SELKDFAAKHFVKGNAVLVG 206 (429)
T ss_pred HHHHHHHHHhc-ccCCcccCCcccccCccH-HHHHHHHHHHhhccceEEEe
Confidence 46789999998 7899999996 666777 889999 6899999999885
No 45
>PRK15460 cpsB mannose-1-phosphate guanyltransferase; Provisional
Probab=59.30 E-value=5.3 Score=46.05 Aligned_cols=30 Identities=20% Similarity=0.256 Sum_probs=24.1
Q ss_pred CccceEEEeecCceEEecCCCccccccccc
Q 005405 601 GVEPWTFEQKLGEAVFIPAGCPHQVRNLKS 630 (698)
Q Consensus 601 GVepWtf~Q~~GEAVFIPAGcPHQVrNL~S 630 (698)
.|..=++.=..||.|+||+|.||+.+|.-+
T Consensus 420 ~idg~~~~L~~GDSi~ip~g~~H~~~N~g~ 449 (478)
T PRK15460 420 TIDGDIKLLGENESIYIPLGATHCLENPGK 449 (478)
T ss_pred EECCEEEEecCCCEEEECCCCcEEEEcCCC
Confidence 344445666899999999999999999854
No 46
>PTZ00194 60S ribosomal protein L26; Provisional
Probab=58.65 E-value=4.5 Score=39.74 Aligned_cols=43 Identities=19% Similarity=0.317 Sum_probs=39.0
Q ss_pred ccCccCcceecCHHHHHHHHHHhCccceEEEeecCceEEecCCCc
Q 005405 578 IHPIHDQCFYLSSEHKKKLKEEFGVEPWTFEQKLGEAVFIPAGCP 622 (698)
Q Consensus 578 ~dPIHDQ~fYL~~~hk~kLkeEyGVepWtf~Q~~GEAVFIPAGcP 622 (698)
.-|+|...-.+.+.+=+.|+++|||..|.| +-||-|.|=+|=.
T Consensus 18 ~Ap~h~r~k~msa~LSkeLr~k~~~Rs~~I--kkGD~V~Vi~Gk~ 60 (143)
T PTZ00194 18 TAPSHLRRKLMSAPLSKELRAKYNVRSMPV--RKDDEVMVVRGHH 60 (143)
T ss_pred cCcHHHHHHHhcCccCHHHHHHhCCcccee--ecCCEEEEecCCC
Confidence 568999999999999999999999999987 7799999988864
No 47
>smart00835 Cupin_1 Cupin. This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' is the Latin term for a small barrel). This family contains 11S and 7S plant seed storage proteins, and germins. Plant seed storage proteins provide the major nitrogen source for the developing plant.
Probab=55.02 E-value=9.7 Score=36.29 Aligned_cols=52 Identities=19% Similarity=0.365 Sum_probs=33.5
Q ss_pred ccCccCcceecCHHH-HHHHHHHhCccceEEEeecCceEEecCCCcccccccc
Q 005405 578 IHPIHDQCFYLSSEH-KKKLKEEFGVEPWTFEQKLGEAVFIPAGCPHQVRNLK 629 (698)
Q Consensus 578 ~dPIHDQ~fYL~~~h-k~kLkeEyGVepWtf~Q~~GEAVFIPAGcPHQVrNL~ 629 (698)
.||-.++-+|+-.-. +-.+-++.|=+-+++.-..||+++||+|-+|+..|.-
T Consensus 47 ~H~~~~e~~~Vl~G~~~~~~~~~~~~~~~~~~l~~GD~~~ip~g~~H~~~n~~ 99 (146)
T smart00835 47 YHPRATELLYVVRGEGRVGVVDPNGNKVYDARLREGDVFVVPQGHPHFQVNSG 99 (146)
T ss_pred eCCCCCEEEEEEeCeEEEEEEeCCCCeEEEEEecCCCEEEECCCCEEEEEcCC
Confidence 455445556644321 2111122222567888999999999999999999974
No 48
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=54.32 E-value=5.1 Score=45.41 Aligned_cols=33 Identities=30% Similarity=0.896 Sum_probs=29.3
Q ss_pred CCceecCCCcccccccc-ccCCCCC-cccchhchH
Q 005405 91 DERVYCNHCATSIIDLH-RSCPKCS-YELCLTCCK 123 (698)
Q Consensus 91 DERvyCD~C~TSI~D~H-RsC~~Cs-ydLCL~CC~ 123 (698)
.+-..||+|.--|-+.- -.|..|- |||||-|+.
T Consensus 12 g~ky~C~~C~~dit~~i~ikCaeCp~fdLCl~CFs 46 (438)
T KOG0457|consen 12 GGKYNCDYCSLDITGLIRIKCAECPDFDLCLQCFS 46 (438)
T ss_pred CCCCCCccHhHHhccceEEEeecCCCcchhHHHHh
Confidence 36778999999999865 8999999 999999986
No 49
>cd02336 ZZ_RSC8 Zinc finger, ZZ type. Zinc finger present in RSC8 and related proteins. RSC8 is a component of the RSC complex, which is closely related to the SWI/SNF complex and is involved in remodeling chromatin structure. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=54.02 E-value=6.5 Score=31.38 Aligned_cols=35 Identities=29% Similarity=0.690 Sum_probs=26.8
Q ss_pred ecCCCccccccccccCCCCC-cccchhchHHHhcCcCCC
Q 005405 95 YCNHCATSIIDLHRSCPKCS-YELCLTCCKEICEGRLSG 132 (698)
Q Consensus 95 yCD~C~TSI~D~HRsC~~Cs-ydLCL~CC~ELR~g~~~g 132 (698)
.||.|..-+..-+-+|.++. ||||..|..+ |+.++
T Consensus 2 ~C~~Cg~D~t~vryh~~~~~~~dLC~~CF~~---G~f~~ 37 (45)
T cd02336 2 HCFTCGNDCTRVRYHNLKAKKYDLCPSCYQE---GRFPS 37 (45)
T ss_pred cccCCCCccCceEEEecCCCccccChHHHhC---cCCCC
Confidence 48888877777666788776 9999999985 54443
No 50
>PF08007 Cupin_4: Cupin superfamily protein; InterPro: IPR022777 This signature represents primarily the cupin fold found in JmjC transcription factors. The fold is also found in lysine-specific demethylase NO66.; PDB: 2XDV_A 1VRB_B 4DIQ_B.
Probab=53.74 E-value=12 Score=40.77 Aligned_cols=41 Identities=22% Similarity=0.366 Sum_probs=31.0
Q ss_pred eEEEeecCceEEecCCCccccccccccccccccccCcccHH
Q 005405 605 WTFEQKLGEAVFIPAGCPHQVRNLKSCTKVAVDFVSPENVD 645 (698)
Q Consensus 605 Wtf~Q~~GEAVFIPAGcPHQVrNL~SCIKVAlDFVSPEnV~ 645 (698)
..|+=.+||..+||.|++|++.....|+.+.+-|..|--..
T Consensus 176 ~~~~L~pGD~LYlPrG~~H~~~~~~~S~hltv~~~~~t~~d 216 (319)
T PF08007_consen 176 EEVVLEPGDVLYLPRGWWHQAVTTDPSLHLTVGFRAPTWAD 216 (319)
T ss_dssp EEEEE-TT-EEEE-TT-EEEEEESS-EEEEEEEECCEBHHH
T ss_pred EEEEECCCCEEEECCCccCCCCCCCCceEEEEeeeCCchhh
Confidence 35677899999999999999999999999999999984433
No 51
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=53.47 E-value=3.9 Score=44.78 Aligned_cols=31 Identities=32% Similarity=0.929 Sum_probs=27.1
Q ss_pred ceecCCCccccccc-cccCCCC-CcccchhchH
Q 005405 93 RVYCNHCATSIIDL-HRSCPKC-SYELCLTCCK 123 (698)
Q Consensus 93 RvyCD~C~TSI~D~-HRsC~~C-sydLCL~CC~ 123 (698)
...||+|..-|.|. |-+|..| .||||+-|+-
T Consensus 5 k~hCdvC~~d~T~~~~i~C~eC~~~DLC~pCF~ 37 (432)
T COG5114 5 KIHCDVCFLDMTDLTFIKCNECPAVDLCLPCFV 37 (432)
T ss_pred eeeehHHHHhhhcceeeeeecccccceehhhhh
Confidence 45799999999987 5689999 9999999985
No 52
>PF02041 Auxin_BP: Auxin binding protein; InterPro: IPR000526 Auxin binding protein is located in the lumen of the endoplasmic reticulum (ER). The primary structure contains an N-terminal hydrophobic leader sequence of 30-40 amino acids, which could represent a signal for translocation of the protein to the ER [, ]. The mature protein comprises around 165 residues, and contains a number of potential N-glycosylation sites. In vitro transport studies have demonstrated co-translational glycosylation []. Retention within the lumen of the ER correlates with an additional signal located at the C terminus, represented by the sequence Lys-Asp-Glu-Leu, known to be responsible for preventing secretion of proteins from the lumen of the ER in eukaryotic cells [, ].; GO: 0004872 receptor activity, 0005788 endoplasmic reticulum lumen; PDB: 1LR5_D 1LRH_D.
Probab=52.58 E-value=7.9 Score=38.52 Aligned_cols=41 Identities=29% Similarity=0.437 Sum_probs=24.3
Q ss_pred cceecCHHHHHHHHHHhCccceEEEeecCceEEecCCCcccccccc
Q 005405 584 QCFYLSSEHKKKLKEEFGVEPWTFEQKLGEAVFIPAGCPHQVRNLK 629 (698)
Q Consensus 584 Q~fYL~~~hk~kLkeEyGVepWtf~Q~~GEAVFIPAGcPHQVrNL~ 629 (698)
++.||...+- +|.-+|=.|.=.++.-.-||.+++|||.|-.
T Consensus 75 GTl~l~~~~~-----~~pG~pqef~~~pnSTf~IPvn~~HQv~NT~ 115 (167)
T PF02041_consen 75 GTLYLASSHE-----KYPGKPQEFPIFPNSTFHIPVNDAHQVWNTN 115 (167)
T ss_dssp EEEEE--SSS-----SS--S-EEEEE-TTEEEEE-TT--EEEE---
T ss_pred eEEEEecccc-----cCCCCceEEEecCCCeEEeCCCCcceeecCC
Confidence 4667774332 6999999999999999999999999999954
No 53
>TIGR03214 ura-cupin putative allantoin catabolism protein. This model represents a protein containing a tandem arrangement of cupin domains (N-terminal part of pfam07883 and C-terminal more distantly related to pfam00190). This protein is found in the vicinity of genes involved in the catabolism of allantoin, a breakdown product of urate and sometimes of urate iteslf. The distribution of pathway components in the genomes in which this family is observed suggests that the function is linked to the allantoate catabolism to glyoxylate pathway (GenProp0686) since it is sometimes found in genomes lacking any elements of the xanthine-to-allantoin pathways (e.g. in Enterococcus faecalis).
Probab=51.22 E-value=11 Score=39.97 Aligned_cols=47 Identities=17% Similarity=0.240 Sum_probs=32.3
Q ss_pred cCccCcceecCHHHHHHHHHHhCccceEEEeecCceEEecCCCccccccccc
Q 005405 579 HPIHDQCFYLSSEHKKKLKEEFGVEPWTFEQKLGEAVFIPAGCPHQVRNLKS 630 (698)
Q Consensus 579 dPIHDQ~fYL~~~hk~kLkeEyGVepWtf~Q~~GEAVFIPAGcPHQVrNL~S 630 (698)
|+-.++-+|+-.---. .-+..-++.=..||+++||||.||..+|..+
T Consensus 77 ~~g~ee~iyVl~G~l~-----v~~~g~~~~L~~Gd~~y~pa~~~H~~~N~~~ 123 (260)
T TIGR03214 77 GEGIETFLFVISGEVN-----VTAEGETHELREGGYAYLPPGSKWTLANAQA 123 (260)
T ss_pred CCceEEEEEEEeCEEE-----EEECCEEEEECCCCEEEECCCCCEEEEECCC
Confidence 3344455665443221 2345667778889999999999999999763
No 54
>TIGR03404 bicupin_oxalic bicupin, oxalate decarboxylase family. Members of this protein family are defined as bicupins as they have two copies of the cupin domain (pfam00190). Two different known activities for members of this family are oxalate decarboxylase (EC 4.1.1.2) and oxalate oxidase (EC 1.2.3.4), although the latter activity has more often been found in distantly related monocupin (germin) proteins.
Probab=50.83 E-value=11 Score=42.15 Aligned_cols=84 Identities=21% Similarity=0.322 Sum_probs=47.9
Q ss_pred CccccCccCcceecCHH-HHHHHHHHhCccceEEEeecCceEEecCCCccccccccccccccccccCcccHHHHHHHHHH
Q 005405 575 EQVIHPIHDQCFYLSSE-HKKKLKEEFGVEPWTFEQKLGEAVFIPAGCPHQVRNLKSCTKVAVDFVSPENVDECLRLTKE 653 (698)
Q Consensus 575 ~~v~dPIHDQ~fYL~~~-hk~kLkeEyGVepWtf~Q~~GEAVFIPAGcPHQVrNL~SCIKVAlDFVSPEnV~ec~rLteE 653 (698)
....||--+..+|+-.- -+..+-..-| ...++.=..||++|||+|.+|.++|.-+--=+-+-+.+....+.- .|++=
T Consensus 259 ~~H~H~~~~E~~yvl~G~~~~~v~d~~g-~~~~~~l~~GD~~~iP~g~~H~i~N~G~e~l~fL~if~s~~~~~i-~l~~~ 336 (367)
T TIGR03404 259 ELHWHPNADEWQYFIQGQARMTVFAAGG-NARTFDYQAGDVGYVPRNMGHYVENTGDETLVFLEVFKADRFADV-SLNQW 336 (367)
T ss_pred CCeeCcCCCeEEEEEEEEEEEEEEecCC-cEEEEEECCCCEEEECCCCeEEEEECCCCCEEEEEEECCCCCcee-EHHHH
Confidence 45577776665655433 2221111111 356677789999999999999999997543333333333322221 24555
Q ss_pred hhcCCch
Q 005405 654 FRLLPKN 660 (698)
Q Consensus 654 fR~Lp~~ 660 (698)
+..+|.+
T Consensus 337 l~~~p~~ 343 (367)
T TIGR03404 337 LALTPPQ 343 (367)
T ss_pred HhhCCHH
Confidence 5555544
No 55
>PF01238 PMI_typeI: Phosphomannose isomerase type I; InterPro: IPR001250 Mannose-6-phosphate isomerase or phosphomannose isomerase (5.3.1.8 from EC) (PMI) is the enzyme that catalyses the interconversion of mannose-6-phosphate and fructose-6-phosphate. In eukaryotes PMI is involved in the synthesis of GDP-mannose, a constituent of N- and O-linked glycans and GPI anchors and in prokaryotes it participates in a variety of pathways, including capsular polysaccharide biosynthesis and D-mannose metabolism. PMI's belong to the cupin superfamily whose functions range from isomerase and epimerase activities involved in the modification of cell wall carbohydrates in bacteria and plants, to non-enzymatic storage proteins in plant seeds, and transcription factors linked to congenital baldness in mammals []. Three classes of PMI have been defined []. Type I includes eukaryotic PMI and the enzyme encoded by the manA gene in enterobacteria. PMI has a bound zinc ion, which is essential for activity. A crystal structure of PMI from Candida albicans shows that the enzyme has three distinct domains []. The active site lies in the central domain, contains a single essential zinc atom, and forms a deep, open cavity of suitable dimensions to contain M6P or F6P The central domain is flanked by a helical domain on one side and a jelly-roll like domain on the other.; GO: 0004476 mannose-6-phosphate isomerase activity, 0008270 zinc ion binding, 0005975 carbohydrate metabolic process; PDB: 1PMI_A 1QWR_B 1ZX5_A 3H1Y_A 2WFP_A 3H1M_A 3H1W_A.
Probab=47.42 E-value=6.8 Score=43.66 Aligned_cols=18 Identities=56% Similarity=0.973 Sum_probs=13.9
Q ss_pred EeecCceEEecCCCcccc
Q 005405 608 EQKLGEAVFIPAGCPHQV 625 (698)
Q Consensus 608 ~Q~~GEAVFIPAGcPHQV 625 (698)
.=.+|||+|+|||-||-.
T Consensus 253 ~L~pGeaifl~a~~~HAY 270 (373)
T PF01238_consen 253 ELQPGEAIFLPAGEPHAY 270 (373)
T ss_dssp EE-TT-EEEEHTTHHEEE
T ss_pred EecCCceEEecCCCcccc
Confidence 335999999999999984
No 56
>PRK01191 rpl24p 50S ribosomal protein L24P; Validated
Probab=45.76 E-value=9.4 Score=36.53 Aligned_cols=42 Identities=24% Similarity=0.426 Sum_probs=37.0
Q ss_pred ccCccCcceecCHHHHHHHHHHhCccceEEEeecCceEEecCCC
Q 005405 578 IHPIHDQCFYLSSEHKKKLKEEFGVEPWTFEQKLGEAVFIPAGC 621 (698)
Q Consensus 578 ~dPIHDQ~fYL~~~hk~kLkeEyGVepWtf~Q~~GEAVFIPAGc 621 (698)
.-|.|...-.+.+.+=+.|+++|||.-|.| +.||-|-|=||-
T Consensus 17 ~a~~~~r~k~msa~LSkeLr~~y~ir~~~I--kkGD~V~VisG~ 58 (120)
T PRK01191 17 NAPLHLRQKLMSAPLSKELREKYGIRSLPV--RKGDTVKVMRGD 58 (120)
T ss_pred cCCHHHHHHHhcCccCHHHHHHhCCccceE--eCCCEEEEeecC
Confidence 457888888888888899999999999977 589999999985
No 57
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=45.63 E-value=12 Score=27.01 Aligned_cols=26 Identities=27% Similarity=0.874 Sum_probs=22.0
Q ss_pred cCCCccccccc-cccCCCCCcccchhc
Q 005405 96 CNHCATSIIDL-HRSCPKCSYELCLTC 121 (698)
Q Consensus 96 CD~C~TSI~D~-HRsC~~CsydLCL~C 121 (698)
|+.|...+-.+ --+|..|.|.|-+.|
T Consensus 3 C~~C~~~~~~~~~Y~C~~c~f~lh~~C 29 (30)
T PF03107_consen 3 CDVCRRKIDGFYFYHCSECCFTLHVRC 29 (30)
T ss_pred CCCCCCCcCCCEeEEeCCCCCeEcCcc
Confidence 78888888888 888888888888776
No 58
>PF02938 GAD: GAD domain; InterPro: IPR004115 This entry represetns an 2 layer alpha/beta insertion domain found in some glutamyl-tRNA amidotransferases and aspartyl tRNA synthetases [, ]. The function of this domain is not yet known.; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0005737 cytoplasm; PDB: 1ZQ1_D 1EQR_B 1IL2_B 1C0A_A 1L0W_A 1G51_B 1EFW_B 2D6F_D.
Probab=45.35 E-value=7.5 Score=34.94 Aligned_cols=41 Identities=34% Similarity=0.570 Sum_probs=32.1
Q ss_pred cccCccCcceecCHHHHHHHHHHhCccceEEEeecCceEEecCCCcccccc
Q 005405 577 VIHPIHDQCFYLSSEHKKKLKEEFGVEPWTFEQKLGEAVFIPAGCPHQVRN 627 (698)
Q Consensus 577 v~dPIHDQ~fYL~~~hk~kLkeEyGVepWtf~Q~~GEAVFIPAGcPHQVrN 627 (698)
...||-. ||+++.+++|.+.+|.++ ||+||+=||-.+.|++
T Consensus 53 ~~s~i~k---fl~e~~~~~l~~~~~a~~-------GD~ll~~Ag~~~~v~~ 93 (95)
T PF02938_consen 53 LKSPIAK---FLSEEELKALIERLGAKP-------GDLLLFVAGKKEIVNK 93 (95)
T ss_dssp EECTTCC---CCHHHHHHHHHHHTT--T-------TEEEEEEEESHHHHHH
T ss_pred ccCcccc---cCCHHHHHHHHHHhCCCC-------CCEEEEECCCHHHHHh
Confidence 4455543 499999999999999975 9999999999888764
No 59
>PRK11171 hypothetical protein; Provisional
Probab=43.55 E-value=13 Score=39.40 Aligned_cols=28 Identities=25% Similarity=0.372 Sum_probs=23.4
Q ss_pred ccceEEEeecCceEEecCCCcccccccc
Q 005405 602 VEPWTFEQKLGEAVFIPAGCPHQVRNLK 629 (698)
Q Consensus 602 VepWtf~Q~~GEAVFIPAGcPHQVrNL~ 629 (698)
+..=++.=..||.|+||+|.||+.+|.-
T Consensus 98 ~~g~~~~L~~GDsi~~p~~~~H~~~N~g 125 (266)
T PRK11171 98 LEGKTHALSEGGYAYLPPGSDWTLRNAG 125 (266)
T ss_pred ECCEEEEECCCCEEEECCCCCEEEEECC
Confidence 3444667778999999999999999975
No 60
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=43.37 E-value=9.4 Score=42.33 Aligned_cols=34 Identities=35% Similarity=1.034 Sum_probs=28.3
Q ss_pred CCCceecCCCccccccccc-cCCCCC-cccchhchH
Q 005405 90 NDERVYCNHCATSIIDLHR-SCPKCS-YELCLTCCK 123 (698)
Q Consensus 90 ~DERvyCD~C~TSI~D~HR-sC~~Cs-ydLCL~CC~ 123 (698)
--|+|-||.|..-=|-|.| -|-.|+ ||||-+|+.
T Consensus 5 rHe~v~CdgC~k~~~t~rrYkCL~C~DyDlC~sCye 40 (381)
T KOG1280|consen 5 RHEGVSCDGCGKTAFTFRRYKCLRCSDYDLCFSCYE 40 (381)
T ss_pred CcCCceeccccccceeeeeeEeeeecchhHHHHHhh
Confidence 4589999999887777766 488885 999999986
No 61
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=40.98 E-value=15 Score=34.02 Aligned_cols=27 Identities=19% Similarity=0.429 Sum_probs=22.2
Q ss_pred CCCCceecCCCcccccc-------ccccCCCCCc
Q 005405 89 GNDERVYCNHCATSIID-------LHRSCPKCSY 115 (698)
Q Consensus 89 ~~DERvyCD~C~TSI~D-------~HRsC~~Csy 115 (698)
..+-.+.|.+|....+. .|+.|++|+|
T Consensus 17 klpt~f~CP~Cge~~v~v~~~k~~~h~~C~~CG~ 50 (99)
T PRK14892 17 KLPKIFECPRCGKVSISVKIKKNIAIITCGNCGL 50 (99)
T ss_pred CCCcEeECCCCCCeEeeeecCCCcceEECCCCCC
Confidence 34456779999987777 7999999998
No 62
>KOG2107 consensus Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=39.86 E-value=22 Score=35.89 Aligned_cols=56 Identities=23% Similarity=0.453 Sum_probs=42.0
Q ss_pred hHHHHHHHHHHHhhccccCCCCCccccCccCcceecCHHHHHHHHHHhCccceEEEe-ecCceEEecCCCcccc
Q 005405 553 PKLEAYLRKHFKEFRHVYCSPVEQVIHPIHDQCFYLSSEHKKKLKEEFGVEPWTFEQ-KLGEAVFIPAGCPHQV 625 (698)
Q Consensus 553 ~KLreyL~kh~~Ef~~~~~~p~~~v~dPIHDQ~fYL~~~hk~kLkeEyGVepWtf~Q-~~GEAVFIPAGcPHQV 625 (698)
+||..|...|..++. .+-=|-+++-|.|.+-+. +-|-=.+ .-||-|+||||.-|--
T Consensus 80 eKvk~FfEEhlh~de---------eiR~il~GtgYfDVrd~d--------d~WIRi~vekGDlivlPaGiyHRF 136 (179)
T KOG2107|consen 80 EKVKSFFEEHLHEDE---------EIRYILEGTGYFDVRDKD--------DQWIRIFVEKGDLIVLPAGIYHRF 136 (179)
T ss_pred HHHHHHHHHhcCchh---------heEEEeecceEEeeccCC--------CCEEEEEEecCCEEEecCcceeee
Confidence 688888887766542 345577888999988775 6675444 4699999999998864
No 63
>KOG3905 consensus Dynein light intermediate chain [Cell motility]
Probab=38.91 E-value=13 Score=41.31 Aligned_cols=22 Identities=18% Similarity=0.353 Sum_probs=14.6
Q ss_pred EeecCCChhHHHHHHHHHHHhh
Q 005405 545 DIFRRQDVPKLEAYLRKHFKEF 566 (698)
Q Consensus 545 dIFrreDv~KLreyL~kh~~Ef 566 (698)
|=||-+-.++|+..|||-+-.+
T Consensus 242 ~eyrDehfdfiq~~lRkFCLr~ 263 (473)
T KOG3905|consen 242 HEYRDEHFDFIQSHLRKFCLRY 263 (473)
T ss_pred chhhHHHHHHHHHHHHHHHHHc
Confidence 4477777777777777665543
No 64
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=38.19 E-value=15 Score=30.62 Aligned_cols=24 Identities=33% Similarity=0.787 Sum_probs=19.9
Q ss_pred CCCCceecCCCccccccccccCC----CCCc
Q 005405 89 GNDERVYCNHCATSIIDLHRSCP----KCSY 115 (698)
Q Consensus 89 ~~DERvyCD~C~TSI~D~HRsC~----~Csy 115 (698)
+.|..|.|.-|.|+ |||.|- .|.+
T Consensus 17 ~~dDiVvCp~Cgap---yHR~C~~~~g~C~~ 44 (54)
T PF14446_consen 17 DGDDIVVCPECGAP---YHRDCWEKAGGCIN 44 (54)
T ss_pred CCCCEEECCCCCCc---ccHHHHhhCCceEe
Confidence 47888999999998 899996 5554
No 65
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=37.67 E-value=18 Score=33.94 Aligned_cols=24 Identities=25% Similarity=0.758 Sum_probs=18.8
Q ss_pred CceecCCCcc--ccccccccCCCCCc
Q 005405 92 ERVYCNHCAT--SIIDLHRSCPKCSY 115 (698)
Q Consensus 92 ERvyCD~C~T--SI~D~HRsC~~Csy 115 (698)
-+.+|..|.. ++-+++..||+|+-
T Consensus 69 ~~~~C~~Cg~~~~~~~~~~~CP~Cgs 94 (113)
T PRK12380 69 AQAWCWDCSQVVEIHQHDAQCPHCHG 94 (113)
T ss_pred cEEEcccCCCEEecCCcCccCcCCCC
Confidence 4679999975 55577888999983
No 66
>PRK10371 DNA-binding transcriptional regulator MelR; Provisional
Probab=36.47 E-value=25 Score=37.66 Aligned_cols=33 Identities=18% Similarity=0.322 Sum_probs=27.8
Q ss_pred hCccceEEEeecCceEEecCCCccccccccccc
Q 005405 600 FGVEPWTFEQKLGEAVFIPAGCPHQVRNLKSCT 632 (698)
Q Consensus 600 yGVepWtf~Q~~GEAVFIPAGcPHQVrNL~SCI 632 (698)
|-|.+-++.-.+||+||||+|.||+......|-
T Consensus 59 ~~i~g~~~~l~~Gd~ili~s~~~H~~~~~~~~~ 91 (302)
T PRK10371 59 YLINNEKVQINQGHITLFWACTPHQLTDPGNCR 91 (302)
T ss_pred EEECCEEEEEcCCcEEEEecCCcccccccCCCc
Confidence 667888899999999999999999987655553
No 67
>TIGR03037 anthran_nbaC 3-hydroxyanthranilate 3,4-dioxygenase. Members of this protein family, from both bacteria and eukaryotes, are the enzyme 3-hydroxyanthranilate 3,4-dioxygenase. This enzyme acts on the tryptophan metabolite 3-hydroxyanthranilate and produces 2-amino-3-carboxymuconate semialdehyde, which can rearrange spontaneously to quinolinic acid and feed into nicotinamide biosynthesis, or undergo further enzymatic degradation.
Probab=36.01 E-value=23 Score=35.40 Aligned_cols=45 Identities=11% Similarity=0.228 Sum_probs=39.2
Q ss_pred cceEEEeecCceEEecCCCccccccccccccccccccCcccHHHH
Q 005405 603 EPWTFEQKLGEAVFIPAGCPHQVRNLKSCTKVAVDFVSPENVDEC 647 (698)
Q Consensus 603 epWtf~Q~~GEAVFIPAGcPHQVrNL~SCIKVAlDFVSPEnV~ec 647 (698)
+..++.=+.||..+||+|.||..+--..||=+.+.=.+|++...+
T Consensus 68 ~~~~v~L~eGd~flvP~gvpHsP~r~~~t~~LvIE~~r~~~~~d~ 112 (159)
T TIGR03037 68 KREDVPIREGDIFLLPPHVPHSPQRPAGSIGLVIERKRPQGELDG 112 (159)
T ss_pred cEEEEEECCCCEEEeCCCCCcccccCCCcEEEEEEeCCCCCCCcc
Confidence 356788899999999999999998899999999988888887663
No 68
>PRK13264 3-hydroxyanthranilate 3,4-dioxygenase; Provisional
Probab=35.88 E-value=24 Score=35.90 Aligned_cols=44 Identities=16% Similarity=0.286 Sum_probs=37.4
Q ss_pred cceEEEeecCceEEecCCCccccccccccccccccccCcccHHH
Q 005405 603 EPWTFEQKLGEAVFIPAGCPHQVRNLKSCTKVAVDFVSPENVDE 646 (698)
Q Consensus 603 epWtf~Q~~GEAVFIPAGcPHQVrNL~SCIKVAlDFVSPEnV~e 646 (698)
+..++.=+.||..+||+|.||..+.-..||-+.+.=..|+..-.
T Consensus 74 ~~~~v~L~eGd~fllP~gvpHsP~r~~~tv~LviE~~r~~~~~d 117 (177)
T PRK13264 74 KRRDVPIREGEMFLLPPHVPHSPQREAGSIGLVIERKRPEGELD 117 (177)
T ss_pred ceeeEEECCCCEEEeCCCCCcCCccCCCeEEEEEEeCCCCCCcc
Confidence 34678889999999999999999889999999888777776544
No 69
>PF05899 Cupin_3: Protein of unknown function (DUF861); InterPro: IPR008579 The function of the proteins in this entry are unknown. They contain the conserved barrel domain of the 'cupin' superfamily and members are specific to plants and bacteria.; PDB: 1RC6_A 3MYX_A 1O5U_A 2K9Z_A 1LKN_A 3ES4_A 1SFN_B 3BCW_A.
Probab=34.89 E-value=21 Score=30.68 Aligned_cols=17 Identities=41% Similarity=0.714 Sum_probs=12.8
Q ss_pred EEEeecCceEEecCCCc
Q 005405 606 TFEQKLGEAVFIPAGCP 622 (698)
Q Consensus 606 tf~Q~~GEAVFIPAGcP 622 (698)
+..=..||+||||+|..
T Consensus 45 ~~~~~aGD~~~~p~G~~ 61 (74)
T PF05899_consen 45 TVTFKAGDAFFLPKGWT 61 (74)
T ss_dssp EEEEETTEEEEE-TTEE
T ss_pred EEEEcCCcEEEECCCCE
Confidence 34557999999999984
No 70
>PF02944 BESS: BESS motif; InterPro: IPR004210 The BESS domain has been named after the three proteins that originally defined the domain: BEAF (Boundary element associated factor 32) [], Suvar(3)7 [] and Stonewall []). The BESS domain is 40 amino acid residues long and is predicted to be composed of three alpha helices, as such it might be related to the myb/SANT HTH domain. The BESS domain directs a variety of protein-protein interactions, including interactions with itself, with Dorsal, and with a TBP-associated factor. It is found in a single copy in Drosophila proteins and is often associated with the MADF domain [, , ]. Proteins known to contain a BESS domain include: Drosophila Boundary element associated factor 32 (BEAF-32). Drosophila Suppressor of variegation protein 3-7 (Su(var)3-7), which could play a role in chromosome condensation. Drosophila Ravus, which is homologous to the C-terminal part of Su(var)3-7 []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation. Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3). It functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. ; GO: 0003677 DNA binding
Probab=33.73 E-value=49 Score=24.99 Aligned_cols=24 Identities=21% Similarity=0.539 Sum_probs=20.3
Q ss_pred HHHHHHhhhhHhhcHHHhhhhhhh
Q 005405 47 YLMVSLLPFIRQICEEQTQEIEFE 70 (698)
Q Consensus 47 yll~~lLP~lkqi~~EQ~~E~e~E 70 (698)
+.|-+++|.+|++...|..+.+++
T Consensus 6 ~Fl~Sl~p~~k~L~~~~k~~~k~~ 29 (37)
T PF02944_consen 6 LFLLSLLPHMKRLPPKQKLKFKMK 29 (37)
T ss_pred HHHHHhHHHHHhCCHHHHHHHHHH
Confidence 567889999999999999876655
No 71
>PF08990 Docking: Erythronolide synthase docking; InterPro: IPR015083 The N-terminal docking domain found in modular polyketide synthase assumes an alpha-helical structure, wherein two alpha-helices are connected by a short loop. Two such N-terminal domains dimerise to form amphipathic parallel alpha-helical coiled coils: dimerisation is essential for protein function []. ; GO: 0016740 transferase activity, 0048037 cofactor binding; PDB: 2HG4_E.
Probab=32.84 E-value=33 Score=24.80 Aligned_cols=17 Identities=35% Similarity=0.585 Sum_probs=14.0
Q ss_pred ChhHHHHHHHHHHHhhc
Q 005405 551 DVPKLEAYLRKHFKEFR 567 (698)
Q Consensus 551 Dv~KLreyL~kh~~Ef~ 567 (698)
+-+||++||++...|.+
T Consensus 3 ~e~kLr~YLkr~t~eL~ 19 (27)
T PF08990_consen 3 NEDKLRDYLKRVTAELR 19 (27)
T ss_dssp -HCHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHH
Confidence 45799999999998875
No 72
>PRK11171 hypothetical protein; Provisional
Probab=31.71 E-value=27 Score=37.11 Aligned_cols=30 Identities=17% Similarity=0.286 Sum_probs=26.8
Q ss_pred hCccceEEEeecCceEEecCCCcccccccc
Q 005405 600 FGVEPWTFEQKLGEAVFIPAGCPHQVRNLK 629 (698)
Q Consensus 600 yGVepWtf~Q~~GEAVFIPAGcPHQVrNL~ 629 (698)
+.+..-++.=..||++++|+++||+.+|.-
T Consensus 218 ~~~~~~~~~l~~GD~i~~~~~~~h~~~N~g 247 (266)
T PRK11171 218 YRLNNDWVEVEAGDFIWMRAYCPQACYAGG 247 (266)
T ss_pred EEECCEEEEeCCCCEEEECCCCCEEEECCC
Confidence 667888888899999999999999999963
No 73
>TIGR03404 bicupin_oxalic bicupin, oxalate decarboxylase family. Members of this protein family are defined as bicupins as they have two copies of the cupin domain (pfam00190). Two different known activities for members of this family are oxalate decarboxylase (EC 4.1.1.2) and oxalate oxidase (EC 1.2.3.4), although the latter activity has more often been found in distantly related monocupin (germin) proteins.
Probab=31.49 E-value=41 Score=37.65 Aligned_cols=28 Identities=21% Similarity=0.532 Sum_probs=23.4
Q ss_pred cceEEEeecCceEEecCCCccccccccc
Q 005405 603 EPWTFEQKLGEAVFIPAGCPHQVRNLKS 630 (698)
Q Consensus 603 epWtf~Q~~GEAVFIPAGcPHQVrNL~S 630 (698)
+-+++.=..||.++||+|.+|-.+|...
T Consensus 108 ~~~~~~L~~GD~~~fP~g~~H~~~n~~~ 135 (367)
T TIGR03404 108 RNYIDDVGAGDLWYFPPGIPHSLQGLDE 135 (367)
T ss_pred cEEEeEECCCCEEEECCCCeEEEEECCC
Confidence 3455567899999999999999999854
No 74
>PF08115 Toxin_28: SFI toxin family; InterPro: IPR012633 This family consists of the SFI family of spider toxins. This family of toxins might share structural, evolutionary and functional relationships with other small, highly structurally constrained spider neurotoxins. These toxins are highly selective agonists/antagonists of different voltage-dependent calcium channels and are extremely valuable reagents in the analysis of neuromuscular function.; GO: 0009405 pathogenesis, 0005576 extracellular region
Probab=31.47 E-value=23 Score=26.74 Aligned_cols=17 Identities=29% Similarity=0.546 Sum_probs=14.8
Q ss_pred CCCcccccccCCCCCcc
Q 005405 14 RRNCNCSVCLHTSGFIE 30 (698)
Q Consensus 14 rgnCNCk~CLr~~~~i~ 30 (698)
-.||+|-.||++++++-
T Consensus 14 n~n~~~G~CL~~~~~~A 30 (35)
T PF08115_consen 14 NHNDCCGSCLCSNGPHA 30 (35)
T ss_pred cCCCcccceeccCCccC
Confidence 47999999999998764
No 75
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=31.43 E-value=28 Score=41.82 Aligned_cols=33 Identities=36% Similarity=1.020 Sum_probs=24.3
Q ss_pred CCCceecCCCccccccccccCCCCCcc------cchhchHH
Q 005405 90 NDERVYCNHCATSIIDLHRSCPKCSYE------LCLTCCKE 124 (698)
Q Consensus 90 ~DERvyCD~C~TSI~D~HRsC~~Csyd------LCL~CC~E 124 (698)
.+.--||.+|.+++. +..|++|+.. +|..|=..
T Consensus 12 ~~~akFC~~CG~~l~--~~~Cp~CG~~~~~~~~fC~~CG~~ 50 (645)
T PRK14559 12 PNNNRFCQKCGTSLT--HKPCPQCGTEVPVDEAHCPNCGAE 50 (645)
T ss_pred CCCCccccccCCCCC--CCcCCCCCCCCCcccccccccCCc
Confidence 455568888888874 4678888887 77777443
No 76
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 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 zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=31.09 E-value=27 Score=27.04 Aligned_cols=22 Identities=32% Similarity=1.019 Sum_probs=15.5
Q ss_pred eecCCCccc--cccccc---cCCCCCc
Q 005405 94 VYCNHCATS--IIDLHR---SCPKCSY 115 (698)
Q Consensus 94 vyCD~C~TS--I~D~HR---sC~~Csy 115 (698)
|.|.+|..+ ++|+.+ .|++|++
T Consensus 1 m~Cp~Cg~~~~~~D~~~g~~vC~~CG~ 27 (43)
T PF08271_consen 1 MKCPNCGSKEIVFDPERGELVCPNCGL 27 (43)
T ss_dssp ESBTTTSSSEEEEETTTTEEEETTT-B
T ss_pred CCCcCCcCCceEEcCCCCeEECCCCCC
Confidence 568888886 678665 6777776
No 77
>PF12852 Cupin_6: Cupin
Probab=30.71 E-value=29 Score=34.12 Aligned_cols=43 Identities=21% Similarity=0.383 Sum_probs=27.4
Q ss_pred ccCccCcceecCHHHHHHHHHHhCccceEEEeecCceEEecCCCccccccccc
Q 005405 578 IHPIHDQCFYLSSEHKKKLKEEFGVEPWTFEQKLGEAVFIPAGCPHQVRNLKS 630 (698)
Q Consensus 578 ~dPIHDQ~fYL~~~hk~kLkeEyGVepWtf~Q~~GEAVFIPAGcPHQVrNL~S 630 (698)
.|=+-.+++||.-.- +-+ .+.=..||.||+|.|.||...--..
T Consensus 38 fh~V~~G~~~l~~~~--------~~~--~~~L~~GDivllp~g~~H~l~~~~~ 80 (186)
T PF12852_consen 38 FHVVLRGSCWLRVPG--------GGE--PIRLEAGDIVLLPRGTAHVLSSDPD 80 (186)
T ss_pred EEEEECCeEEEEEcC--------CCC--eEEecCCCEEEEcCCCCeEeCCCCC
Confidence 455556666665211 112 2444679999999999999854433
No 78
>TIGR01080 rplX_A_E ribosomal protein L24p/L26e, archaeal/eukaryotic. This model represents the archaeal and eukaryotic branch of the ribosomal protein L24p/L26e family. Bacterial and organellar forms are represented by the related TIGR01079.
Probab=30.48 E-value=28 Score=33.00 Aligned_cols=44 Identities=25% Similarity=0.372 Sum_probs=39.3
Q ss_pred ccCccCcceecCHHHHHHHHHHhCccceEEEeecCceEEecCCCcc
Q 005405 578 IHPIHDQCFYLSSEHKKKLKEEFGVEPWTFEQKLGEAVFIPAGCPH 623 (698)
Q Consensus 578 ~dPIHDQ~fYL~~~hk~kLkeEyGVepWtf~Q~~GEAVFIPAGcPH 623 (698)
.-|+|...-++.+.+=+.|+++||++-+.| +-||-|-|=+|-=.
T Consensus 13 ~a~~~~r~~~~~a~ls~elr~~y~~r~~~I--kkGD~V~Vi~Gk~K 56 (114)
T TIGR01080 13 TAPLHVRRKLMSAPLSKELREKYGKRALPV--RKGDKVRIMRGDFK 56 (114)
T ss_pred cCcHhhhhheeecccCHHHHHHcCccccee--ecCCEEEEecCCCC
Confidence 568999999999999999999999999966 78999999998643
No 79
>PF09567 RE_MamI: MamI restriction endonuclease; InterPro: IPR019067 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry includes the MamI restriction endonuclease which recognises and cleaves GATNN^NNATC. ; GO: 0003677 DNA binding, 0009036 Type II site-specific deoxyribonuclease activity, 0009307 DNA restriction-modification system
Probab=27.99 E-value=26 Score=37.60 Aligned_cols=21 Identities=38% Similarity=1.043 Sum_probs=19.8
Q ss_pred ecCCCccccccccccCCCCCc
Q 005405 95 YCNHCATSIIDLHRSCPKCSY 115 (698)
Q Consensus 95 yCD~C~TSI~D~HRsC~~Csy 115 (698)
-|+||.+-+.-|.-+||+|+.
T Consensus 84 ~C~~CGa~V~~~e~~Cp~C~S 104 (314)
T PF09567_consen 84 KCNNCGANVSRLEESCPNCGS 104 (314)
T ss_pred hhccccceeeehhhcCCCCCc
Confidence 599999999999999999976
No 80
>PF02311 AraC_binding: AraC-like ligand binding domain; InterPro: IPR003313 This entry defines the arabinose-binding and dimerisation domain of the bacterial gene regulatory protein AraC. The crystal structure of the arabinose-binding and dimerization domain of the Escherichia coli gene regulatory protein AraC was determined in the presence and absence of L-arabinose. The arabinose-bound molecule shows that the protein adopts an unusual fold, binding sugar within a beta barrel and completely burying the arabinose with the amino-terminal arm of the protein. Dimer contacts in the presence of arabinose are mediated by an antiparallel coiled-coil. In the uncomplexed protein, the amino-terminal arm is disordered, uncovering the sugar-binding pocket and allowing it to serve as an oligomerization interface [].; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 1XJA_B 2ARA_A 2AAC_B 2ARC_A.
Probab=26.01 E-value=42 Score=29.65 Aligned_cols=46 Identities=24% Similarity=0.404 Sum_probs=28.2
Q ss_pred hCccceEEEeecCceEEecCCCcccccccc--ccccccccccCcccHHH
Q 005405 600 FGVEPWTFEQKLGEAVFIPAGCPHQVRNLK--SCTKVAVDFVSPENVDE 646 (698)
Q Consensus 600 yGVepWtf~Q~~GEAVFIPAGcPHQVrNL~--SCIKVAlDFVSPEnV~e 646 (698)
+.|..=++.=.+||++|||+|-+|...--. .+....+.| +|+-+.+
T Consensus 36 ~~~~~~~~~l~~g~~~li~p~~~H~~~~~~~~~~~~~~i~~-~~~~~~~ 83 (136)
T PF02311_consen 36 LHIDGQEYPLKPGDLFLIPPGQPHSYYPDSNEPWEYYWIYF-SPDFLEE 83 (136)
T ss_dssp EEETTEEEEE-TT-EEEE-TTS-EEEEE-TTSEEEEEEEEE----GGGG
T ss_pred EEECCEEEEEECCEEEEecCCccEEEecCCCCCEEEEEEEE-CHHHHHH
Confidence 345556677789999999999999988777 676666666 5554444
No 81
>PF06249 EutQ: Ethanolamine utilisation protein EutQ; InterPro: IPR010424 The eut operon of Salmonella typhimurium encodes proteins involved in the cobalamin-dependent degradation of ethanolamine. The role of EutQ in this process is unclear [].; PDB: 2PYT_B 3LWC_A.
Probab=25.90 E-value=51 Score=32.84 Aligned_cols=21 Identities=33% Similarity=0.670 Sum_probs=16.0
Q ss_pred ccceEEEeecCceEEecCCCc
Q 005405 602 VEPWTFEQKLGEAVFIPAGCP 622 (698)
Q Consensus 602 VepWtf~Q~~GEAVFIPAGcP 622 (698)
+++=++.=++||+||||.|.-
T Consensus 110 ~~G~~~~A~~GDvi~iPkGs~ 130 (152)
T PF06249_consen 110 IDGQTVTAKPGDVIFIPKGST 130 (152)
T ss_dssp ETTEEEEEETT-EEEE-TT-E
T ss_pred ECCEEEEEcCCcEEEECCCCE
Confidence 568899999999999999963
No 82
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 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. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=25.77 E-value=30 Score=26.62 Aligned_cols=12 Identities=33% Similarity=0.955 Sum_probs=5.8
Q ss_pred ceecCCCccccc
Q 005405 93 RVYCNHCATSII 104 (698)
Q Consensus 93 RvyCD~C~TSI~ 104 (698)
|.|||.|++.|.
T Consensus 3 ryyCdyC~~~~~ 14 (38)
T PF06220_consen 3 RYYCDYCKKYLT 14 (38)
T ss_dssp S-B-TTT--B-S
T ss_pred Ceecccccceec
Confidence 679999999884
No 83
>PRK15457 ethanolamine utilization protein EutQ; Provisional
Probab=25.59 E-value=39 Score=35.80 Aligned_cols=75 Identities=19% Similarity=0.099 Sum_probs=52.8
Q ss_pred CceEEEeecCCChhHHHHHHHHHHHhhccccCCCCCccccCccCcceecCHHHHHHHHHHhCccceEEEeecCceEEecC
Q 005405 540 GGALWDIFRRQDVPKLEAYLRKHFKEFRHVYCSPVEQVIHPIHDQCFYLSSEHKKKLKEEFGVEPWTFEQKLGEAVFIPA 619 (698)
Q Consensus 540 ~GAlWdIFrreDv~KLreyL~kh~~Ef~~~~~~p~~~v~dPIHDQ~fYL~~~hk~kLkeEyGVepWtf~Q~~GEAVFIPA 619 (698)
.=.+-|+|-.+|.+.|-- -|-.+... ....+-=|||.+|+-.-.-. +-|.+=++.=++||.+|||.
T Consensus 142 ~v~~~d~~~~~d~s~m~a-------Gf~~~~~~--sf~wtl~~dEi~YVLEGe~~-----l~IdG~t~~l~pGDvlfIPk 207 (233)
T PRK15457 142 CVGLTDLVTGDDGSSMAA-------GFMQWENA--FFPWTLNYDEIDMVLEGELH-----VRHEGETMIAKAGDVMFIPK 207 (233)
T ss_pred cEEeeeeeccCCCCceee-------EEEEEecC--ccceeccceEEEEEEEeEEE-----EEECCEEEEeCCCcEEEECC
Confidence 456678888888887722 12111222 23477788998887655443 67889999999999999999
Q ss_pred CCccccccc
Q 005405 620 GCPHQVRNL 628 (698)
Q Consensus 620 GcPHQVrNL 628 (698)
|.+|.-.+-
T Consensus 208 Gs~~hf~tp 216 (233)
T PRK15457 208 GSSIEFGTP 216 (233)
T ss_pred CCeEEecCC
Confidence 999776543
No 84
>TIGR02297 HpaA 4-hydroxyphenylacetate catabolism regulatory protein HpaA. This putative transcriptional regulator, which contains both the substrate-binding, dimerization domain (pfam02311) and the helix-turn-helix DNA-binding domain (pfam00165) of the AraC famil, is located proximal to genes of the 4-hydroxyphenylacetate catabolism pathway.
Probab=24.17 E-value=54 Score=34.02 Aligned_cols=31 Identities=10% Similarity=0.177 Sum_probs=24.9
Q ss_pred hCccceEEEeecCceEEecCCCccccccccc
Q 005405 600 FGVEPWTFEQKLGEAVFIPAGCPHQVRNLKS 630 (698)
Q Consensus 600 yGVepWtf~Q~~GEAVFIPAGcPHQVrNL~S 630 (698)
+.|..=++.=..||+||||+|.+|+++.-.+
T Consensus 57 ~~~~~~~~~l~~g~~~ii~~~~~H~~~~~~~ 87 (287)
T TIGR02297 57 LQLDEHEYSEYAPCFFLTPPSVPHGFVTDLD 87 (287)
T ss_pred EEECCEEEEecCCeEEEeCCCCccccccCCC
Confidence 5566667777799999999999999875443
No 85
>PRK13503 transcriptional activator RhaS; Provisional
Probab=23.82 E-value=36 Score=35.07 Aligned_cols=31 Identities=10% Similarity=0.083 Sum_probs=23.4
Q ss_pred hCccceEEEeecCceEEecCCCccccccccc
Q 005405 600 FGVEPWTFEQKLGEAVFIPAGCPHQVRNLKS 630 (698)
Q Consensus 600 yGVepWtf~Q~~GEAVFIPAGcPHQVrNL~S 630 (698)
+.|..=++.=..||++|||+|.+|..++..+
T Consensus 48 ~~i~~~~~~l~~g~~~~i~~~~~h~~~~~~~ 78 (278)
T PRK13503 48 HVFNGQPYTLSGGTVCFVRDHDRHLYEHTDN 78 (278)
T ss_pred eEecCCcccccCCcEEEECCCccchhhhccC
Confidence 3344445555789999999999998877665
No 86
>PF14816 FAM178: Family of unknown function, FAM178
Probab=23.82 E-value=46 Score=37.57 Aligned_cols=28 Identities=32% Similarity=0.576 Sum_probs=23.4
Q ss_pred cCHHHHHHHHHHhCccceEEE-eecCceEE
Q 005405 588 LSSEHKKKLKEEFGVEPWTFE-QKLGEAVF 616 (698)
Q Consensus 588 L~~~hk~kLkeEyGVepWtf~-Q~~GEAVF 616 (698)
|++|||. +.|.|+|..-.|- +|+||.||
T Consensus 63 l~~Ehr~-~lekfsv~~~~Ip~~HPGE~IF 91 (377)
T PF14816_consen 63 LTPEHRE-FLEKFSVSLQAIPDVHPGEEIF 91 (377)
T ss_pred CCHHHHH-HHHHhchhhccCCCCCCchhhc
Confidence 5688886 7778999988885 78899999
No 87
>PF01783 Ribosomal_L32p: Ribosomal L32p protein family; InterPro: IPR002677 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L32p is part of the 50S ribosomal subunit. This family is found in both prokaryotes and eukaryotes. Ribosomal protein L32 of yeast binds to and regulates the splicing and the translation of the transcript of its own gene [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0015934 large ribosomal subunit; PDB: 3PYT_2 3F1F_5 3PYV_2 3D5B_5 3MRZ_2 3D5D_5 3F1H_5 1VSP_Y 3PYR_2 3MS1_2 ....
Probab=23.65 E-value=53 Score=27.13 Aligned_cols=22 Identities=41% Similarity=0.919 Sum_probs=18.5
Q ss_pred ceecCCCccccccccccCCCCCc
Q 005405 93 RVYCNHCATSIIDLHRSCPKCSY 115 (698)
Q Consensus 93 RvyCD~C~TSI~D~HRsC~~Csy 115 (698)
-+.|.+|. .+.=-|+-|++|+|
T Consensus 26 l~~c~~cg-~~~~~H~vc~~cG~ 47 (56)
T PF01783_consen 26 LVKCPNCG-EPKLPHRVCPSCGY 47 (56)
T ss_dssp EEESSSSS-SEESTTSBCTTTBB
T ss_pred eeeeccCC-CEecccEeeCCCCe
Confidence 37899999 66778999999976
No 88
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=23.54 E-value=47 Score=27.81 Aligned_cols=22 Identities=41% Similarity=1.078 Sum_probs=18.8
Q ss_pred ceecCCCccccccccccCCCCCc
Q 005405 93 RVYCNHCATSIIDLHRSCPKCSY 115 (698)
Q Consensus 93 RvyCD~C~TSI~D~HRsC~~Csy 115 (698)
-+.|-+|...+.- |+-|++|+|
T Consensus 27 l~~C~~CG~~~~~-H~vC~~CG~ 48 (57)
T PRK12286 27 LVECPNCGEPKLP-HRVCPSCGY 48 (57)
T ss_pred ceECCCCCCccCC-eEECCCCCc
Confidence 3679999988775 999999998
No 89
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=23.54 E-value=51 Score=26.49 Aligned_cols=32 Identities=31% Similarity=0.956 Sum_probs=23.7
Q ss_pred CceecC--CCccccc------cccccCCCCCcccchhchH
Q 005405 92 ERVYCN--HCATSII------DLHRSCPKCSYELCLTCCK 123 (698)
Q Consensus 92 ERvyCD--~C~TSI~------D~HRsC~~CsydLCL~CC~ 123 (698)
...+|- .|...|. +.+-.|++|.+..|..|=.
T Consensus 17 ~~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~ 56 (64)
T smart00647 17 DLKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKV 56 (64)
T ss_pred CccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCC
Confidence 345677 7766554 4588999999999999943
No 90
>KOG4286 consensus Dystrophin-like protein [Cell motility; Signal transduction mechanisms; Cytoskeleton]
Probab=23.46 E-value=39 Score=41.12 Aligned_cols=35 Identities=26% Similarity=0.538 Sum_probs=29.8
Q ss_pred ecCCCc-cccccccccCCCCC-cccchhchHHHhcCc
Q 005405 95 YCNHCA-TSIIDLHRSCPKCS-YELCLTCCKEICEGR 129 (698)
Q Consensus 95 yCD~C~-TSI~D~HRsC~~Cs-ydLCL~CC~ELR~g~ 129 (698)
-|+.|| -+|+-|-..|-+|. ||||++|+--=|.|.
T Consensus 605 kCniCk~~pIvG~RyR~l~~fn~dlCq~CF~sgraak 641 (966)
T KOG4286|consen 605 KCNICKECPIIGFRYRSLKHFNYDICQSCFFSGRAAK 641 (966)
T ss_pred hcchhhhCccceeeeeehhhcChhHHhhHhhhccccc
Confidence 399997 59999999999995 899999998766554
No 91
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=23.08 E-value=44 Score=31.37 Aligned_cols=24 Identities=29% Similarity=0.499 Sum_probs=17.8
Q ss_pred CceecCCCcc--ccccccccCCCCCc
Q 005405 92 ERVYCNHCAT--SIIDLHRSCPKCSY 115 (698)
Q Consensus 92 ERvyCD~C~T--SI~D~HRsC~~Csy 115 (698)
-+.+|.+|.. ++-+++..||+|+-
T Consensus 69 ~~~~C~~Cg~~~~~~~~~~~CP~Cgs 94 (115)
T TIGR00100 69 VECECEDCSEEVSPEIDLYRCPKCHG 94 (115)
T ss_pred cEEEcccCCCEEecCCcCccCcCCcC
Confidence 3579999974 33466788999985
No 92
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=22.79 E-value=70 Score=28.26 Aligned_cols=22 Identities=14% Similarity=0.249 Sum_probs=14.3
Q ss_pred cccccCCCCceecCCCcccccc
Q 005405 84 SETLCGNDERVYCNHCATSIID 105 (698)
Q Consensus 84 ~~a~~~~DERvyCD~C~TSI~D 105 (698)
.+..+.-++-..|..|..+|.+
T Consensus 69 ~~~~v~i~~~~~C~vC~k~l~~ 90 (109)
T PF10367_consen 69 RSRSVVITESTKCSVCGKPLGN 90 (109)
T ss_pred cCceEEECCCCCccCcCCcCCC
Confidence 3333444555569999999875
No 93
>PF12773 DZR: Double zinc ribbon
Probab=22.37 E-value=51 Score=25.83 Aligned_cols=26 Identities=31% Similarity=0.908 Sum_probs=17.1
Q ss_pred CCCceecCCCccccc---cccccCCCCCc
Q 005405 90 NDERVYCNHCATSII---DLHRSCPKCSY 115 (698)
Q Consensus 90 ~DERvyCD~C~TSI~---D~HRsC~~Csy 115 (698)
.++..||.+|.+.+. .--..|++|+.
T Consensus 9 ~~~~~fC~~CG~~l~~~~~~~~~C~~Cg~ 37 (50)
T PF12773_consen 9 PDDAKFCPHCGTPLPPPDQSKKICPNCGA 37 (50)
T ss_pred CccccCChhhcCChhhccCCCCCCcCCcC
Confidence 445667777777777 23456777766
No 94
>PRK13501 transcriptional activator RhaR; Provisional
Probab=22.13 E-value=49 Score=34.70 Aligned_cols=28 Identities=14% Similarity=0.281 Sum_probs=23.4
Q ss_pred hCccceEEEeecCceEEecCCCcccccc
Q 005405 600 FGVEPWTFEQKLGEAVFIPAGCPHQVRN 627 (698)
Q Consensus 600 yGVepWtf~Q~~GEAVFIPAGcPHQVrN 627 (698)
+-|.+-++.=..||.||||+|.+|+++.
T Consensus 51 ~~i~~~~~~l~~g~~~~I~p~~~H~~~~ 78 (290)
T PRK13501 51 HVLNDHPYRITCGDVFYIQAADHHSYES 78 (290)
T ss_pred EEECCeeeeecCCeEEEEcCCCcccccc
Confidence 5566777777889999999999999764
Done!