Query 005541
Match_columns 691
No_of_seqs 153 out of 200
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 01:05:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005541.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005541hhsearch_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 5E-167 1E-171 1395.3 28.6 573 9-657 304-885 (889)
2 PF02373 JmjC: JmjC domain, hy 99.5 7.4E-15 1.6E-19 130.9 4.1 83 506-604 30-114 (114)
3 PF13621 Cupin_8: Cupin-like d 99.1 1.7E-11 3.7E-16 122.0 0.4 40 569-608 207-249 (251)
4 KOG2131 Uncharacterized conser 97.8 3E-05 6.5E-10 84.0 6.2 93 507-625 230-323 (427)
5 smart00558 JmjC A domain famil 97.0 0.00039 8.4E-09 56.1 2.2 54 340-411 3-56 (57)
6 cd02340 ZZ_NBR1_like Zinc fing 95.8 0.005 1.1E-07 48.2 1.7 30 64-93 1-31 (43)
7 cd02335 ZZ_ADA2 Zinc finger, Z 94.8 0.016 3.5E-07 46.3 1.7 29 65-93 2-32 (49)
8 cd02249 ZZ Zinc finger, ZZ typ 94.7 0.017 3.6E-07 45.5 1.6 32 65-96 2-34 (46)
9 cd02339 ZZ_Mind_bomb Zinc fing 94.7 0.018 3.8E-07 45.7 1.7 30 64-93 1-32 (45)
10 KOG2130 Phosphatidylserine-spe 94.3 0.025 5.4E-07 61.1 2.4 60 551-612 242-304 (407)
11 PF07883 Cupin_2: Cupin domain 93.4 0.037 8E-07 45.2 1.2 26 572-597 38-63 (71)
12 COG1917 Uncharacterized conser 92.8 0.061 1.3E-06 50.0 1.9 55 543-602 59-115 (131)
13 cd02344 ZZ_HERC2 Zinc finger, 92.6 0.069 1.5E-06 42.5 1.7 31 64-94 1-33 (45)
14 PF00569 ZZ: Zinc finger, ZZ t 92.5 0.052 1.1E-06 42.9 0.9 34 62-95 3-38 (46)
15 cd02341 ZZ_ZZZ3 Zinc finger, Z 92.4 0.071 1.5E-06 42.9 1.5 31 65-95 2-36 (48)
16 smart00291 ZnF_ZZ Zinc-binding 91.0 0.12 2.6E-06 40.3 1.5 36 63-98 4-40 (44)
17 cd02345 ZZ_dah Zinc finger, ZZ 90.8 0.13 2.8E-06 41.3 1.6 32 64-95 1-34 (49)
18 COG0662 {ManC} Mannose-6-phosp 90.6 0.18 3.9E-06 47.3 2.4 40 570-609 74-113 (127)
19 cd02338 ZZ_PCMF_like Zinc fing 90.1 0.15 3.2E-06 40.9 1.3 31 64-94 1-33 (49)
20 cd02337 ZZ_CBP Zinc finger, ZZ 89.8 0.17 3.8E-06 39.3 1.4 29 65-94 2-31 (41)
21 TIGR03214 ura-cupin putative a 87.6 0.27 6E-06 51.7 1.6 31 565-595 212-242 (260)
22 cd02334 ZZ_dystrophin Zinc fin 85.6 0.48 1E-05 38.3 1.6 33 64-96 1-35 (49)
23 PRK09943 DNA-binding transcrip 84.1 0.78 1.7E-05 45.3 2.7 60 543-608 124-183 (185)
24 cd02343 ZZ_EF Zinc finger, ZZ 83.7 0.67 1.5E-05 37.5 1.7 31 64-94 1-32 (48)
25 PF07649 C1_3: C1-like domain; 83.3 0.55 1.2E-05 33.8 1.0 27 65-91 2-29 (30)
26 KOG1356 Putative transcription 82.4 0.55 1.2E-05 56.4 1.0 37 59-95 225-261 (889)
27 PRK13290 ectC L-ectoine syntha 82.2 0.92 2E-05 43.0 2.3 37 570-608 74-110 (125)
28 PF01050 MannoseP_isomer: Mann 79.1 1.2 2.6E-05 43.7 1.9 22 576-597 107-128 (151)
29 TIGR00218 manA mannose-6-phosp 78.9 1 2.2E-05 48.3 1.5 15 576-590 156-170 (302)
30 COG4101 Predicted mannose-6-ph 77.5 2.1 4.6E-05 41.0 3.0 25 572-596 89-113 (142)
31 PRK15131 mannose-6-phosphate i 76.8 1.2 2.7E-05 49.7 1.5 17 574-590 240-256 (389)
32 PRK04190 glucose-6-phosphate i 74.5 2.3 5E-05 43.3 2.6 42 569-611 118-159 (191)
33 KOG4582 Uncharacterized conser 73.2 1.8 3.8E-05 46.4 1.5 31 64-94 153-185 (278)
34 cd02342 ZZ_UBA_plant Zinc fing 73.0 2.2 4.8E-05 33.9 1.6 31 64-94 1-33 (43)
35 COG1482 ManA Phosphomannose is 70.8 2.1 4.7E-05 46.7 1.5 21 573-593 160-180 (312)
36 PLN02288 mannose-6-phosphate i 67.8 2.6 5.7E-05 47.3 1.5 16 575-590 255-270 (394)
37 PF00190 Cupin_1: Cupin; Inte 66.9 5 0.00011 38.1 3.0 38 572-609 81-125 (144)
38 TIGR01479 GMP_PMI mannose-1-ph 65.5 3.2 7E-05 47.2 1.6 31 568-598 412-442 (468)
39 PF13248 zf-ribbon_3: zinc-rib 63.1 3.7 7.9E-05 28.8 0.9 25 63-87 2-26 (26)
40 PF13240 zinc_ribbon_2: zinc-r 60.0 4.5 9.7E-05 27.9 0.9 23 65-87 1-23 (23)
41 PF08007 Cupin_4: Cupin superf 59.2 7.2 0.00016 42.2 2.8 39 571-609 176-214 (319)
42 PRK15460 cpsB mannose-1-phosph 56.5 6.3 0.00014 45.4 1.9 30 567-596 420-449 (478)
43 smart00835 Cupin_1 Cupin. This 54.4 11 0.00024 35.9 2.9 58 544-601 47-107 (146)
44 PF02041 Auxin_BP: Auxin bindi 53.9 7.4 0.00016 38.7 1.6 41 550-595 75-115 (167)
45 PTZ00194 60S ribosomal protein 53.5 5.5 0.00012 39.1 0.7 43 544-588 18-60 (143)
46 PRK13305 sgbH 3-keto-L-gulonat 53.3 12 0.00027 38.8 3.2 62 598-669 6-68 (218)
47 KOG1280 Uncharacterized conser 52.1 6.1 0.00013 43.7 0.8 34 60-93 5-40 (381)
48 KOG0457 Histone acetyltransfer 52.0 5.5 0.00012 45.2 0.4 32 62-93 13-46 (438)
49 TIGR03404 bicupin_oxalic bicup 51.3 10 0.00023 42.1 2.5 80 544-625 262-342 (367)
50 PF10571 UPF0547: Uncharacteri 51.0 9.6 0.00021 27.1 1.4 23 65-87 2-24 (26)
51 PRK13306 ulaD 3-keto-L-gulonat 50.3 17 0.00038 37.3 3.8 65 598-672 6-71 (216)
52 TIGR03214 ura-cupin putative a 49.4 12 0.00026 39.6 2.4 47 545-596 77-123 (260)
53 COG5114 Histone acetyltransfer 49.2 4.5 9.7E-05 44.3 -0.7 31 63-93 5-37 (432)
54 PF01238 PMI_typeI: Phosphoman 45.3 7.5 0.00016 43.2 0.2 17 574-590 253-269 (373)
55 PF02938 GAD: GAD domain; Int 44.2 7.8 0.00017 34.8 0.1 41 543-593 53-93 (95)
56 KOG2508 Predicted phospholipas 44.1 23 0.0005 39.8 3.6 38 233-270 34-74 (437)
57 PRK11171 hypothetical protein; 42.6 14 0.00031 39.1 1.7 28 568-595 98-125 (266)
58 KOG2583 Ubiquinol cytochrome c 40.3 15 0.00033 41.5 1.7 44 204-248 160-206 (429)
59 PRK01191 rpl24p 50S ribosomal 39.4 12 0.00026 35.8 0.6 41 545-587 18-58 (120)
60 PF09567 RE_MamI: MamI restric 39.2 13 0.00029 39.7 0.9 22 64-85 83-104 (314)
61 KOG3905 Dynein light intermedi 37.9 15 0.00032 41.0 1.0 67 512-588 243-313 (473)
62 PRK10371 DNA-binding transcrip 37.2 24 0.00052 37.7 2.5 34 565-598 58-91 (302)
63 PF05290 Baculo_IE-1: Baculovi 36.8 55 0.0012 32.1 4.6 44 57-100 73-119 (140)
64 PF03107 C1_2: C1 domain; Int 36.4 17 0.00038 26.2 0.9 27 65-91 2-29 (30)
65 PF14446 Prok-RING_1: Prokaryo 36.2 15 0.00033 30.7 0.6 24 59-85 17-44 (54)
66 TIGR03037 anthran_nbaC 3-hydro 36.2 26 0.00056 35.1 2.3 46 569-614 68-113 (159)
67 PRK14892 putative transcriptio 36.0 23 0.00049 32.9 1.8 30 57-86 15-51 (99)
68 KOG4286 Dystrophin-like protei 35.9 15 0.00032 44.4 0.7 34 66-99 606-641 (966)
69 PRK13264 3-hydroxyanthranilate 35.7 27 0.00058 35.5 2.4 63 549-613 55-118 (177)
70 cd02336 ZZ_RSC8 Zinc finger, Z 35.1 20 0.00043 28.7 1.1 32 65-96 2-34 (45)
71 KOG2107 Uncharacterized conser 35.0 34 0.00075 34.6 3.0 55 519-590 80-135 (179)
72 PRK13307 bifunctional formalde 34.7 45 0.00098 37.7 4.2 66 598-672 175-241 (391)
73 PF05899 Cupin_3: Protein of u 33.1 23 0.0005 30.4 1.3 16 573-588 46-61 (74)
74 PF13216 DUF4024: Protein of u 31.9 19 0.00041 27.0 0.4 21 390-410 3-23 (35)
75 PRK11171 hypothetical protein; 31.1 28 0.0006 36.9 1.8 32 565-596 217-248 (266)
76 PF12852 Cupin_6: Cupin 30.5 29 0.00063 34.0 1.7 43 543-595 37-79 (186)
77 TIGR03404 bicupin_oxalic bicup 30.1 51 0.0011 36.8 3.7 53 569-625 108-165 (367)
78 COG0269 SgbH 3-hexulose-6-phos 29.8 65 0.0014 33.8 4.1 52 598-659 6-58 (217)
79 PF08990 Docking: Erythronolid 29.3 32 0.00069 24.9 1.2 17 517-533 3-19 (27)
80 PF02944 BESS: BESS motif; In 28.7 65 0.0014 24.3 2.9 24 20-43 6-29 (37)
81 PRK12380 hydrogenase nickel in 28.3 30 0.00065 32.4 1.3 22 63-84 70-93 (113)
82 TIGR01080 rplX_A_E ribosomal p 28.0 32 0.0007 32.6 1.4 44 544-589 13-56 (114)
83 PRK14559 putative protein seri 26.7 35 0.00075 41.0 1.7 34 59-94 11-50 (645)
84 PF02311 AraC_binding: AraC-li 25.9 43 0.00092 29.5 1.8 45 566-611 36-82 (136)
85 TIGR02297 HpaA 4-hydroxyphenyl 25.5 49 0.0011 34.2 2.4 31 566-596 57-87 (287)
86 PF08271 TF_Zn_Ribbon: TFIIB z 24.7 38 0.00083 26.2 1.1 22 64-85 1-27 (43)
87 PRK15457 ethanolamine utilizat 24.5 42 0.00091 35.5 1.7 47 543-594 170-216 (233)
88 PRK13503 transcriptional activ 24.0 39 0.00084 34.7 1.3 31 566-596 48-78 (278)
89 PRK13501 transcriptional activ 22.1 49 0.0011 34.6 1.6 29 566-594 51-79 (290)
90 PF06249 EutQ: Ethanolamine ut 21.9 62 0.0013 32.2 2.1 21 568-588 110-130 (152)
91 PF12773 DZR: Double zinc ribb 21.5 55 0.0012 25.6 1.4 26 60-85 9-37 (50)
92 PF02318 FYVE_2: FYVE-type zin 20.8 59 0.0013 30.4 1.7 32 63-94 54-88 (118)
No 1
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=100.00 E-value=5.3e-167 Score=1395.32 Aligned_cols=573 Identities=32% Similarity=0.512 Sum_probs=482.5
Q ss_pred CCchhhHHHHH--HHHHHHhhhhhhhchHHhhhHHHHHhhcccccc--ccccccCcccccccCCCCcccccccccCCCCC
Q 005541 9 IPVLDKLQHLY--CLLSAVLPVVKQIHQIQCSEVELEKKLRGNEID--LARAKLSADEQMCCNICRIPIIDYHRHCGNCM 84 (691)
Q Consensus 9 i~~~~k~~~~~--~ll~~lLP~lk~i~~eQ~~E~e~Eaki~g~~~~--i~~a~~~~der~~Cd~C~tsI~D~HRsC~~Cs 84 (691)
....+++..+. |+|...+|+|+.++..|-.+.+.||+|||.... ...+..+++|++|||+|+|||.|+||+||+||
T Consensus 304 ~~~~~~~h~~r~k~~I~~~cpcl~~~~~~~~~~~~~e~~vq~~~~~~~~~~~~~~~~e~~~~~~~~~si~~l~r~cP~~s 383 (889)
T KOG1356|consen 304 LDLSDRVHAVREKFGIKAHCPCLKKQNKQQPLDAETEASVQGTEPTSKPPVTQANPEEPLYCDHCATSIGDLKRSCPDSS 383 (889)
T ss_pred hhHHHHHHHHHHHhhHHhhChhHHhhhhhccccHHHHHHHhcCCCCCCccccccCcCCCccccccccchhhccccCCCcc
Confidence 45678888888 999999999999999999999999999998533 45667777999999999999999999999999
Q ss_pred cchhhhhhHHHhhcccCCCCcccc-cc--ccccccc-chhhhhhhhhhhhccccCCCCcccCCCCCccCCCCCCCCCCCc
Q 005541 85 YDLCLSCCQDLREASTSVGKEEFS-EN--DRIQDTE-NASEQVKTSKLRLNLLEKFPGWKANNDGSIPCPPNEYGGCGYR 160 (691)
Q Consensus 85 ydLCL~CC~elR~g~~~~g~~~~~-~~--~~~~~~~-~~~~~~~~~~~~~~~~~~~~~W~a~~dGsIpCppke~ggCg~~ 160 (691)
|.+||.||++||+|.+..+.+... +. +..+..+ ...+....+.. .... +. ++++||+.|-|...+||+..
T Consensus 384 ~~~~l~~~~~i~~g~l~~~~e~~~~~~~r~~~~~~g~~~~~~~~~s~~---~~~~-~~--~~~ng~~r~l~~~~~g~~~~ 457 (889)
T KOG1356|consen 384 YAICLPWLADLRRGDLKEKEECELMLRSRGVKYEHGPDPIEPSLSSVS---VDEP-SS--ANENGSLRDLLLSLAGCLDR 457 (889)
T ss_pred ccccchHHHHhhcCCcccchhHHHHHHHHHHHhhcCccccccccCCCC---CCCC-cc--cccccchhhcccccCccchh
Confidence 999999999999998766553221 11 1100000 00000000000 0001 12 88899999999999999999
Q ss_pred ccccccccccchHHHHHHHHHHHHhcCCCccCCccc-CCCCCCcccccccccCCCCCCceeccCccccccccHHHHHHhh
Q 005541 161 SLNLSRIFKMNWVAKLVKNVEEMVSGCKVCDSETLL-NTGSYDHSLCQYAHREDRDGNFLYCPSSHDIRSEGIGNFRKHW 239 (691)
Q Consensus 161 ~L~L~~if~~~~is~L~~~aee~~~~c~~~~~~~~~-~~~~~~~~~~~aa~re~s~dn~lYcP~~~d~~~~~l~hFQ~hW 239 (691)
.|.|+|++|..|.+.|+..||.-+...-..-..... .+....+.++++|.|+.+.|||||||.+.+++.+||.|||+||
T Consensus 458 ~l~lkr~lpn~~~s~i~~~vE~k~~~~~~~~~l~~~~~~~~~~~~~~s~~~~~~~cdn~Ll~l~~d~~~~~n~~~FQEhW 537 (889)
T KOG1356|consen 458 GLKLKRILPNILDSIIASVVENKLTSKLSKPPLRLCRSSQDGSGLLLSAASHSWLCDNRLLSLKVDPLNQNNLKHFQEHW 537 (889)
T ss_pred hhhhhhcCchHHHHHHHHHHHhhcccccCCchhhcCccccccccCccccCCCCcCCCCceecCccCccchhHHHHHHHHH
Confidence 999999999999999999999988641111111111 1111223578999999999999999999899999999999999
Q ss_pred hcCCCEEEecccccCCCCCCChhhhhhhhhhhcccccccccCceeEEeCCCCCeeecchhhhccccCCCcccCCCCceee
Q 005541 240 VKGEPVIVKQVCDSSSMSIWDPKDIWRGIRETADEKTKDENRIVKAIDCLDWSEVDIELGEFIKGYSEGRVREDGWPEML 319 (691)
Q Consensus 240 ~kGePVIVr~Vl~~~s~lsW~P~~mwr~~~e~~~~~~~~~~~~v~aidCl~~~ev~i~i~~Ff~Gy~~gr~~~~g~p~mL 319 (691)
++|||||||||++++++++|+||+|||+|++.-..-..-.+.++.++||++ ++.+||.||++|+++++|||+||
T Consensus 538 kqGqPViVs~V~~~l~g~lW~P~a~~~~~g~q~~~l~n~~~~~i~s~d~~~------~fwegFe~~~kr~~~~~g~p~vL 611 (889)
T KOG1356|consen 538 KQGQPVIVSGVHKKLNGLLWKPEALSRAFGDQVVDLSNCNNSQIISNDCVD------NFWEGFEGYSKRLKSENGWPEVL 611 (889)
T ss_pred hcCCcEEehHhhhhccccccchHHHHHHhccchhhhhcCCCCCccccchhh------hHHHhhcccccCcccccCCeeEE
Confidence 999999999999999999999999999998865433333455566777776 68999999999999999999999
Q ss_pred eecCCCCcchhHHhhhccchHHHhcCCcccccCCCCccchhcccCCCCCCCCCCCCcccccccccccccCCCCcceeeee
Q 005541 320 KLKDWPSPSASEEFLLYHKPEFISKLPLLEYIHSRLGFLNVAAKLPHYSLQNDVGPKIYMSYGTYEELDRGNSVKNLHFN 399 (691)
Q Consensus 320 KLKDWPps~~Fee~lP~h~~efi~~LP~~EYt~pr~G~LNLAskLP~~~lkPDLGPK~YIAYG~~eelGrGdSvTkLH~D 399 (691)
|||||||+++|+++||+||+|||++|||||||| |+|+||||++||.+|++||||||||||||+++++||||||||||||
T Consensus 612 KLKDWpp~~~Fkd~lP~r~eell~sLPlpEYt~-r~G~LNlAs~LP~~fv~PDLGPk~y~AYG~~~e~gr~~gtTnLH~d 690 (889)
T KOG1356|consen 612 KLKDWPPGEDFKDMLPRRFEELLASLPLPEYTD-RDGKLNLASKLPEGFVRPDLGPKLYNAYGVSTELGRGDGTTNLHLD 690 (889)
T ss_pred eecCCCchHhHhhhhhHHHHHHHHcCCchhhhc-CCCccchHhhCcccccCCCCCchhhhhccccccccCCCCceeecee
Confidence 999999999999999999999999999999999 8999999999999999999999999999999999999999999999
Q ss_pred cccccchhhccccccCCCchhhHhhhccccccccccCCCCCccCCCCCCCCCCCCCCCCCcccccccccchhhhhhhcCc
Q 005541 400 MPDMVYLLVHMGEVKLPTTEDEKIQSSSRESEVNESVGDPEKVSGEGSFPDLSLGGHDVNNEHVEKSATDEDEIMEDQGV 479 (691)
Q Consensus 400 mSDAVNIL~h~~ev~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~g~ 479 (691)
|||||||||||++++.... .|++++++... |++.++..
T Consensus 691 vSDaVNILvyv~e~~~~~~---~~~~~~k~~~~-------------~~~de~~~-------------------------- 728 (889)
T KOG1356|consen 691 VSDAVNILVYVGEPPGQIE---QIAKVLKKIQE-------------GDLDEITR-------------------------- 728 (889)
T ss_pred hhhhhhheeeeccCCchHH---hHHHHHHhhhh-------------cchhhhhh--------------------------
Confidence 9999999999999987444 44444332221 11111100
Q ss_pred ccccccccccccccccCCCCCCCCCCCceeEEEecCCChHHHHHHHHHHHhhcCCCCCCCCCcccCCCCCcceeeCHHHH
Q 005541 480 ETGTAEEKTVKSERLNGYSDVSEKTHPGAHWDVFRRQDVPKLIEYLREHWTDFGRPDGVTNDFVTHPLYGEVVYLNGDHK 559 (691)
Q Consensus 480 ~~~~~~~~~~~~~~~~~~~~~~~~~~~GAlWdIFrreDv~KLreyL~kh~~Ef~~~~~~~~~~v~hPIHDQ~fYLt~~hk 559 (691)
.+. .+..+.+||||||||||||||||+||+||++||||. +.+|+||||||+||||.+||
T Consensus 729 ------------~~~-----~~~~e~~GALWhIF~~~Dv~KireyL~k~~~E~~~~----~~~v~hPIhDQS~YLd~~lr 787 (889)
T KOG1356|consen 729 ------------SRI-----SSVSETPGALWHIFRAQDVPKIREYLRKVCKEQGHE----VPKVHHPIHDQSWYLDRYLR 787 (889)
T ss_pred ------------hhc-----cccccCCcchhhhhhhcchHHHHHHHHHhhHHhcCC----CCcccCCCcccceeccHHHH
Confidence 000 034578999999999999999999999999999994 34589999999999999999
Q ss_pred HHHHHHhCceeeEEEeecCceEEecCCCccccccccccceeeccccCCcCHHHHHHHHHHHhcCCCchhhhhhhhhhhhH
Q 005541 560 RKLKEEFGVEPWSFEQHLGEAVFIPAGCPFQVRNLQSTVQLGLDFLFPESVGEAVRLAEEIRCLPNDHEAKLQVLEVGKI 639 (691)
Q Consensus 560 ~kLkeEyGVepWtf~Q~lGEAVFIPAGCPHQVRNLkSCIKVAlDFVSPEnV~ec~rLteEfR~Lp~~H~~K~d~Levkkm 639 (691)
+|||||||||||||+|+||||||||||||||||||+||||||+||||||||.||+|||+|||+||++|.+++||||||+|
T Consensus 788 ~RLkeEyGVe~WtfvQ~LGdAVfIPAGaPHQVrNLkSCikVa~DFVSPE~v~ec~rLT~EfR~Lp~~h~~~eDKLqvK~m 867 (889)
T KOG1356|consen 788 RRLKEEYGVEPWTFVQFLGDAVFIPAGAPHQVRNLKSCIKVAEDFVSPEHVSECFRLTQEFRQLPQNHKNHEDKLQVKNM 867 (889)
T ss_pred HHHHHHhCCCccchhhcccceEEecCCCcHHhhhhhhHHHHHHhhCChhhHHHHHHHHHHHhhCCCcccchHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhccC
Q 005541 640 SLYAASSAIKEVQKLVLD 657 (691)
Q Consensus 640 ~lya~~~avke~~~l~~~ 657 (691)
++||+..||++|+.+..+
T Consensus 868 i~hAVk~Av~~L~~~~s~ 885 (889)
T KOG1356|consen 868 IYHAVKDAVGTLKEAESS 885 (889)
T ss_pred HHHHHHHHHHHHHHhhcc
Confidence 999999999999987653
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=99.51 E-value=7.4e-15 Score=130.92 Aligned_cols=83 Identities=27% Similarity=0.466 Sum_probs=62.9
Q ss_pred CceeEEEecCCChHHHHHHHHHHHhhcCCCCCCCCCcccCC--CCCcceeeCHHHHHHHHHHhCceeeEEEeecCceEEe
Q 005541 506 PGAHWDVFRRQDVPKLIEYLREHWTDFGRPDGVTNDFVTHP--LYGEVVYLNGDHKRKLKEEFGVEPWSFEQHLGEAVFI 583 (691)
Q Consensus 506 ~GAlWdIFrreDv~KLreyL~kh~~Ef~~~~~~~~~~v~hP--IHDQ~fYLt~~hk~kLkeEyGVepWtf~Q~lGEAVFI 583 (691)
+..+|-+++++|.+|+++++++.. . ..+| ++.+...+.++. ..+.||+.|+|+|++||+|||
T Consensus 30 ~~k~W~~v~~~~~~~~~~~~~~~~--~----------~~~~~~~~~~~~~~~p~~----l~~~gi~~~~~~Q~~Ge~V~i 93 (114)
T PF02373_consen 30 GSKVWYIVPPEDADKFEKFLRSKE--S----------QNCPQFLDHKNIFVSPEQ----LKKAGIPVYRFVQKPGEFVFI 93 (114)
T ss_dssp SEEEEEEE-GGGHHHHHHHHHHHH--H----------HHSTTGGCTGGEEEGHHH----HHHTTS--EEEEEETT-EEEE
T ss_pred cceEeEEechhhhhhHHHHHhhcc--c----------ccccccccccccccceee----eeccCcccccceECCCCEEEE
Confidence 346999999999999999999761 1 1223 344555555443 678999999999999999999
Q ss_pred cCCCccccccccccceeeccc
Q 005541 584 PAGCPFQVRNLQSTVQLGLDF 604 (691)
Q Consensus 584 PAGCPHQVRNLkSCIKVAlDF 604 (691)
|+|++|||.|+-.||++|.+|
T Consensus 94 ~pg~~H~v~n~g~~i~~a~Nf 114 (114)
T PF02373_consen 94 PPGAYHQVFNLGDNISEAVNF 114 (114)
T ss_dssp -TT-EEEEEESSSEEEEEEEE
T ss_pred CCCceEEEEeCCceEEEEecC
Confidence 999999999999999999998
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=99.09 E-value=1.7e-11 Score=121.97 Aligned_cols=40 Identities=30% Similarity=0.505 Sum_probs=33.3
Q ss_pred eeeEEEeecCceEEecCCCccccccc--cc-cceeeccccCCc
Q 005541 569 EPWSFEQHLGEAVFIPAGCPFQVRNL--QS-TVQLGLDFLFPE 608 (691)
Q Consensus 569 epWtf~Q~lGEAVFIPAGCPHQVRNL--kS-CIKVAlDFVSPE 608 (691)
.+|++++.+||++|||+|..|||+|| .. ||.|...|.+|.
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
>KOG2131 consensus Uncharacterized conserved protein, contains JmjC domain [Chromatin structure and dynamics; Signal transduction mechanisms]
Probab=97.80 E-value=3e-05 Score=84.04 Aligned_cols=93 Identities=20% Similarity=0.307 Sum_probs=69.7
Q ss_pred ceeEEEecCCChHHHHHHHHHHHhhcCCCCCCCCCcccCCCCCcceeeCHHHHHHHHHHhCceeeEEEeecCceEEecCC
Q 005541 507 GAHWDVFRRQDVPKLIEYLREHWTDFGRPDGVTNDFVTHPLYGEVVYLNGDHKRKLKEEFGVEPWSFEQHLGEAVFIPAG 586 (691)
Q Consensus 507 GAlWdIFrreDv~KLreyL~kh~~Ef~~~~~~~~~~v~hPIHDQ~fYLt~~hk~kLkeEyGVepWtf~Q~lGEAVFIPAG 586 (691)
-.-|=+|.+++..+|++-+- ....+... |. -.++.+.+.++.|.+||+||+|.|
T Consensus 230 ~KrWl~~pP~qe~~l~dr~g----nlp~~~~~-------~~---------------ld~~~~~~lei~Qepge~VFvPsG 283 (427)
T KOG2131|consen 230 RKRWLLYPPEQEQTLADRYG----NLPLPSWI-------TK---------------LDLFRGPLLEIFQEPGETVFVPSG 283 (427)
T ss_pred ceeEEEeChHHhhhhhhhcc----CcCCcccc-------cc---------------ccccccchhhhhccCCceeeccCc
Confidence 34799999999999988552 11111111 11 235666678999999999999999
Q ss_pred CccccccccccceeeccccCCcCHHHHHH-HHHHHhcCCC
Q 005541 587 CPFQVRNLQSTVQLGLDFLFPESVGEAVR-LAEEIRCLPN 625 (691)
Q Consensus 587 CPHQVRNLkSCIKVAlDFVSPEnV~ec~r-LteEfR~Lp~ 625 (691)
.=|||-||-.+|.|...++--=|+..=.+ |-+++..+.+
T Consensus 284 W~hQV~NL~dTISINHNW~N~~nl~~~w~~Lk~~y~a~~e 323 (427)
T KOG2131|consen 284 WHHQVLNLGDTISINHNWCNATNLAWMWDALKEDYPALAE 323 (427)
T ss_pred cccccccccceeeecccccccccHHHHHHHHHhhhhhhhh
Confidence 99999999999999999999999887776 3445555444
No 5
>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=97.01 E-value=0.00039 Score=56.14 Aligned_cols=54 Identities=33% Similarity=0.448 Sum_probs=43.0
Q ss_pred HHHhcCCcccccCCCCccchhcccCCCCCCCCCCCCcccccccccccccCCCCcceeeeecccccchhhccc
Q 005541 340 EFISKLPLLEYIHSRLGFLNVAAKLPHYSLQNDVGPKIYMSYGTYEELDRGNSVKNLHFNMPDMVYLLVHMG 411 (691)
Q Consensus 340 efi~~LP~~EYt~pr~G~LNLAskLP~~~lkPDLGPK~YIAYG~~eelGrGdSvTkLH~DmSDAVNIL~h~~ 411 (691)
..+..||+ .+||+.+++.....|+. +|+.+|. .+|+|.+|+|+.|.||++.+.+
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 34567777 68999999988887777 6666665 3789999999999999887643
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=95.79 E-value=0.005 Score=48.16 Aligned_cols=30 Identities=40% Similarity=0.893 Sum_probs=27.9
Q ss_pred cccCCCCcccccccccCCCC-CcchhhhhhH
Q 005541 64 MCCNICRIPIIDYHRHCGNC-MYDLCLSCCQ 93 (691)
Q Consensus 64 ~~Cd~C~tsI~D~HRsC~~C-sydLCL~CC~ 93 (691)
+.||.|+++|..+.=.|..| .||||..|-.
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 7999999975
No 7
>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=94.76 E-value=0.016 Score=46.27 Aligned_cols=29 Identities=34% Similarity=0.960 Sum_probs=27.3
Q ss_pred ccCCCCccccc-ccccCCCC-CcchhhhhhH
Q 005541 65 CCNICRIPIID-YHRHCGNC-MYDLCLSCCQ 93 (691)
Q Consensus 65 ~Cd~C~tsI~D-~HRsC~~C-sydLCL~CC~ 93 (691)
.||+|...|.. ++=.|..| .||||+.|-.
T Consensus 2 ~Cd~C~~~~~~g~r~~C~~C~d~dLC~~Cf~ 32 (49)
T cd02335 2 HCDYCSKDITGTIRIKCAECPDFDLCLECFS 32 (49)
T ss_pred CCCCcCCCCCCCcEEECCCCCCcchhHHhhh
Confidence 59999999999 88899999 9999999987
No 8
>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=94.72 E-value=0.017 Score=45.45 Aligned_cols=32 Identities=38% Similarity=0.879 Sum_probs=29.0
Q ss_pred ccCCCCcccccccccCCCCC-cchhhhhhHHHh
Q 005541 65 CCNICRIPIIDYHRHCGNCM-YDLCLSCCQDLR 96 (691)
Q Consensus 65 ~Cd~C~tsI~D~HRsC~~Cs-ydLCL~CC~elR 96 (691)
.||.|..+|...+=+|..|. ||||..|-.+-.
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 999999987543
No 9
>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=94.71 E-value=0.018 Score=45.70 Aligned_cols=30 Identities=40% Similarity=1.074 Sum_probs=27.7
Q ss_pred cccCCCC-cccccccccCCCC-CcchhhhhhH
Q 005541 64 MCCNICR-IPIIDYHRHCGNC-MYDLCLSCCQ 93 (691)
Q Consensus 64 ~~Cd~C~-tsI~D~HRsC~~C-sydLCL~CC~ 93 (691)
+.||.|+ .+|+-+.=.|..| .||||..|-.
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 7999999987
No 10
>KOG2130 consensus Phosphatidylserine-specific receptor PtdSerR, contains JmjC domain [Chromatin structure and dynamics; Signal transduction mechanisms]
Probab=94.31 E-value=0.025 Score=61.09 Aligned_cols=60 Identities=25% Similarity=0.357 Sum_probs=48.9
Q ss_pred ceeeCHHHHHHH---HHHhCceeeEEEeecCceEEecCCCccccccccccceeeccccCCcCHHH
Q 005541 551 VVYLNGDHKRKL---KEEFGVEPWSFEQHLGEAVFIPAGCPFQVRNLQSTVQLGLDFLFPESVGE 612 (691)
Q Consensus 551 ~fYLt~~hk~kL---keEyGVepWtf~Q~lGEAVFIPAGCPHQVRNLkSCIKVAlDFVSPEnV~e 612 (691)
+||-+-.-|-+| -+||. |-...|++||.||||.|.=|=|-||.-.|-|++.|+|=||.+-
T Consensus 242 twf~~~y~rt~~Pswp~E~k--PIEc~q~pGEt~fVP~GWWHvVlNle~TIAiTqNf~s~eNf~~ 304 (407)
T KOG2130|consen 242 TWFSTIYPRTQLPSWPDEYK--PIECLQKPGETMFVPSGWWHVVLNLEPTIAITQNFASKENFPF 304 (407)
T ss_pred chhhhccccccCCCCccccC--CceeeecCCceEEecCCeEEEEeccCceeeeeeccccccCCce
Confidence 444444444442 34554 8889999999999999999999999999999999999999763
No 11
>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=93.38 E-value=0.037 Score=45.20 Aligned_cols=26 Identities=42% Similarity=0.741 Sum_probs=22.3
Q ss_pred EEEeecCceEEecCCCcccccccccc
Q 005541 572 SFEQHLGEAVFIPAGCPFQVRNLQST 597 (691)
Q Consensus 572 tf~Q~lGEAVFIPAGCPHQVRNLkSC 597 (691)
++.=..||+++||+|++|+++|..+.
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 55557899999999999999998764
No 12
>COG1917 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=92.77 E-value=0.061 Score=49.99 Aligned_cols=55 Identities=24% Similarity=0.369 Sum_probs=42.9
Q ss_pred ccCCCCCcceeeCHHHHHHHHHHhCceeeEEEeecCceEEecCCCcccccccccc--ceeec
Q 005541 543 VTHPLYGEVVYLNGDHKRKLKEEFGVEPWSFEQHLGEAVFIPAGCPFQVRNLQST--VQLGL 602 (691)
Q Consensus 543 v~hPIHDQ~fYLt~~hk~kLkeEyGVepWtf~Q~lGEAVFIPAGCPHQVRNLkSC--IKVAl 602 (691)
-.||-++|.+|...-. =+|.++.=+++=+.||.|+||||.+|-+.|..+. +.+++
T Consensus 59 H~hp~~~~~~~Vl~G~-----~~~~~~g~~~~l~~Gd~i~ip~g~~H~~~a~~~~~~~~l~v 115 (131)
T COG1917 59 HTHPLGEQTIYVLEGE-----GTVQLEGEKKELKAGDVIIIPPGVVHGLKAVEDEPMVLLLV 115 (131)
T ss_pred ccCCCcceEEEEEecE-----EEEEecCCceEecCCCEEEECCCCeeeeccCCCCceeEEEE
Confidence 3689889999998763 2344445556667899999999999999999999 55544
No 13
>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=92.61 E-value=0.069 Score=42.51 Aligned_cols=31 Identities=32% Similarity=0.924 Sum_probs=27.6
Q ss_pred cccCCCCc-ccccccccCCCCC-cchhhhhhHH
Q 005541 64 MCCNICRI-PIIDYHRHCGNCM-YDLCLSCCQD 94 (691)
Q Consensus 64 ~~Cd~C~t-sI~D~HRsC~~Cs-ydLCL~CC~e 94 (691)
|-||.|.+ +|+-..-.|..|. ||||..|-..
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 9999999765
No 14
>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=92.53 E-value=0.052 Score=42.85 Aligned_cols=34 Identities=38% Similarity=0.822 Sum_probs=26.7
Q ss_pred cccccCCCCc-ccccccccCCCCC-cchhhhhhHHH
Q 005541 62 EQMCCNICRI-PIIDYHRHCGNCM-YDLCLSCCQDL 95 (691)
Q Consensus 62 er~~Cd~C~t-sI~D~HRsC~~Cs-ydLCL~CC~el 95 (691)
..+.||.|++ +|.-..-+|..|. ||||..|-.+-
T Consensus 3 ~~~~C~~C~~~~i~g~Ry~C~~C~d~dLC~~C~~~g 38 (46)
T PF00569_consen 3 HGYTCDGCGTDPIIGVRYHCLVCPDYDLCEDCFSKG 38 (46)
T ss_dssp SSCE-SSS-SSSEESSEEEESSSSS-EEEHHHHHH-
T ss_pred CCeECcCCCCCcCcCCeEECCCCCCCchhhHHHhCc
Confidence 3578999999 9999999999998 99999998763
No 15
>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=92.35 E-value=0.071 Score=42.86 Aligned_cols=31 Identities=39% Similarity=0.937 Sum_probs=28.0
Q ss_pred ccCCCCc-ccccccccCCCCC---cchhhhhhHHH
Q 005541 65 CCNICRI-PIIDYHRHCGNCM---YDLCLSCCQDL 95 (691)
Q Consensus 65 ~Cd~C~t-sI~D~HRsC~~Cs---ydLCL~CC~el 95 (691)
-||+|.. +|+.+.-.|..|. ||||..|-..-
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 9999999999998 99999998743
No 16
>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=91.05 E-value=0.12 Score=40.34 Aligned_cols=36 Identities=36% Similarity=0.824 Sum_probs=30.6
Q ss_pred ccccCCCCcccccccccCCCC-CcchhhhhhHHHhhc
Q 005541 63 QMCCNICRIPIIDYHRHCGNC-MYDLCLSCCQDLREA 98 (691)
Q Consensus 63 r~~Cd~C~tsI~D~HRsC~~C-sydLCL~CC~elR~g 98 (691)
.+.||.|..+|....=.|..| .||||..|-.+-|.+
T Consensus 4 ~~~C~~C~~~i~g~ry~C~~C~d~dlC~~Cf~~~~~~ 40 (44)
T smart00291 4 SYSCDTCGKPIVGVRYHCLVCPDYDLCQSCFAKGSAG 40 (44)
T ss_pred CcCCCCCCCCCcCCEEECCCCCCccchHHHHhCcCcC
Confidence 357999999999998899999 899999998854443
No 17
>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=90.84 E-value=0.13 Score=41.28 Aligned_cols=32 Identities=34% Similarity=0.811 Sum_probs=27.8
Q ss_pred cccCCCCc-ccccccccCCCC-CcchhhhhhHHH
Q 005541 64 MCCNICRI-PIIDYHRHCGNC-MYDLCLSCCQDL 95 (691)
Q Consensus 64 ~~Cd~C~t-sI~D~HRsC~~C-sydLCL~CC~el 95 (691)
+.||+|+. +|.-++-.|..| .||||+.|-..-
T Consensus 1 ~~C~~C~~~~i~g~R~~C~~C~dydLC~~Cf~~~ 34 (49)
T cd02345 1 LSCSACRKQDISGIRFPCQVCRDYSLCLGCYTKG 34 (49)
T ss_pred CcCCCCCCCCceEeeEECCCCCCcCchHHHHhCC
Confidence 36999998 999998899988 499999998743
No 18
>COG0662 {ManC} Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=90.55 E-value=0.18 Score=47.32 Aligned_cols=40 Identities=30% Similarity=0.446 Sum_probs=30.3
Q ss_pred eeEEEeecCceEEecCCCccccccccccceeeccccCCcC
Q 005541 570 PWSFEQHLGEAVFIPAGCPFQVRNLQSTVQLGLDFLFPES 609 (691)
Q Consensus 570 pWtf~Q~lGEAVFIPAGCPHQVRNLkSCIKVAlDFVSPEn 609 (691)
.=.++=+.||+|+||||.||.++|.-+.-=+.++=-+|+.
T Consensus 74 ~~~~~v~~gd~~~iP~g~~H~~~N~G~~~L~liei~~p~~ 113 (127)
T COG0662 74 GEEVEVKAGDSVYIPAGTPHRVRNTGKIPLVLIEVQSPPY 113 (127)
T ss_pred CEEEEecCCCEEEECCCCcEEEEcCCCcceEEEEEecCCc
Confidence 5667778999999999999999999984433344334544
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=90.08 E-value=0.15 Score=40.91 Aligned_cols=31 Identities=29% Similarity=0.745 Sum_probs=27.2
Q ss_pred cccCCCC-cccccccccCCCC-CcchhhhhhHH
Q 005541 64 MCCNICR-IPIIDYHRHCGNC-MYDLCLSCCQD 94 (691)
Q Consensus 64 ~~Cd~C~-tsI~D~HRsC~~C-sydLCL~CC~e 94 (691)
+.||.|+ .+|.-..-.|..| .||||..|-..
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 8999888888888 69999999873
No 20
>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=89.82 E-value=0.17 Score=39.34 Aligned_cols=29 Identities=38% Similarity=1.051 Sum_probs=25.0
Q ss_pred ccCCCCcccccccccCCCC-CcchhhhhhHH
Q 005541 65 CCNICRIPIIDYHRHCGNC-MYDLCLSCCQD 94 (691)
Q Consensus 65 ~Cd~C~tsI~D~HRsC~~C-sydLCL~CC~e 94 (691)
-||.|.. |+--.+.|..| .||||..|-..
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 3999988 66799999999 89999999764
No 21
>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=87.64 E-value=0.27 Score=51.71 Aligned_cols=31 Identities=13% Similarity=0.211 Sum_probs=24.8
Q ss_pred HhCceeeEEEeecCceEEecCCCcccccccc
Q 005541 565 EFGVEPWSFEQHLGEAVFIPAGCPFQVRNLQ 595 (691)
Q Consensus 565 EyGVepWtf~Q~lGEAVFIPAGCPHQVRNLk 595 (691)
.|.+..=...=..||+|||||||||+..|.-
T Consensus 212 ~~~~~g~~~~V~~GD~i~i~~~~~h~~~~~G 242 (260)
T TIGR03214 212 VYNLDNNWVPVEAGDYIWMGAYCPQACYAGG 242 (260)
T ss_pred EEEECCEEEEecCCCEEEECCCCCEEEEecC
Confidence 3455555666678999999999999999974
No 22
>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=85.55 E-value=0.48 Score=38.30 Aligned_cols=33 Identities=45% Similarity=1.023 Sum_probs=27.4
Q ss_pred cccCCCCc-ccccccccCCCCC-cchhhhhhHHHh
Q 005541 64 MCCNICRI-PIIDYHRHCGNCM-YDLCLSCCQDLR 96 (691)
Q Consensus 64 ~~Cd~C~t-sI~D~HRsC~~Cs-ydLCL~CC~elR 96 (691)
+-||.|+. +|.-+.-.|..|. ||||..|-..-+
T Consensus 1 ~~Cd~C~~~pi~g~RykC~~C~d~DLC~~Cf~~g~ 35 (49)
T cd02334 1 AKCNICKEFPITGFRYRCLKCFNYDLCQSCFFSGR 35 (49)
T ss_pred CCCCCCCCCCceeeeEECCCCCCcCchHHHHhCCC
Confidence 46999995 7999988898884 999999987543
No 23
>PRK09943 DNA-binding transcriptional repressor PuuR; Provisional
Probab=84.07 E-value=0.78 Score=45.35 Aligned_cols=60 Identities=13% Similarity=0.140 Sum_probs=44.9
Q ss_pred ccCCCCCcceeeCHHHHHHHHHHhCceeeEEEeecCceEEecCCCccccccccccceeeccccCCc
Q 005541 543 VTHPLYGEVVYLNGDHKRKLKEEFGVEPWSFEQHLGEAVFIPAGCPFQVRNLQSTVQLGLDFLFPE 608 (691)
Q Consensus 543 v~hPIHDQ~fYLt~~hk~kLkeEyGVepWtf~Q~lGEAVFIPAGCPHQVRNLkSCIKVAlDFVSPE 608 (691)
..||- ++.+|+-.-. =++-|..=++.-..||.++||||.||..+|..++-=+++-+++|-
T Consensus 124 ~~h~~-~E~~~Vl~G~-----~~~~~~~~~~~l~~Gd~~~~~~~~~H~~~n~~~~~~~~l~~~~p~ 183 (185)
T PRK09943 124 IKHQG-EEIGTVLEGE-----IVLTINGQDYHLVAGQSYAINTGIPHSFSNTSAGICRIISAHTPT 183 (185)
T ss_pred cccCC-cEEEEEEEeE-----EEEEECCEEEEecCCCEEEEcCCCCeeeeCCCCCCeEEEEEeCCC
Confidence 34543 5666665542 235566777888999999999999999999987766777777774
No 24
>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=83.75 E-value=0.67 Score=37.53 Aligned_cols=31 Identities=26% Similarity=0.577 Sum_probs=25.3
Q ss_pred cccCCCCcccccccccCCCCC-cchhhhhhHH
Q 005541 64 MCCNICRIPIIDYHRHCGNCM-YDLCLSCCQD 94 (691)
Q Consensus 64 ~~Cd~C~tsI~D~HRsC~~Cs-ydLCL~CC~e 94 (691)
+.||.|...|.-+.-.|-.|. ||||.+|-..
T Consensus 1 i~CdgC~~~~~~~RykCl~C~d~DlC~~Cf~~ 32 (48)
T cd02343 1 ISCDGCDEIAPWHRYRCLQCTDMDLCKTCFLG 32 (48)
T ss_pred CCCCCCCCcCCCceEECCCCCCchhHHHHHhC
Confidence 359999988887777787774 9999999863
No 25
>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=83.30 E-value=0.55 Score=33.76 Aligned_cols=27 Identities=33% Similarity=0.894 Sum_probs=12.8
Q ss_pred ccCCCCccccc-ccccCCCCCcchhhhh
Q 005541 65 CCNICRIPIID-YHRHCGNCMYDLCLSC 91 (691)
Q Consensus 65 ~Cd~C~tsI~D-~HRsC~~CsydLCL~C 91 (691)
.|+.|+.+|.. +.=+|+.|.|+|.+.|
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 8888999999999987
No 26
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=82.39 E-value=0.55 Score=56.43 Aligned_cols=37 Identities=22% Similarity=0.731 Sum_probs=32.3
Q ss_pred CcccccccCCCCcccccccccCCCCCcchhhhhhHHH
Q 005541 59 SADEQMCCNICRIPIIDYHRHCGNCMYDLCLSCCQDL 95 (691)
Q Consensus 59 ~~der~~Cd~C~tsI~D~HRsC~~CsydLCL~CC~el 95 (691)
....|-.|+.|-|++|+||-.|++|.+-+||.|=+--
T Consensus 225 ~~g~~~mC~~C~~tlfn~hw~C~~C~~~~Cl~C~r~~ 261 (889)
T KOG1356|consen 225 VKGIREMCDRCETTLFNIHWRCPRCGFGVCLDCYRKW 261 (889)
T ss_pred ccCcchhhhhhcccccceeEEccccCCeeeecchhhc
Confidence 3456788999999999999999999999999886643
No 27
>PRK13290 ectC L-ectoine synthase; Reviewed
Probab=82.23 E-value=0.92 Score=43.03 Aligned_cols=37 Identities=8% Similarity=-0.059 Sum_probs=27.2
Q ss_pred eeEEEeecCceEEecCCCccccccccccceeeccccCCc
Q 005541 570 PWSFEQHLGEAVFIPAGCPFQVRNLQSTVQLGLDFLFPE 608 (691)
Q Consensus 570 pWtf~Q~lGEAVFIPAGCPHQVRNLkSCIKVAlDFVSPE 608 (691)
.=++.=..||+++||||-||+.+|...|.=++. ++|.
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 344556789999999999999999865554443 5553
No 28
>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=79.08 E-value=1.2 Score=43.72 Aligned_cols=22 Identities=32% Similarity=0.640 Sum_probs=19.5
Q ss_pred ecCceEEecCCCcccccccccc
Q 005541 576 HLGEAVFIPAGCPFQVRNLQST 597 (691)
Q Consensus 576 ~lGEAVFIPAGCPHQVRNLkSC 597 (691)
..||.|+||+|+.|++.|.-+.
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 5699999999999999998654
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=78.88 E-value=1 Score=48.30 Aligned_cols=15 Identities=27% Similarity=0.793 Sum_probs=13.7
Q ss_pred ecCceEEecCCCccc
Q 005541 576 HLGEAVFIPAGCPFQ 590 (691)
Q Consensus 576 ~lGEAVFIPAGCPHQ 590 (691)
+.||+||||||.||=
T Consensus 156 ~~Gd~i~ipaGt~HA 170 (302)
T TIGR00218 156 KPGDFFYVPSGTPHA 170 (302)
T ss_pred CCCCEEEeCCCCccc
Confidence 469999999999996
No 30
>COG4101 Predicted mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=77.49 E-value=2.1 Score=40.96 Aligned_cols=25 Identities=36% Similarity=0.586 Sum_probs=22.6
Q ss_pred EEEeecCceEEecCCCccccccccc
Q 005541 572 SFEQHLGEAVFIPAGCPFQVRNLQS 596 (691)
Q Consensus 572 tf~Q~lGEAVFIPAGCPHQVRNLkS 596 (691)
+.+-..||...||+|.|||--||.+
T Consensus 89 ha~~~pGDf~YiPpgVPHqp~N~S~ 113 (142)
T COG4101 89 HAEVGPGDFFYIPPGVPHQPANLST 113 (142)
T ss_pred eEEecCCCeEEcCCCCCCcccccCC
Confidence 5677899999999999999999974
No 31
>PRK15131 mannose-6-phosphate isomerase; Provisional
Probab=76.83 E-value=1.2 Score=49.68 Aligned_cols=17 Identities=35% Similarity=0.532 Sum_probs=14.9
Q ss_pred EeecCceEEecCCCccc
Q 005541 574 EQHLGEAVFIPAGCPFQ 590 (691)
Q Consensus 574 ~Q~lGEAVFIPAGCPHQ 590 (691)
.=++|||+|||||.||=
T Consensus 240 ~l~pGeaifipAg~~HA 256 (389)
T PRK15131 240 KLNPGEAMFLFAETPHA 256 (389)
T ss_pred EeCCCCEEEeCCCCCeE
Confidence 34689999999999997
No 32
>PRK04190 glucose-6-phosphate isomerase; Provisional
Probab=74.47 E-value=2.3 Score=43.29 Aligned_cols=42 Identities=21% Similarity=0.301 Sum_probs=31.1
Q ss_pred eeeEEEeecCceEEecCCCccccccccccceeeccccCCcCHH
Q 005541 569 EPWSFEQHLGEAVFIPAGCPFQVRNLQSTVQLGLDFLFPESVG 611 (691)
Q Consensus 569 epWtf~Q~lGEAVFIPAGCPHQVRNLkSCIKVAlDFVSPEnV~ 611 (691)
+.+.+.=..||+|+||+|..|++.|.-+.-=+.+- +.|...+
T Consensus 118 ~~~~~~v~pGd~v~IPpg~~H~~iN~G~epl~fl~-v~p~~~~ 159 (191)
T PRK04190 118 EARWIEMEPGTVVYVPPYWAHRSVNTGDEPLVFLA-CYPADAG 159 (191)
T ss_pred cEEEEEECCCCEEEECCCCcEEeEECCCCCEEEEE-EEcCCcc
Confidence 37889999999999999999999998755433333 3444333
No 33
>KOG4582 consensus Uncharacterized conserved protein, contains ZZ-type Zn-finger [General function prediction only]
Probab=73.16 E-value=1.8 Score=46.45 Aligned_cols=31 Identities=32% Similarity=0.766 Sum_probs=27.6
Q ss_pred cccCCCCc-ccccccccCCCCC-cchhhhhhHH
Q 005541 64 MCCNICRI-PIIDYHRHCGNCM-YDLCLSCCQD 94 (691)
Q Consensus 64 ~~Cd~C~t-sI~D~HRsC~~Cs-ydLCL~CC~e 94 (691)
+-||+|.+ .|+-.--.|.-|. ||||-.|=..
T Consensus 153 v~CD~C~~~~IvG~RyKC~~C~dYDLCe~Ce~~ 185 (278)
T KOG4582|consen 153 VPCDNCGKPGIVGARYKCTVCPDYDLCERCEAG 185 (278)
T ss_pred ccCCCccCCccccceeeecCCCccchhHHhhcC
Confidence 77999999 9999888898884 9999999764
No 34
>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=72.98 E-value=2.2 Score=33.91 Aligned_cols=31 Identities=29% Similarity=0.608 Sum_probs=26.2
Q ss_pred cccCCCC-cccccccccCCCC-CcchhhhhhHH
Q 005541 64 MCCNICR-IPIIDYHRHCGNC-MYDLCLSCCQD 94 (691)
Q Consensus 64 ~~Cd~C~-tsI~D~HRsC~~C-sydLCL~CC~e 94 (691)
+-||.|. .||+-+--.|..| .||||-.|-.+
T Consensus 1 I~CDgCg~~PI~G~RykC~~C~dyDLC~~C~~~ 33 (43)
T cd02342 1 IQCDGCGVLPITGPRYKSKVKEDYDLCTICFSR 33 (43)
T ss_pred CCCCCCCCCcccccceEeCCCCCCccHHHHhhh
Confidence 3599999 5999999999876 69999999763
No 35
>COG1482 ManA Phosphomannose isomerase [Carbohydrate transport and metabolism]
Probab=70.78 E-value=2.1 Score=46.68 Aligned_cols=21 Identities=38% Similarity=0.657 Sum_probs=17.2
Q ss_pred EEeecCceEEecCCCcccccc
Q 005541 573 FEQHLGEAVFIPAGCPFQVRN 593 (691)
Q Consensus 573 f~Q~lGEAVFIPAGCPHQVRN 593 (691)
+.=++|||+|||||.||=.-.
T Consensus 160 v~lkpGe~~fl~Agt~HA~~~ 180 (312)
T COG1482 160 VKLKPGEAFFLPAGTPHAYLK 180 (312)
T ss_pred EecCCCCEEEecCCCceeecc
Confidence 455789999999999997433
No 36
>PLN02288 mannose-6-phosphate isomerase
Probab=67.78 E-value=2.6 Score=47.30 Aligned_cols=16 Identities=31% Similarity=0.524 Sum_probs=14.4
Q ss_pred eecCceEEecCCCccc
Q 005541 575 QHLGEAVFIPAGCPFQ 590 (691)
Q Consensus 575 Q~lGEAVFIPAGCPHQ 590 (691)
=.+|||||||||.||=
T Consensus 255 L~PGeaifl~ag~~HA 270 (394)
T PLN02288 255 LNPGEALYLGANEPHA 270 (394)
T ss_pred cCCCCEEEecCCCCce
Confidence 3589999999999996
No 37
>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=66.91 E-value=5 Score=38.05 Aligned_cols=38 Identities=26% Similarity=0.370 Sum_probs=26.5
Q ss_pred EEEee----cCceEEecCCCccccccc--cccceeecccc-CCcC
Q 005541 572 SFEQH----LGEAVFIPAGCPFQVRNL--QSTVQLGLDFL-FPES 609 (691)
Q Consensus 572 tf~Q~----lGEAVFIPAGCPHQVRNL--kSCIKVAlDFV-SPEn 609 (691)
.+.|. .||.++||+|.||=+.|. .+.+.++.=+. +|++
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 45555 899999999999999999 56666655444 3434
No 38
>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=65.53 E-value=3.2 Score=47.25 Aligned_cols=31 Identities=16% Similarity=0.214 Sum_probs=25.2
Q ss_pred ceeeEEEeecCceEEecCCCccccccccccc
Q 005541 568 VEPWSFEQHLGEAVFIPAGCPFQVRNLQSTV 598 (691)
Q Consensus 568 VepWtf~Q~lGEAVFIPAGCPHQVRNLkSCI 598 (691)
+..=++.=..||.|+||+|.||+.+|.-+.-
T Consensus 412 ~dg~~~~l~~GDsi~ip~~~~H~~~N~g~~~ 442 (468)
T TIGR01479 412 IGDETLLLTENESTYIPLGVIHRLENPGKIP 442 (468)
T ss_pred ECCEEEEecCCCEEEECCCCcEEEEcCCCCC
Confidence 4455666789999999999999999987643
No 39
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=63.14 E-value=3.7 Score=28.84 Aligned_cols=25 Identities=32% Similarity=0.596 Sum_probs=22.0
Q ss_pred ccccCCCCcccccccccCCCCCcch
Q 005541 63 QMCCNICRIPIIDYHRHCGNCMYDL 87 (691)
Q Consensus 63 r~~Cd~C~tsI~D~HRsC~~CsydL 87 (691)
.++|.+|.+.|-+=.|-||+|...|
T Consensus 2 ~~~Cp~Cg~~~~~~~~fC~~CG~~L 26 (26)
T PF13248_consen 2 EMFCPNCGAEIDPDAKFCPNCGAKL 26 (26)
T ss_pred cCCCcccCCcCCcccccChhhCCCC
Confidence 4789999999999999999998754
No 40
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=60.03 E-value=4.5 Score=27.91 Aligned_cols=23 Identities=35% Similarity=0.647 Sum_probs=20.3
Q ss_pred ccCCCCcccccccccCCCCCcch
Q 005541 65 CCNICRIPIIDYHRHCGNCMYDL 87 (691)
Q Consensus 65 ~Cd~C~tsI~D~HRsC~~CsydL 87 (691)
||.+|...|-|=.+-|++|...|
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~~l 23 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGTPL 23 (23)
T ss_pred CCcccCCCCCCcCcchhhhCCcC
Confidence 69999999999999999998764
No 41
>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=59.15 E-value=7.2 Score=42.23 Aligned_cols=39 Identities=18% Similarity=0.296 Sum_probs=30.1
Q ss_pred eEEEeecCceEEecCCCccccccccccceeeccccCCcC
Q 005541 571 WSFEQHLGEAVFIPAGCPFQVRNLQSTVQLGLDFLFPES 609 (691)
Q Consensus 571 Wtf~Q~lGEAVFIPAGCPHQVRNLkSCIKVAlDFVSPEn 609 (691)
..|+=.+||..+||.|++|++.....|+.+++-|..|=-
T Consensus 176 ~~~~L~pGD~LYlPrG~~H~~~~~~~S~hltv~~~~~t~ 214 (319)
T PF08007_consen 176 EEVVLEPGDVLYLPRGWWHQAVTTDPSLHLTVGFRAPTW 214 (319)
T ss_dssp EEEEE-TT-EEEE-TT-EEEEEESS-EEEEEEEECCEBH
T ss_pred EEEEECCCCEEEECCCccCCCCCCCCceEEEEeeeCCch
Confidence 357778999999999999999999999999999988843
No 42
>PRK15460 cpsB mannose-1-phosphate guanyltransferase; Provisional
Probab=56.50 E-value=6.3 Score=45.39 Aligned_cols=30 Identities=17% Similarity=0.173 Sum_probs=23.8
Q ss_pred CceeeEEEeecCceEEecCCCccccccccc
Q 005541 567 GVEPWSFEQHLGEAVFIPAGCPFQVRNLQS 596 (691)
Q Consensus 567 GVepWtf~Q~lGEAVFIPAGCPHQVRNLkS 596 (691)
.|..=++.=..||.|+||+|.||+.+|.-+
T Consensus 420 ~idg~~~~L~~GDSi~ip~g~~H~~~N~g~ 449 (478)
T PRK15460 420 TIDGDIKLLGENESIYIPLGATHCLENPGK 449 (478)
T ss_pred EECCEEEEecCCCEEEECCCCcEEEEcCCC
Confidence 344444555789999999999999999854
No 43
>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=54.38 E-value=11 Score=35.86 Aligned_cols=58 Identities=17% Similarity=0.270 Sum_probs=37.3
Q ss_pred cCCCCCcceeeCHHH-HHHHHHHhCceeeEEEeecCceEEecCCCcccccccc--ccceee
Q 005541 544 THPLYGEVVYLNGDH-KRKLKEEFGVEPWSFEQHLGEAVFIPAGCPFQVRNLQ--STVQLG 601 (691)
Q Consensus 544 ~hPIHDQ~fYLt~~h-k~kLkeEyGVepWtf~Q~lGEAVFIPAGCPHQVRNLk--SCIKVA 601 (691)
.||-.++-+|+-... +-.+-++.|=+-+++.-..||+++||+|-+|+..|.- .+.-++
T Consensus 47 ~H~~~~e~~~Vl~G~~~~~~~~~~~~~~~~~~l~~GD~~~ip~g~~H~~~n~~~~~~~~l~ 107 (146)
T smart00835 47 YHPRATELLYVVRGEGRVGVVDPNGNKVYDARLREGDVFVVPQGHPHFQVNSGDENLEFVA 107 (146)
T ss_pred eCCCCCEEEEEEeCeEEEEEEeCCCCeEEEEEecCCCEEEECCCCEEEEEcCCCCCEEEEE
Confidence 455455667755431 2112222223567888999999999999999999974 344443
No 44
>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=53.94 E-value=7.4 Score=38.71 Aligned_cols=41 Identities=27% Similarity=0.415 Sum_probs=24.6
Q ss_pred cceeeCHHHHHHHHHHhCceeeEEEeecCceEEecCCCcccccccc
Q 005541 550 EVVYLNGDHKRKLKEEFGVEPWSFEQHLGEAVFIPAGCPFQVRNLQ 595 (691)
Q Consensus 550 Q~fYLt~~hk~kLkeEyGVepWtf~Q~lGEAVFIPAGCPHQVRNLk 595 (691)
.+.||...+ ++|.-+|=.|.=..+.-.-||.+++|||.|-.
T Consensus 75 GTl~l~~~~-----~~~pG~pqef~~~pnSTf~IPvn~~HQv~NT~ 115 (167)
T PF02041_consen 75 GTLYLASSH-----EKYPGKPQEFPIFPNSTFHIPVNDAHQVWNTN 115 (167)
T ss_dssp EEEEE--SS-----SSS--S-EEEEE-TTEEEEE-TT--EEEE---
T ss_pred eEEEEeccc-----ccCCCCceEEEecCCCeEEeCCCCcceeecCC
Confidence 456777443 47999999999999999999999999999965
No 45
>PTZ00194 60S ribosomal protein L26; Provisional
Probab=53.51 E-value=5.5 Score=39.10 Aligned_cols=43 Identities=14% Similarity=0.244 Sum_probs=38.3
Q ss_pred cCCCCCcceeeCHHHHHHHHHHhCceeeEEEeecCceEEecCCCc
Q 005541 544 THPLYGEVVYLNGDHKRKLKEEFGVEPWSFEQHLGEAVFIPAGCP 588 (691)
Q Consensus 544 ~hPIHDQ~fYLt~~hk~kLkeEyGVepWtf~Q~lGEAVFIPAGCP 588 (691)
.-|+|...-.+.+.+=+.|+++|||..|.| +-||-|.|=+|=.
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 348999999999999999999999999987 7799999988864
No 46
>PRK13305 sgbH 3-keto-L-gulonate-6-phosphate decarboxylase; Provisional
Probab=53.27 E-value=12 Score=38.76 Aligned_cols=62 Identities=24% Similarity=0.268 Sum_probs=45.9
Q ss_pred ceeeccccCCcCHHHHHHHHHHHhcCCCchhhhhhhhhhhhHHHHHH-HHHHHHHHHhccCCCCCcccCCCCc
Q 005541 598 VQLGLDFLFPESVGEAVRLAEEIRCLPNDHEAKLQVLEVGKISLYAA-SSAIKEVQKLVLDPKLGAELGFEDP 669 (691)
Q Consensus 598 IKVAlDFVSPEnV~ec~rLteEfR~Lp~~H~~K~d~Levkkm~lya~-~~avke~~~l~~~p~~~~~~~~~~~ 669 (691)
+.||+|+.+.+ ++++|++++... .+.++|+.-.+|+. ..+|++|++.+.+=+.=+++.|-|-
T Consensus 6 livALD~~~~~---~A~~l~~~l~~~-------v~~iKVG~~L~~~~G~~~i~~lk~~~~~~~IflDlKl~DI 68 (218)
T PRK13305 6 LQLALDHTSLE---AAQRDVTLLKDH-------VDIVEAGTILCLNEGLGAVKALREQCPDKIIVADWKVADA 68 (218)
T ss_pred EEEEeCCCCHH---HHHHHHHHcccc-------CCEEEECHHHHHHhCHHHHHHHHHhCCCCEEEEEeecccC
Confidence 78999999887 999999887633 47899999999987 7789999986532223344444443
No 47
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=52.15 E-value=6.1 Score=43.75 Aligned_cols=34 Identities=35% Similarity=0.935 Sum_probs=27.7
Q ss_pred cccccccCCCCcccccccc-cCCCCC-cchhhhhhH
Q 005541 60 ADEQMCCNICRIPIIDYHR-HCGNCM-YDLCLSCCQ 93 (691)
Q Consensus 60 ~der~~Cd~C~tsI~D~HR-sC~~Cs-ydLCL~CC~ 93 (691)
--|+|-||.|..--|-|.| .|-.|+ ||||-+|--
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 4589999999777777666 588886 999999965
No 48
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=52.02 E-value=5.5 Score=45.17 Aligned_cols=32 Identities=31% Similarity=0.906 Sum_probs=28.4
Q ss_pred cccccCCCCccccccc-ccCCCCC-cchhhhhhH
Q 005541 62 EQMCCNICRIPIIDYH-RHCGNCM-YDLCLSCCQ 93 (691)
Q Consensus 62 er~~Cd~C~tsI~D~H-RsC~~Cs-ydLCL~CC~ 93 (691)
+.-.||+|..-|-+.- -.|-.|- |||||-|..
T Consensus 13 ~ky~C~~C~~dit~~i~ikCaeCp~fdLCl~CFs 46 (438)
T KOG0457|consen 13 GKYNCDYCSLDITGLIRIKCAECPDFDLCLQCFS 46 (438)
T ss_pred CCCCCccHhHHhccceEEEeecCCCcchhHHHHh
Confidence 4567999999999865 7999999 999999986
No 49
>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=51.34 E-value=10 Score=42.14 Aligned_cols=80 Identities=16% Similarity=0.238 Sum_probs=47.5
Q ss_pred cCCCCCcceeeCHH-HHHHHHHHhCceeeEEEeecCceEEecCCCccccccccccceeeccccCCcCHHHHHHHHHHHhc
Q 005541 544 THPLYGEVVYLNGD-HKRKLKEEFGVEPWSFEQHLGEAVFIPAGCPFQVRNLQSTVQLGLDFLFPESVGEAVRLAEEIRC 622 (691)
Q Consensus 544 ~hPIHDQ~fYLt~~-hk~kLkeEyGVepWtf~Q~lGEAVFIPAGCPHQVRNLkSCIKVAlDFVSPEnV~ec~rLteEfR~ 622 (691)
.||--+..+|+-.- -+..+-..-| ..-++.=..||++|||+|.+|.++|.-+--=+-+-+.+....+.- .|++=+..
T Consensus 262 ~H~~~~E~~yvl~G~~~~~v~d~~g-~~~~~~l~~GD~~~iP~g~~H~i~N~G~e~l~fL~if~s~~~~~i-~l~~~l~~ 339 (367)
T TIGR03404 262 WHPNADEWQYFIQGQARMTVFAAGG-NARTFDYQAGDVGYVPRNMGHYVENTGDETLVFLEVFKADRFADV-SLNQWLAL 339 (367)
T ss_pred eCcCCCeEEEEEEEEEEEEEEecCC-cEEEEEECCCCEEEECCCCeEEEEECCCCCEEEEEEECCCCCcee-EHHHHHhh
Confidence 46665665555433 2222111111 356677789999999999999999998644334444333333222 26666666
Q ss_pred CCC
Q 005541 623 LPN 625 (691)
Q Consensus 623 Lp~ 625 (691)
+|.
T Consensus 340 ~p~ 342 (367)
T TIGR03404 340 TPP 342 (367)
T ss_pred CCH
Confidence 765
No 50
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=50.99 E-value=9.6 Score=27.15 Aligned_cols=23 Identities=26% Similarity=0.772 Sum_probs=20.6
Q ss_pred ccCCCCcccccccccCCCCCcch
Q 005541 65 CCNICRIPIIDYHRHCGNCMYDL 87 (691)
Q Consensus 65 ~Cd~C~tsI~D~HRsC~~CsydL 87 (691)
.|..|..-|-.--+.||.|.|++
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCC
Confidence 48899999999999999999974
No 51
>PRK13306 ulaD 3-keto-L-gulonate-6-phosphate decarboxylase; Provisional
Probab=50.34 E-value=17 Score=37.33 Aligned_cols=65 Identities=26% Similarity=0.305 Sum_probs=50.5
Q ss_pred ceeeccccCCcCHHHHHHHHHHHhcCCCchhhhhhhhhhhhHHHHHH-HHHHHHHHHhccCCCCCcccCCCCcchh
Q 005541 598 VQLGLDFLFPESVGEAVRLAEEIRCLPNDHEAKLQVLEVGKISLYAA-SSAIKEVQKLVLDPKLGAELGFEDPNLT 672 (691)
Q Consensus 598 IKVAlDFVSPEnV~ec~rLteEfR~Lp~~H~~K~d~Levkkm~lya~-~~avke~~~l~~~p~~~~~~~~~~~~l~ 672 (691)
+.||+|+.+.| +.++|++++... .+.++|+.-.+++. -..|+++++++.+=+.=+++.+.|..-|
T Consensus 6 l~vALD~~~~~---~a~~l~~~l~~~-------v~~~kvG~~l~~~~G~~~i~~lk~~~~~~~v~~DLK~~Di~~~ 71 (216)
T PRK13306 6 LQIALDNQDLE---SAIEDAKKVAEE-------VDIIEVGTILLLAEGMKAVRVLRALYPDKIIVADTKIADAGKI 71 (216)
T ss_pred EEEEecCCCHH---HHHHHHHHcccc-------CCEEEEChHHHHHhCHHHHHHHHHHCCCCEEEEEEeecCCcHH
Confidence 78999999988 888999887643 47799999999988 6778999987544345577777777633
No 52
>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=49.36 E-value=12 Score=39.63 Aligned_cols=47 Identities=15% Similarity=0.261 Sum_probs=32.9
Q ss_pred CCCCCcceeeCHHHHHHHHHHhCceeeEEEeecCceEEecCCCccccccccc
Q 005541 545 HPLYGEVVYLNGDHKRKLKEEFGVEPWSFEQHLGEAVFIPAGCPFQVRNLQS 596 (691)
Q Consensus 545 hPIHDQ~fYLt~~hk~kLkeEyGVepWtf~Q~lGEAVFIPAGCPHQVRNLkS 596 (691)
|+-.++-+|+-.-- | +.-+..-++.=..||+++||||.||..+|..+
T Consensus 77 ~~g~ee~iyVl~G~---l--~v~~~g~~~~L~~Gd~~y~pa~~~H~~~N~~~ 123 (260)
T TIGR03214 77 GEGIETFLFVISGE---V--NVTAEGETHELREGGYAYLPPGSKWTLANAQA 123 (260)
T ss_pred CCceEEEEEEEeCE---E--EEEECCEEEEECCCCEEEECCCCCEEEEECCC
Confidence 44445566765441 1 12244667777889999999999999999874
No 53
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=49.19 E-value=4.5 Score=44.35 Aligned_cols=31 Identities=32% Similarity=0.976 Sum_probs=26.8
Q ss_pred ccccCCCCcccccc-cccCCCC-CcchhhhhhH
Q 005541 63 QMCCNICRIPIIDY-HRHCGNC-MYDLCLSCCQ 93 (691)
Q Consensus 63 r~~Cd~C~tsI~D~-HRsC~~C-sydLCL~CC~ 93 (691)
...||.|..-|.|. |-+|-.| .||||+-|.-
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 35699999999986 5689999 9999999975
No 54
>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=45.34 E-value=7.5 Score=43.19 Aligned_cols=17 Identities=53% Similarity=0.927 Sum_probs=13.4
Q ss_pred EeecCceEEecCCCccc
Q 005541 574 EQHLGEAVFIPAGCPFQ 590 (691)
Q Consensus 574 ~Q~lGEAVFIPAGCPHQ 590 (691)
.=.+|||+|+|||.||-
T Consensus 253 ~L~pGeaifl~a~~~HA 269 (373)
T PF01238_consen 253 ELQPGEAIFLPAGEPHA 269 (373)
T ss_dssp EE-TT-EEEEHTTHHEE
T ss_pred EecCCceEEecCCCccc
Confidence 34589999999999997
No 55
>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=44.17 E-value=7.8 Score=34.79 Aligned_cols=41 Identities=24% Similarity=0.489 Sum_probs=32.7
Q ss_pred ccCCCCCcceeeCHHHHHHHHHHhCceeeEEEeecCceEEecCCCcccccc
Q 005541 543 VTHPLYGEVVYLNGDHKRKLKEEFGVEPWSFEQHLGEAVFIPAGCPFQVRN 593 (691)
Q Consensus 543 v~hPIHDQ~fYLt~~hk~kLkeEyGVepWtf~Q~lGEAVFIPAGCPHQVRN 593 (691)
+..||-. ||+++.+++|.+.+|.++ ||+||+=||-.+.|++
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 4566633 599999999999999975 9999999999888764
No 56
>KOG2508 consensus Predicted phospholipase [Lipid transport and metabolism]
Probab=44.12 E-value=23 Score=39.76 Aligned_cols=38 Identities=16% Similarity=0.429 Sum_probs=29.5
Q ss_pred HHHHHhhh-cCCCEEEecccccCCCC-CCChh-hhhhhhhh
Q 005541 233 GNFRKHWV-KGEPVIVKQVCDSSSMS-IWDPK-DIWRGIRE 270 (691)
Q Consensus 233 ~hFQ~hW~-kGePVIVr~Vl~~~s~l-sW~P~-~mwr~~~e 270 (691)
.+|=+-|. +..|||+|+.+..=.++ .|.+. ++..+++.
T Consensus 34 l~Fyr~fvs~n~PvIIrkAL~hWpal~lWs~p~Yl~~algd 74 (437)
T KOG2508|consen 34 LDFYRKFVSTNTPVIIRKALPHWPALKLWSQPDYLLSALGD 74 (437)
T ss_pred HHHHHhhhcCCCcEEEecccccCchhhccCchHHHHHhccC
Confidence 56777775 88999999999976676 88887 77666543
No 57
>PRK11171 hypothetical protein; Provisional
Probab=42.59 E-value=14 Score=39.13 Aligned_cols=28 Identities=21% Similarity=0.410 Sum_probs=23.4
Q ss_pred ceeeEEEeecCceEEecCCCcccccccc
Q 005541 568 VEPWSFEQHLGEAVFIPAGCPFQVRNLQ 595 (691)
Q Consensus 568 VepWtf~Q~lGEAVFIPAGCPHQVRNLk 595 (691)
+..=++.=..||.|+||+|.||+.+|..
T Consensus 98 ~~g~~~~L~~GDsi~~p~~~~H~~~N~g 125 (266)
T PRK11171 98 LEGKTHALSEGGYAYLPPGSDWTLRNAG 125 (266)
T ss_pred ECCEEEEECCCCEEEECCCCCEEEEECC
Confidence 3344666778999999999999999976
No 58
>KOG2583 consensus Ubiquinol cytochrome c reductase, subunit QCR2 [Energy production and conversion]
Probab=40.34 E-value=15 Score=41.49 Aligned_cols=44 Identities=39% Similarity=0.603 Sum_probs=38.3
Q ss_pred ccccccccCCCCCCceeccC--ccccccccHHHH-HHhhhcCCCEEEe
Q 005541 204 SLCQYAHREDRDGNFLYCPS--SHDIRSEGIGNF-RKHWVKGEPVIVK 248 (691)
Q Consensus 204 ~~~~aa~re~s~dn~lYcP~--~~d~~~~~l~hF-Q~hW~kGePVIVr 248 (691)
++-+||.|. +-.|-||||. +.-+...+|.+| ++|..+|.-|+|.
T Consensus 160 ~lH~aAfRn-gLgnslY~p~~~vg~vss~eL~~Fa~k~fv~gn~~lvg 206 (429)
T KOG2583|consen 160 QLHAAAFRN-GLGNSLYSPGYQVGSVSSSELKDFAAKHFVKGNAVLVG 206 (429)
T ss_pred HHHHHHHhc-ccCCcccCCcccccCccHHHHHHHHHHHhhccceEEEe
Confidence 567899997 8899999996 778888999999 6899999999884
No 59
>PRK01191 rpl24p 50S ribosomal protein L24P; Validated
Probab=39.43 E-value=12 Score=35.79 Aligned_cols=41 Identities=20% Similarity=0.374 Sum_probs=34.8
Q ss_pred CCCCCcceeeCHHHHHHHHHHhCceeeEEEeecCceEEecCCC
Q 005541 545 HPLYGEVVYLNGDHKRKLKEEFGVEPWSFEQHLGEAVFIPAGC 587 (691)
Q Consensus 545 hPIHDQ~fYLt~~hk~kLkeEyGVepWtf~Q~lGEAVFIPAGC 587 (691)
-|.|...-.+.+.+=+.|+++|||..|.+ +.||-|.|=||-
T Consensus 18 a~~~~r~k~msa~LSkeLr~~y~ir~~~I--kkGD~V~VisG~ 58 (120)
T PRK01191 18 APLHLRQKLMSAPLSKELREKYGIRSLPV--RKGDTVKVMRGD 58 (120)
T ss_pred CCHHHHHHHhcCccCHHHHHHhCCccceE--eCCCEEEEeecC
Confidence 36777777778888889999999999977 589999999985
No 60
>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=39.24 E-value=13 Score=39.71 Aligned_cols=22 Identities=27% Similarity=0.552 Sum_probs=20.0
Q ss_pred cccCCCCcccccccccCCCCCc
Q 005541 64 MCCNICRIPIIDYHRHCGNCMY 85 (691)
Q Consensus 64 ~~Cd~C~tsI~D~HRsC~~Csy 85 (691)
--|+||.+-+.-|..+||+|+.
T Consensus 83 ~~C~~CGa~V~~~e~~Cp~C~S 104 (314)
T PF09567_consen 83 GKCNNCGANVSRLEESCPNCGS 104 (314)
T ss_pred hhhccccceeeehhhcCCCCCc
Confidence 4599999999999999999975
No 61
>KOG3905 consensus Dynein light intermediate chain [Cell motility]
Probab=37.86 E-value=15 Score=41.02 Aligned_cols=67 Identities=21% Similarity=0.293 Sum_probs=34.2
Q ss_pred EecCCChHHHHHHHHHHHhhcCCC--CCCCCC-cccCCCCCcceeeCHHHHHHHHHHhCceeeEEEe-ecCceEEecCCC
Q 005541 512 VFRRQDVPKLIEYLREHWTDFGRP--DGVTND-FVTHPLYGEVVYLNGDHKRKLKEEFGVEPWSFEQ-HLGEAVFIPAGC 587 (691)
Q Consensus 512 IFrreDv~KLreyL~kh~~Ef~~~--~~~~~~-~v~hPIHDQ~fYLt~~hk~kLkeEyGVepWtf~Q-~lGEAVFIPAGC 587 (691)
=||-+-.++|+..|||-|-.+|.. +-+.++ +.+| -.| |=-...-||.---|=-| -.-||||||||.
T Consensus 243 eyrDehfdfiq~~lRkFCLr~GaaLiyTSvKE~KNid-----lly-----KYivhr~yG~~fttpAlVVEkdaVfIPAGW 312 (473)
T KOG3905|consen 243 EYRDEHFDFIQSHLRKFCLRYGAALIYTSVKETKNID-----LLY-----KYIVHRSYGFPFTTPALVVEKDAVFIPAGW 312 (473)
T ss_pred hhhHHHHHHHHHHHHHHHHHcCceeEEeecccccchH-----HHH-----HHHHHHhcCcccCCcceEeecceeEeccCC
Confidence 366677777777777777666542 111111 0111 011 11112346653333222 246999999998
Q ss_pred c
Q 005541 588 P 588 (691)
Q Consensus 588 P 588 (691)
-
T Consensus 313 D 313 (473)
T KOG3905|consen 313 D 313 (473)
T ss_pred C
Confidence 5
No 62
>PRK10371 DNA-binding transcriptional regulator MelR; Provisional
Probab=37.16 E-value=24 Score=37.69 Aligned_cols=34 Identities=15% Similarity=0.158 Sum_probs=28.2
Q ss_pred HhCceeeEEEeecCceEEecCCCccccccccccc
Q 005541 565 EFGVEPWSFEQHLGEAVFIPAGCPFQVRNLQSTV 598 (691)
Q Consensus 565 EyGVepWtf~Q~lGEAVFIPAGCPHQVRNLkSCI 598 (691)
.|-|.+=++.-..||+||||+|.||+......|-
T Consensus 58 ~~~i~g~~~~l~~Gd~ili~s~~~H~~~~~~~~~ 91 (302)
T PRK10371 58 EYLINNEKVQINQGHITLFWACTPHQLTDPGNCR 91 (302)
T ss_pred EEEECCEEEEEcCCcEEEEecCCcccccccCCCc
Confidence 4667788889999999999999999987666554
No 63
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=36.82 E-value=55 Score=32.12 Aligned_cols=44 Identities=25% Similarity=0.557 Sum_probs=36.2
Q ss_pred ccCcccccc-cCCCCcccccccccCCC--CCcchhhhhhHHHhhccc
Q 005541 57 KLSADEQMC-CNICRIPIIDYHRHCGN--CMYDLCLSCCQDLREAST 100 (691)
Q Consensus 57 ~~~~der~~-Cd~C~tsI~D~HRsC~~--CsydLCL~CC~elR~g~~ 100 (691)
.+..|..+| ||.|+-.=.|=|--=|+ |.|.+|-.||-.|=+-..
T Consensus 73 nvF~d~~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~ 119 (140)
T PF05290_consen 73 NVFLDPKLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCN 119 (140)
T ss_pred eeecCCCceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcc
Confidence 334445888 99999999998877776 999999999999977664
No 64
>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=36.39 E-value=17 Score=26.20 Aligned_cols=27 Identities=33% Similarity=1.021 Sum_probs=22.4
Q ss_pred ccCCCCcccccc-cccCCCCCcchhhhh
Q 005541 65 CCNICRIPIIDY-HRHCGNCMYDLCLSC 91 (691)
Q Consensus 65 ~Cd~C~tsI~D~-HRsC~~CsydLCL~C 91 (691)
-|+.|...+-.+ -=+|..|.|.|-+.|
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~c~f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCSECCFTLHVRC 29 (30)
T ss_pred CCCCCCCCcCCCEeEEeCCCCCeEcCcc
Confidence 388888888888 888988889888776
No 65
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=36.22 E-value=15 Score=30.65 Aligned_cols=24 Identities=38% Similarity=1.009 Sum_probs=20.1
Q ss_pred CcccccccCCCCcccccccccCC----CCCc
Q 005541 59 SADEQMCCNICRIPIIDYHRHCG----NCMY 85 (691)
Q Consensus 59 ~~der~~Cd~C~tsI~D~HRsC~----~Csy 85 (691)
+.|+.|.|.-|.|| |||.|- .|++
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 46888999999998 899995 5665
No 66
>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=36.21 E-value=26 Score=35.07 Aligned_cols=46 Identities=11% Similarity=0.187 Sum_probs=40.2
Q ss_pred eeeEEEeecCceEEecCCCccccccccccceeeccccCCcCHHHHH
Q 005541 569 EPWSFEQHLGEAVFIPAGCPFQVRNLQSTVQLGLDFLFPESVGEAV 614 (691)
Q Consensus 569 epWtf~Q~lGEAVFIPAGCPHQVRNLkSCIKVAlDFVSPEnV~ec~ 614 (691)
+..++.=..||..+||+|.||..+--..||=+.+.=.+|++...++
T Consensus 68 ~~~~v~L~eGd~flvP~gvpHsP~r~~~t~~LvIE~~r~~~~~d~~ 113 (159)
T TIGR03037 68 KREDVPIREGDIFLLPPHVPHSPQRPAGSIGLVIERKRPQGELDGF 113 (159)
T ss_pred cEEEEEECCCCEEEeCCCCCcccccCCCcEEEEEEeCCCCCCCcce
Confidence 3567888999999999999999888999999999999998877643
No 67
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=35.98 E-value=23 Score=32.85 Aligned_cols=30 Identities=27% Similarity=0.384 Sum_probs=23.9
Q ss_pred ccCcccccccCCCCccccc-------ccccCCCCCcc
Q 005541 57 KLSADEQMCCNICRIPIID-------YHRHCGNCMYD 86 (691)
Q Consensus 57 ~~~~der~~Cd~C~tsI~D-------~HRsC~~Csyd 86 (691)
....+--.-|.+|....+. .|+.|++|.|-
T Consensus 15 k~klpt~f~CP~Cge~~v~v~~~k~~~h~~C~~CG~y 51 (99)
T PRK14892 15 KPKLPKIFECPRCGKVSISVKIKKNIAIITCGNCGLY 51 (99)
T ss_pred ccCCCcEeECCCCCCeEeeeecCCCcceEECCCCCCc
Confidence 4444566789999987777 79999999983
No 68
>KOG4286 consensus Dystrophin-like protein [Cell motility; Signal transduction mechanisms; Cytoskeleton]
Probab=35.91 E-value=15 Score=44.43 Aligned_cols=34 Identities=41% Similarity=0.849 Sum_probs=0.0
Q ss_pred cCCCCc-ccccccccCCCCC-cchhhhhhHHHhhcc
Q 005541 66 CNICRI-PIIDYHRHCGNCM-YDLCLSCCQDLREAS 99 (691)
Q Consensus 66 Cd~C~t-sI~D~HRsC~~Cs-ydLCL~CC~elR~g~ 99 (691)
|+.||- +|+-|.-.|-.|. ||||++|.--=|.|.
T Consensus 606 CniCk~~pIvG~RyR~l~~fn~dlCq~CF~sgraak 641 (966)
T KOG4286|consen 606 CNICKECPIIGFRYRSLKHFNYDICQSCFFSGRAAK 641 (966)
T ss_pred cchhhhCccceeeeeehhhcChhHHhhHhhhccccc
No 69
>PRK13264 3-hydroxyanthranilate 3,4-dioxygenase; Provisional
Probab=35.73 E-value=27 Score=35.55 Aligned_cols=63 Identities=22% Similarity=0.313 Sum_probs=47.3
Q ss_pred Cccee-eCHHHHHHHHHHhCceeeEEEeecCceEEecCCCccccccccccceeeccccCCcCHHHH
Q 005541 549 GEVVY-LNGDHKRKLKEEFGVEPWSFEQHLGEAVFIPAGCPFQVRNLQSTVQLGLDFLFPESVGEA 613 (691)
Q Consensus 549 DQ~fY-Lt~~hk~kLkeEyGVepWtf~Q~lGEAVFIPAGCPHQVRNLkSCIKVAlDFVSPEnV~ec 613 (691)
|..|| |.-+++-++.+ +=+..++.=+.||..+||+|.||..+.-..||-+.+.=..|+..-.+
T Consensus 55 dE~FyqleG~~~l~v~d--~g~~~~v~L~eGd~fllP~gvpHsP~r~~~tv~LviE~~r~~~~~d~ 118 (177)
T PRK13264 55 EEFFYQLEGDMYLKVQE--DGKRRDVPIREGEMFLLPPHVPHSPQREAGSIGLVIERKRPEGELDG 118 (177)
T ss_pred ceEEEEECCeEEEEEEc--CCceeeEEECCCCEEEeCCCCCcCCccCCCeEEEEEEeCCCCCCccc
Confidence 56677 44444434433 22346788899999999999999998899999999988888876553
No 70
>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=35.15 E-value=20 Score=28.66 Aligned_cols=32 Identities=34% Similarity=0.558 Sum_probs=25.0
Q ss_pred ccCCCCcccccccccCCCCC-cchhhhhhHHHh
Q 005541 65 CCNICRIPIIDYHRHCGNCM-YDLCLSCCQDLR 96 (691)
Q Consensus 65 ~Cd~C~tsI~D~HRsC~~Cs-ydLCL~CC~elR 96 (691)
.|+.|..-+...+=+|.++. ||||-.|-.+=|
T Consensus 2 ~C~~Cg~D~t~vryh~~~~~~~dLC~~CF~~G~ 34 (45)
T cd02336 2 HCFTCGNDCTRVRYHNLKAKKYDLCPSCYQEGR 34 (45)
T ss_pred cccCCCCccCceEEEecCCCccccChHHHhCcC
Confidence 48888887777666787776 999999988533
No 71
>KOG2107 consensus Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=35.05 E-value=34 Score=34.61 Aligned_cols=55 Identities=20% Similarity=0.366 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHhhcCCCCCCCCCcccCCCCCcceeeCHHHHHHHHHHhCceeeEEEe-ecCceEEecCCCccc
Q 005541 519 PKLIEYLREHWTDFGRPDGVTNDFVTHPLYGEVVYLNGDHKRKLKEEFGVEPWSFEQ-HLGEAVFIPAGCPFQ 590 (691)
Q Consensus 519 ~KLreyL~kh~~Ef~~~~~~~~~~v~hPIHDQ~fYLt~~hk~kLkeEyGVepWtf~Q-~lGEAVFIPAGCPHQ 590 (691)
+||..|...|. |... .+-=|-+++-|.|.+-+. +-|-=.+ .-||-|+||||.-|-
T Consensus 80 eKvk~FfEEhl----h~de-----eiR~il~GtgYfDVrd~d--------d~WIRi~vekGDlivlPaGiyHR 135 (179)
T KOG2107|consen 80 EKVKSFFEEHL----HEDE-----EIRYILEGTGYFDVRDKD--------DQWIRIFVEKGDLIVLPAGIYHR 135 (179)
T ss_pred HHHHHHHHHhc----Cchh-----heEEEeecceEEeeccCC--------CCEEEEEEecCCEEEecCcceee
Confidence 57777776554 3321 344567888999887653 5675444 469999999999997
No 72
>PRK13307 bifunctional formaldehyde-activating enzyme/3-hexulose-6-phosphate synthase; Provisional
Probab=34.72 E-value=45 Score=37.72 Aligned_cols=66 Identities=20% Similarity=0.185 Sum_probs=48.7
Q ss_pred ceeeccccCCcCHHHHHHHHHHHhcCCCchhhhhhhhhhhhHHHHHH-HHHHHHHHHhccCCCCCcccCCCCcchh
Q 005541 598 VQLGLDFLFPESVGEAVRLAEEIRCLPNDHEAKLQVLEVGKISLYAA-SSAIKEVQKLVLDPKLGAELGFEDPNLT 672 (691)
Q Consensus 598 IKVAlDFVSPEnV~ec~rLteEfR~Lp~~H~~K~d~Levkkm~lya~-~~avke~~~l~~~p~~~~~~~~~~~~l~ 672 (691)
+.||+|+.++| +.+++++++... ..+.++|+.-.+++. -..|++|++...+=.+=+.+.+.|+.-|
T Consensus 175 L~vALD~~~~~---~A~~i~~~l~~~------~~~~iKvG~~L~~~~G~~iVk~Lr~~~~~~~I~~DLK~~Di~~~ 241 (391)
T PRK13307 175 LQVALDLPDLE---EVERVLSQLPKS------DHIIIEAGTPLIKKFGLEVISKIREVRPDAFIVADLKTLDTGNL 241 (391)
T ss_pred EEEecCCCCHH---HHHHHHHhcccc------cceEEEECHHHHHHhCHHHHHHHHHhCCCCeEEEEecccChhhH
Confidence 58999999988 788888776543 124789999999887 6678888886544345677777787744
No 73
>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=33.10 E-value=23 Score=30.37 Aligned_cols=16 Identities=31% Similarity=0.652 Sum_probs=12.3
Q ss_pred EEeecCceEEecCCCc
Q 005541 573 FEQHLGEAVFIPAGCP 588 (691)
Q Consensus 573 f~Q~lGEAVFIPAGCP 588 (691)
..=..||+||||+|..
T Consensus 46 ~~~~aGD~~~~p~G~~ 61 (74)
T PF05899_consen 46 VTFKAGDAFFLPKGWT 61 (74)
T ss_dssp EEEETTEEEEE-TTEE
T ss_pred EEEcCCcEEEECCCCE
Confidence 4447999999999984
No 74
>PF13216 DUF4024: Protein of unknown function (DUF4024)
Probab=31.89 E-value=19 Score=26.95 Aligned_cols=21 Identities=38% Similarity=0.480 Sum_probs=18.1
Q ss_pred CCCcceeeeecccccchhhcc
Q 005541 390 GNSVKNLHFNMPDMVYLLVHM 410 (691)
Q Consensus 390 GdSvTkLH~DmSDAVNIL~h~ 410 (691)
|.|||+||.=--.-||+|.-+
T Consensus 3 glsvt~lhlfrde~vnflfci 23 (35)
T PF13216_consen 3 GLSVTNLHLFRDEKVNFLFCI 23 (35)
T ss_pred ceEEEEEEEeecCCccEEEEe
Confidence 689999999888889998764
No 75
>PRK11171 hypothetical protein; Provisional
Probab=31.13 E-value=28 Score=36.93 Aligned_cols=32 Identities=16% Similarity=0.208 Sum_probs=27.6
Q ss_pred HhCceeeEEEeecCceEEecCCCccccccccc
Q 005541 565 EFGVEPWSFEQHLGEAVFIPAGCPFQVRNLQS 596 (691)
Q Consensus 565 EyGVepWtf~Q~lGEAVFIPAGCPHQVRNLkS 596 (691)
++.+..-++.=..||++++|+++||+.+|.-+
T Consensus 217 ~~~~~~~~~~l~~GD~i~~~~~~~h~~~N~g~ 248 (266)
T PRK11171 217 VYRLNNDWVEVEAGDFIWMRAYCPQACYAGGP 248 (266)
T ss_pred EEEECCEEEEeCCCCEEEECCCCCEEEECCCC
Confidence 46677888888899999999999999999743
No 76
>PF12852 Cupin_6: Cupin
Probab=30.51 E-value=29 Score=34.04 Aligned_cols=43 Identities=21% Similarity=0.337 Sum_probs=27.6
Q ss_pred ccCCCCCcceeeCHHHHHHHHHHhCceeeEEEeecCceEEecCCCcccccccc
Q 005541 543 VTHPLYGEVVYLNGDHKRKLKEEFGVEPWSFEQHLGEAVFIPAGCPFQVRNLQ 595 (691)
Q Consensus 543 v~hPIHDQ~fYLt~~hk~kLkeEyGVepWtf~Q~lGEAVFIPAGCPHQVRNLk 595 (691)
..|=+-..++||...- +-+| +.=..||.||+|.|.||...--.
T Consensus 37 ~fh~V~~G~~~l~~~~--------~~~~--~~L~~GDivllp~g~~H~l~~~~ 79 (186)
T PF12852_consen 37 SFHVVLRGSCWLRVPG--------GGEP--IRLEAGDIVLLPRGTAHVLSSDP 79 (186)
T ss_pred EEEEEECCeEEEEEcC--------CCCe--EEecCCCEEEEcCCCCeEeCCCC
Confidence 4555566667776211 1123 44457999999999999985433
No 77
>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=30.10 E-value=51 Score=36.81 Aligned_cols=53 Identities=15% Similarity=0.313 Sum_probs=35.3
Q ss_pred eeeEEEeecCceEEecCCCccccccccccceeec-----cccCCcCHHHHHHHHHHHhcCCC
Q 005541 569 EPWSFEQHLGEAVFIPAGCPFQVRNLQSTVQLGL-----DFLFPESVGEAVRLAEEIRCLPN 625 (691)
Q Consensus 569 epWtf~Q~lGEAVFIPAGCPHQVRNLkSCIKVAl-----DFVSPEnV~ec~rLteEfR~Lp~ 625 (691)
+.+++.=..||.++||+|.+|-.+|...=..+.. .|-|+..+ .++.=|+.+|.
T Consensus 108 ~~~~~~L~~GD~~~fP~g~~H~~~n~~~~~~~l~vf~~~~f~~~~~~----~~~~~l~~~p~ 165 (367)
T TIGR03404 108 RNYIDDVGAGDLWYFPPGIPHSLQGLDEGCEFLLVFDDGNFSEDGTF----LVTDWLAHTPK 165 (367)
T ss_pred cEEEeEECCCCEEEECCCCeEEEEECCCCeEEEEEeCCcccCCccee----eHHHHHHhCCH
Confidence 4555567899999999999999999864333333 35556532 23444555765
No 78
>COG0269 SgbH 3-hexulose-6-phosphate synthase and related proteins [Carbohydrate transport and metabolism]
Probab=29.79 E-value=65 Score=33.84 Aligned_cols=52 Identities=31% Similarity=0.484 Sum_probs=39.0
Q ss_pred ceeeccccCCcCHHHHHHHHHHHhcCCCchhhhhhhhhhhhHHHHH-HHHHHHHHHHhccCCC
Q 005541 598 VQLGLDFLFPESVGEAVRLAEEIRCLPNDHEAKLQVLEVGKISLYA-ASSAIKEVQKLVLDPK 659 (691)
Q Consensus 598 IKVAlDFVSPEnV~ec~rLteEfR~Lp~~H~~K~d~Levkkm~lya-~~~avke~~~l~~~p~ 659 (691)
++||+|++| +.+.+.++++.-.. .|++||++..+.+ -..||+.|++++.|-.
T Consensus 6 LQvALD~~~---l~~Ai~~a~~v~~~-------~diiEvGTpLik~eG~~aV~~lr~~~pd~~ 58 (217)
T COG0269 6 LQVALDLLD---LEEAIEIAEEVADY-------VDIIEVGTPLIKAEGMRAVRALRELFPDKI 58 (217)
T ss_pred eEeeecccC---HHHHHHHHHHhhhc-------ceEEEeCcHHHHHhhHHHHHHHHHHCCCCe
Confidence 689999986 56667777765432 6999999998844 2379999999886553
No 79
>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=29.32 E-value=32 Score=24.93 Aligned_cols=17 Identities=24% Similarity=0.409 Sum_probs=13.0
Q ss_pred ChHHHHHHHHHHHhhcC
Q 005541 517 DVPKLIEYLREHWTDFG 533 (691)
Q Consensus 517 Dv~KLreyL~kh~~Ef~ 533 (691)
+-+||++||++...|.+
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 45799999999876653
No 80
>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=28.71 E-value=65 Score=24.34 Aligned_cols=24 Identities=21% Similarity=0.347 Sum_probs=19.7
Q ss_pred HHHHHHhhhhhhhchHHhhhHHHH
Q 005541 20 CLLSAVLPVVKQIHQIQCSEVELE 43 (691)
Q Consensus 20 ~ll~~lLP~lk~i~~eQ~~E~e~E 43 (691)
+.+-+++|.+|++...|..+..++
T Consensus 6 ~Fl~Sl~p~~k~L~~~~k~~~k~~ 29 (37)
T PF02944_consen 6 LFLLSLLPHMKRLPPKQKLKFKMK 29 (37)
T ss_pred HHHHHhHHHHHhCCHHHHHHHHHH
Confidence 447889999999999999885544
No 81
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=28.27 E-value=30 Score=32.37 Aligned_cols=22 Identities=27% Similarity=0.558 Sum_probs=17.5
Q ss_pred ccccCCCCc--ccccccccCCCCC
Q 005541 63 QMCCNICRI--PIIDYHRHCGNCM 84 (691)
Q Consensus 63 r~~Cd~C~t--sI~D~HRsC~~Cs 84 (691)
+.+|..|.. ++-+++..||+|.
T Consensus 70 ~~~C~~Cg~~~~~~~~~~~CP~Cg 93 (113)
T PRK12380 70 QAWCWDCSQVVEIHQHDAQCPHCH 93 (113)
T ss_pred EEEcccCCCEEecCCcCccCcCCC
Confidence 688999975 5556777799997
No 82
>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=28.02 E-value=32 Score=32.63 Aligned_cols=44 Identities=23% Similarity=0.282 Sum_probs=38.6
Q ss_pred cCCCCCcceeeCHHHHHHHHHHhCceeeEEEeecCceEEecCCCcc
Q 005541 544 THPLYGEVVYLNGDHKRKLKEEFGVEPWSFEQHLGEAVFIPAGCPF 589 (691)
Q Consensus 544 ~hPIHDQ~fYLt~~hk~kLkeEyGVepWtf~Q~lGEAVFIPAGCPH 589 (691)
.-|+|...-++...+=+.|.++||++.+.| +-||-|-|=+|-=.
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 348999999999999999999999999966 78999999998643
No 83
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=26.74 E-value=35 Score=40.99 Aligned_cols=34 Identities=21% Similarity=0.709 Sum_probs=24.3
Q ss_pred CcccccccCCCCcccccccccCCCCCcc------hhhhhhHH
Q 005541 59 SADEQMCCNICRIPIIDYHRHCGNCMYD------LCLSCCQD 94 (691)
Q Consensus 59 ~~der~~Cd~C~tsI~D~HRsC~~Csyd------LCL~CC~e 94 (691)
+++.--||.+|.+++. +..||+|... .|-.|=..
T Consensus 11 n~~~akFC~~CG~~l~--~~~Cp~CG~~~~~~~~fC~~CG~~ 50 (645)
T PRK14559 11 NPNNNRFCQKCGTSLT--HKPCPQCGTEVPVDEAHCPNCGAE 50 (645)
T ss_pred CCCCCccccccCCCCC--CCcCCCCCCCCCcccccccccCCc
Confidence 3455668888888874 4778888887 67777443
No 84
>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=25.86 E-value=43 Score=29.50 Aligned_cols=45 Identities=16% Similarity=0.239 Sum_probs=27.4
Q ss_pred hCceeeEEEeecCceEEecCCCcccccccc--ccceeeccccCCcCHH
Q 005541 566 FGVEPWSFEQHLGEAVFIPAGCPFQVRNLQ--STVQLGLDFLFPESVG 611 (691)
Q Consensus 566 yGVepWtf~Q~lGEAVFIPAGCPHQVRNLk--SCIKVAlDFVSPEnV~ 611 (691)
+.|..=++.=..||++|||+|.+|...--. .+....+.| +|+-+.
T Consensus 36 ~~~~~~~~~l~~g~~~li~p~~~H~~~~~~~~~~~~~~i~~-~~~~~~ 82 (136)
T PF02311_consen 36 LHIDGQEYPLKPGDLFLIPPGQPHSYYPDSNEPWEYYWIYF-SPDFLE 82 (136)
T ss_dssp EEETTEEEEE-TT-EEEE-TTS-EEEEE-TTSEEEEEEEEE----GGG
T ss_pred EEECCEEEEEECCEEEEecCCccEEEecCCCCCEEEEEEEE-CHHHHH
Confidence 445556677789999999999999988777 676666666 454443
No 85
>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=25.46 E-value=49 Score=34.18 Aligned_cols=31 Identities=6% Similarity=0.119 Sum_probs=24.2
Q ss_pred hCceeeEEEeecCceEEecCCCccccccccc
Q 005541 566 FGVEPWSFEQHLGEAVFIPAGCPFQVRNLQS 596 (691)
Q Consensus 566 yGVepWtf~Q~lGEAVFIPAGCPHQVRNLkS 596 (691)
+.|..=++.=..||+||||+|.+|+++.-.+
T Consensus 57 ~~~~~~~~~l~~g~~~ii~~~~~H~~~~~~~ 87 (287)
T TIGR02297 57 LQLDEHEYSEYAPCFFLTPPSVPHGFVTDLD 87 (287)
T ss_pred EEECCEEEEecCCeEEEeCCCCccccccCCC
Confidence 5555556667799999999999999875443
No 86
>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=24.66 E-value=38 Score=26.16 Aligned_cols=22 Identities=36% Similarity=0.726 Sum_probs=15.1
Q ss_pred cccCCCCcc--cccccc---cCCCCCc
Q 005541 64 MCCNICRIP--IIDYHR---HCGNCMY 85 (691)
Q Consensus 64 ~~Cd~C~ts--I~D~HR---sC~~Csy 85 (691)
|.|.+|..+ ++|+.+ .|++|.+
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 578888886 678665 5677665
No 87
>PRK15457 ethanolamine utilization protein EutQ; Provisional
Probab=24.53 E-value=42 Score=35.55 Aligned_cols=47 Identities=17% Similarity=0.196 Sum_probs=36.7
Q ss_pred ccCCCCCcceeeCHHHHHHHHHHhCceeeEEEeecCceEEecCCCccccccc
Q 005541 543 VTHPLYGEVVYLNGDHKRKLKEEFGVEPWSFEQHLGEAVFIPAGCPFQVRNL 594 (691)
Q Consensus 543 v~hPIHDQ~fYLt~~hk~kLkeEyGVepWtf~Q~lGEAVFIPAGCPHQVRNL 594 (691)
-.|-=|||.+|+-... =++-|.+=++.=..||.+|||.|.+|.-.+-
T Consensus 170 ~wtl~~dEi~YVLEGe-----~~l~IdG~t~~l~pGDvlfIPkGs~~hf~tp 216 (233)
T PRK15457 170 PWTLNYDEIDMVLEGE-----LHVRHEGETMIAKAGDVMFIPKGSSIEFGTP 216 (233)
T ss_pred ceeccceEEEEEEEeE-----EEEEECCEEEEeCCCcEEEECCCCeEEecCC
Confidence 3566678888876553 2467788999999999999999999876443
No 88
>PRK13503 transcriptional activator RhaS; Provisional
Probab=23.96 E-value=39 Score=34.71 Aligned_cols=31 Identities=6% Similarity=0.022 Sum_probs=23.4
Q ss_pred hCceeeEEEeecCceEEecCCCccccccccc
Q 005541 566 FGVEPWSFEQHLGEAVFIPAGCPFQVRNLQS 596 (691)
Q Consensus 566 yGVepWtf~Q~lGEAVFIPAGCPHQVRNLkS 596 (691)
+.|..=++.=..||++|||+|.+|..++...
T Consensus 48 ~~i~~~~~~l~~g~~~~i~~~~~h~~~~~~~ 78 (278)
T PRK13503 48 HVFNGQPYTLSGGTVCFVRDHDRHLYEHTDN 78 (278)
T ss_pred eEecCCcccccCCcEEEECCCccchhhhccC
Confidence 3344445555789999999999998877665
No 89
>PRK13501 transcriptional activator RhaR; Provisional
Probab=22.13 E-value=49 Score=34.60 Aligned_cols=29 Identities=10% Similarity=0.221 Sum_probs=24.0
Q ss_pred hCceeeEEEeecCceEEecCCCccccccc
Q 005541 566 FGVEPWSFEQHLGEAVFIPAGCPFQVRNL 594 (691)
Q Consensus 566 yGVepWtf~Q~lGEAVFIPAGCPHQVRNL 594 (691)
+-|.+-++.=..||.||||+|.+|+++.-
T Consensus 51 ~~i~~~~~~l~~g~~~~I~p~~~H~~~~~ 79 (290)
T PRK13501 51 HVLNDHPYRITCGDVFYIQAADHHSYESV 79 (290)
T ss_pred EEECCeeeeecCCeEEEEcCCCccccccc
Confidence 55677777778999999999999997643
No 90
>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=21.90 E-value=62 Score=32.24 Aligned_cols=21 Identities=24% Similarity=0.613 Sum_probs=15.7
Q ss_pred ceeeEEEeecCceEEecCCCc
Q 005541 568 VEPWSFEQHLGEAVFIPAGCP 588 (691)
Q Consensus 568 VepWtf~Q~lGEAVFIPAGCP 588 (691)
+++=++.=+.||+||||.|.-
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 558899999999999999964
No 91
>PF12773 DZR: Double zinc ribbon
Probab=21.48 E-value=55 Score=25.62 Aligned_cols=26 Identities=27% Similarity=0.654 Sum_probs=17.4
Q ss_pred cccccccCCCCcccc---cccccCCCCCc
Q 005541 60 ADEQMCCNICRIPII---DYHRHCGNCMY 85 (691)
Q Consensus 60 ~der~~Cd~C~tsI~---D~HRsC~~Csy 85 (691)
.++..||.+|.+++. .--..|++|.+
T Consensus 9 ~~~~~fC~~CG~~l~~~~~~~~~C~~Cg~ 37 (50)
T PF12773_consen 9 PDDAKFCPHCGTPLPPPDQSKKICPNCGA 37 (50)
T ss_pred CccccCChhhcCChhhccCCCCCCcCCcC
Confidence 455677888887777 23456777765
No 92
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=20.80 E-value=59 Score=30.41 Aligned_cols=32 Identities=25% Similarity=0.662 Sum_probs=25.5
Q ss_pred ccccCCCCcc---cccccccCCCCCcchhhhhhHH
Q 005541 63 QMCCNICRIP---IIDYHRHCGNCMYDLCLSCCQD 94 (691)
Q Consensus 63 r~~Cd~C~ts---I~D~HRsC~~CsydLCL~CC~e 94 (691)
.-.|-.|.++ +++--+-|..|.+-.|-.|+-.
T Consensus 54 ~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~ 88 (118)
T PF02318_consen 54 ERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY 88 (118)
T ss_dssp CSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE
T ss_pred CcchhhhCCcccccCCCCCcCCcCCccccCccCCc
Confidence 3479999776 6678899999999999999876
Done!