Query 004342
Match_columns 760
No_of_seqs 297 out of 1662
Neff 5.8
Searched_HMMs 46136
Date Thu Mar 28 21:47:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004342.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004342hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1488 Translational represso 100.0 8.7E-70 1.9E-74 604.4 34.1 346 413-759 152-502 (503)
2 cd07920 Pumilio Pumilio-family 100.0 3.1E-56 6.6E-61 479.3 33.0 319 433-752 3-322 (322)
3 PF07990 NABP: Nucleic acid bi 100.0 1.9E-51 4.2E-56 442.5 13.6 325 63-435 34-385 (385)
4 COG5099 RNA-binding protein of 100.0 4.3E-47 9.2E-52 444.3 25.1 320 437-757 438-762 (777)
5 KOG2049 Translational represso 100.0 6.8E-43 1.5E-47 392.5 21.2 313 434-752 212-532 (536)
6 cd07920 Pumilio Pumilio-family 100.0 1.3E-40 2.9E-45 358.0 29.6 299 411-716 15-322 (322)
7 KOG1488 Translational represso 100.0 6.7E-42 1.5E-46 381.5 19.7 269 392-677 221-498 (503)
8 KOG2050 Puf family RNA-binding 100.0 1.2E-39 2.7E-44 360.4 24.8 315 388-755 126-443 (652)
9 COG5099 RNA-binding protein of 100.0 2.1E-29 4.5E-34 295.9 19.8 236 517-758 447-683 (777)
10 KOG2049 Translational represso 100.0 8.2E-30 1.8E-34 287.1 13.8 263 409-673 256-531 (536)
11 KOG2188 Predicted RNA-binding 99.9 4E-25 8.6E-30 247.9 27.1 314 433-752 93-605 (650)
12 KOG2188 Predicted RNA-binding 99.9 1.1E-20 2.5E-25 212.3 22.6 287 467-757 91-574 (650)
13 KOG2050 Puf family RNA-binding 99.9 2.3E-20 5E-25 208.0 24.7 288 463-758 111-408 (652)
14 KOG4574 RNA-binding protein (c 99.6 1.3E-15 2.7E-20 175.0 11.8 290 462-754 533-851 (1007)
15 KOG4574 RNA-binding protein (c 99.3 2E-12 4.3E-17 149.1 5.7 141 537-678 536-676 (1007)
16 PF00806 PUF: Pumilio-family R 98.1 1.3E-06 2.8E-11 64.5 1.6 35 472-506 1-35 (35)
17 smart00025 Pumilio Pumilio-lik 97.6 1.6E-05 3.5E-10 57.7 0.9 32 474-505 3-34 (36)
18 PF00806 PUF: Pumilio-family R 97.6 4.6E-05 1E-09 56.2 2.5 35 436-470 1-35 (35)
19 smart00025 Pumilio Pumilio-lik 97.4 0.00014 3.1E-09 52.7 2.7 34 437-470 2-35 (36)
20 PRK05686 fliG flagellar motor 95.5 3.9 8.5E-05 45.5 23.7 117 630-759 202-327 (339)
21 TIGR00207 fliG flagellar motor 94.6 9.1 0.0002 42.7 23.4 117 630-759 199-324 (338)
22 PRK05686 fliG flagellar motor 92.1 15 0.00032 41.0 19.9 143 450-620 81-228 (339)
23 PF04286 DUF445: Protein of un 91.4 21 0.00046 39.1 20.3 49 644-692 289-339 (367)
24 PF08144 CPL: CPL (NUC119) dom 90.5 0.46 1E-05 46.8 5.3 72 650-721 58-134 (148)
25 COG1536 FliG Flagellar motor s 84.2 78 0.0017 35.6 23.6 14 746-759 314-327 (339)
26 PF08144 CPL: CPL (NUC119) dom 83.2 11 0.00023 37.3 10.2 19 660-678 115-133 (148)
27 KOG1924 RhoA GTPase effector D 82.6 69 0.0015 39.4 17.9 48 471-518 716-763 (1102)
28 PF12231 Rif1_N: Rap1-interact 77.1 1.1E+02 0.0023 34.6 17.0 168 560-740 179-355 (372)
29 COG2733 Predicted membrane pro 76.0 1.5E+02 0.0033 33.9 18.0 35 720-754 334-371 (415)
30 KOG4368 Predicted RNA binding 69.9 1E+02 0.0022 36.7 14.4 27 633-659 165-191 (757)
31 TIGR00207 fliG flagellar motor 69.5 1.9E+02 0.0042 32.3 22.0 55 493-547 48-104 (338)
32 PLN03083 E3 UFM1-protein ligas 67.1 3.2E+02 0.007 34.2 18.6 47 488-538 531-577 (803)
33 PF09770 PAT1: Topoisomerase I 65.3 7.2 0.00016 48.4 4.7 94 440-533 576-695 (808)
34 PRK07194 fliG flagellar motor 59.3 2.9E+02 0.0063 30.8 24.1 14 746-759 308-321 (334)
35 PF05918 API5: Apoptosis inhib 57.0 1.9E+02 0.0041 34.7 14.0 111 641-754 144-271 (556)
36 KOG2213 Apoptosis inhibitor 5/ 53.1 1.4E+02 0.003 34.2 11.4 113 642-755 120-244 (460)
37 KOG1991 Nuclear transport rece 52.7 2.7E+02 0.0058 35.4 14.6 148 517-664 432-600 (1010)
38 PF11573 Med23: Mediator compl 51.7 2.5E+02 0.0054 37.1 14.8 45 647-691 271-315 (1341)
39 KOG2213 Apoptosis inhibitor 5/ 50.7 4.5E+02 0.0097 30.4 16.7 39 639-677 206-244 (460)
40 KOG1086 Cytosolic sorting prot 47.7 5.2E+02 0.011 30.2 15.5 27 666-692 173-202 (594)
41 PF05918 API5: Apoptosis inhib 47.0 4.4E+02 0.0095 31.7 14.9 220 441-664 83-346 (556)
42 PLN03218 maturation of RBCL 1; 46.9 7.8E+02 0.017 32.0 20.5 22 712-733 725-746 (1060)
43 PF11510 FA_FANCE: Fanconi Ana 45.5 3.4E+02 0.0073 29.5 12.6 135 454-606 40-190 (263)
44 PF10508 Proteasom_PSMB: Prote 45.3 5.8E+02 0.012 30.1 20.9 93 416-508 4-100 (503)
45 PRK07194 fliG flagellar motor 45.3 4.8E+02 0.01 29.1 17.7 23 668-690 258-280 (334)
46 PF04286 DUF445: Protein of un 45.0 4.5E+02 0.0097 28.7 18.9 34 707-740 313-346 (367)
47 COG2733 Predicted membrane pro 43.1 3.7E+02 0.0081 30.9 12.8 49 643-692 335-386 (415)
48 KOG0260 RNA polymerase II, lar 42.8 3.8E+02 0.0082 35.0 13.7 8 54-61 1400-1407(1605)
49 COG1536 FliG Flagellar motor s 41.6 5.6E+02 0.012 28.9 19.8 60 667-735 263-323 (339)
50 PF14838 INTS5_C: Integrator c 40.9 4E+02 0.0088 32.8 13.5 136 445-604 111-265 (696)
51 cd03567 VHS_GGA VHS domain fam 40.9 3.6E+02 0.0077 26.4 12.1 74 669-759 60-135 (139)
52 TIGR00400 mgtE Mg2+ transporte 39.1 1.6E+02 0.0036 34.0 9.9 18 492-509 61-78 (449)
53 PF01602 Adaptin_N: Adaptin N 38.7 6.6E+02 0.014 28.9 16.3 264 467-759 109-389 (526)
54 KOG1059 Vesicle coat complex A 37.2 6.3E+02 0.014 31.4 14.1 39 545-583 219-263 (877)
55 PF14666 RICTOR_M: Rapamycin-i 37.0 1.6E+02 0.0035 31.1 8.6 23 577-599 139-161 (226)
56 PF14666 RICTOR_M: Rapamycin-i 36.6 2.1E+02 0.0045 30.3 9.3 80 650-736 139-224 (226)
57 COG1747 Uncharacterized N-term 36.5 8.3E+02 0.018 29.4 17.6 30 516-545 59-88 (711)
58 PF00790 VHS: VHS domain; Int 36.2 2.3E+02 0.005 27.3 8.9 57 703-759 81-140 (140)
59 KOG1248 Uncharacterized conser 36.2 1.1E+03 0.024 30.8 18.1 272 436-734 612-922 (1176)
60 KOG1992 Nuclear export recepto 34.6 1.1E+03 0.023 30.0 18.8 224 498-723 492-755 (960)
61 PF09770 PAT1: Topoisomerase I 34.2 34 0.00074 42.5 3.5 42 476-517 576-617 (808)
62 COG1747 Uncharacterized N-term 31.1 1E+03 0.022 28.7 14.9 25 634-658 227-253 (711)
63 PRK07003 DNA polymerase III su 30.9 3.6E+02 0.0078 33.9 11.1 96 595-692 160-258 (830)
64 KOG1070 rRNA processing protei 30.7 8.5E+02 0.018 32.7 14.4 37 441-477 1448-1488(1710)
65 PF10230 DUF2305: Uncharacteri 30.2 1.4E+02 0.0031 31.9 7.0 46 516-561 88-134 (266)
66 PF11510 FA_FANCE: Fanconi Ana 29.5 7.7E+02 0.017 26.8 12.8 165 490-664 40-214 (263)
67 KOG2160 Armadillo/beta-catenin 28.5 9.1E+02 0.02 27.3 22.1 122 461-606 95-222 (342)
68 PRK07764 DNA polymerase III su 28.4 8.4E+02 0.018 30.8 14.0 26 720-745 326-351 (824)
69 KOG2235 Uncharacterized conser 27.5 1.2E+03 0.026 28.5 15.0 32 57-88 63-94 (776)
70 PF10521 DUF2454: Protein of u 27.2 8.1E+02 0.018 26.4 13.5 53 521-573 95-154 (282)
71 cd03569 VHS_Hrs_Vps27p VHS dom 27.2 5.9E+02 0.013 24.8 13.8 74 668-759 62-136 (142)
72 PF08625 Utp13: Utp13 specific 26.9 6.1E+02 0.013 24.8 11.8 111 635-757 17-128 (141)
73 cd03565 VHS_Tom1 VHS domain fa 26.1 6.2E+02 0.013 24.6 13.3 39 721-759 99-137 (141)
74 PF12231 Rif1_N: Rap1-interact 25.9 9.8E+02 0.021 26.9 16.2 48 627-676 208-255 (372)
75 PF10521 DUF2454: Protein of u 25.8 5.1E+02 0.011 28.0 10.4 83 460-555 107-204 (282)
76 cd03568 VHS_STAM VHS domain fa 25.8 6.4E+02 0.014 24.7 12.8 75 667-759 57-132 (144)
77 PF08625 Utp13: Utp13 specific 25.4 3E+02 0.0064 27.0 7.6 86 631-718 47-138 (141)
78 PF12460 MMS19_C: RNAPII trans 25.1 1E+03 0.023 27.0 18.6 274 452-738 21-330 (415)
79 PF14500 MMS19_N: Dos2-interac 25.0 8.9E+02 0.019 26.1 15.1 29 647-677 188-216 (262)
80 KOG2073 SAP family cell cycle 24.6 1.4E+03 0.031 28.9 14.8 78 645-723 295-381 (838)
81 PLN03200 cellulose synthase-in 24.5 2.2E+03 0.047 30.4 23.4 22 666-687 609-630 (2102)
82 COG5240 SEC21 Vesicle coat com 24.3 1.4E+03 0.03 28.0 14.4 111 621-738 344-461 (898)
83 KOG0166 Karyopherin (importin) 24.1 7E+02 0.015 29.8 11.5 208 449-658 256-485 (514)
84 KOG2759 Vacuolar H+-ATPase V1 23.8 1.2E+03 0.026 27.2 14.6 28 616-643 317-345 (442)
85 KOG3759 Uncharacterized RUN do 23.1 3.3E+02 0.0071 31.9 8.3 82 574-661 147-239 (621)
86 PF03224 V-ATPase_H_N: V-ATPas 23.1 6E+02 0.013 27.6 10.4 25 398-426 15-39 (312)
87 PF05327 RRN3: RNA polymerase 23.1 5.6E+02 0.012 30.7 10.9 19 501-519 52-70 (563)
88 KOG2027 Spindle pole body prot 23.1 7.8E+02 0.017 28.3 11.4 58 617-677 54-122 (388)
89 PF02854 MIF4G: MIF4G domain; 23.0 7.1E+02 0.015 24.2 11.4 32 726-757 169-204 (209)
90 PF10508 Proteasom_PSMB: Prote 22.6 1.3E+03 0.028 27.1 22.2 117 639-759 365-487 (503)
91 KOG2956 CLIP-associating prote 22.4 1.3E+03 0.029 27.3 14.3 12 730-741 482-493 (516)
92 KOG1060 Vesicle coat complex A 22.3 1.3E+03 0.027 29.3 13.2 89 642-740 385-479 (968)
93 PF03378 CAS_CSE1: CAS/CSE pro 21.6 6.1E+02 0.013 29.5 10.4 308 440-757 2-346 (435)
94 TIGR00400 mgtE Mg2+ transporte 20.3 2.8E+02 0.0062 32.1 7.5 118 435-577 5-122 (449)
95 KOG1992 Nuclear export recepto 20.0 1.9E+03 0.04 28.0 18.2 53 594-646 700-756 (960)
No 1
>KOG1488 consensus Translational repressor Pumilio/PUF3 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=8.7e-70 Score=604.43 Aligned_cols=346 Identities=55% Similarity=0.912 Sum_probs=329.1
Q ss_pred CchhhhHHHHHhhcc-ccccchHHhHHHHHHHHhcCCCcCHHHHHhhhcCCH-HHHHHHHHHHhhchhhhccCcccchhh
Q 004342 413 EDSKKHSFLEELKSS-NAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSA-EEKVSVFKEVLPHASKLMTDVFGNYVI 490 (760)
Q Consensus 413 ~~~~rs~LLeeL~s~-~~~~~~L~eI~GkvveLa~dq~gSRvIQ~lLe~~s~-Eqr~~If~EL~p~~~eL~~D~yGnhVI 490 (760)
+...+..+++.+++. ..+.+.+.++.|++++|+.||+|||+||+.|+.++. +++..||+||.+.+.+||+|.||||||
T Consensus 152 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~v~f~~Dq~GsrfiQqkl~~~~~~~ek~~if~ei~~~~~~L~~dvFGNyvI 231 (503)
T KOG1488|consen 152 NSTGPSFLLDPFRSNSLSKTLELVDIPGHLVEFAKDQHGSRFIQQKLETASDNEEKQAVFDEILPPALELMTDVFGNYVI 231 (503)
T ss_pred CCCCCCccccccccccccccccccccCCCceeecCCcccchHHHHhccccccHHHHHHHHHHHHHHHHHHHHHHhcCchh
Confidence 344556677777666 567788889999999999999999999999999998 999999999999999999999999999
Q ss_pred hhhhccCCHHHHHHHHHHHhhccccccccccccHHHHHHHHhhCHHHHHHHHHHhhhhHhHHhhcccCChhhhHhhhcCC
Q 004342 491 QKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVP 570 (760)
Q Consensus 491 QKLLe~~s~eqr~~Ii~~L~g~v~~Ls~h~yGSrVIQklLe~as~eqr~~Lv~EL~g~i~~L~kDq~GNhVLQklLe~~~ 570 (760)
||+||+++.+|+..+...+.+++..||.|+|||||||++||..+.+++.+|++||.+++.+|++|++||||||||||+.+
T Consensus 232 QkffE~gt~~q~~~l~~~~~g~v~~Lsld~ygCRVIQkale~id~~~~~~Li~ELd~~vl~~v~DQngnHViQK~ie~~p 311 (503)
T KOG1488|consen 232 QKFFEHGTEDQRNLLHSQIKGHVLELSLDMYGCRVIQKALEKVDVSLQIQLIDELDGHLLKCVKDQNGNHVIQKCIETLP 311 (503)
T ss_pred hhhhccCCHHHHHHHHHHHHhhhhhhhcccccchhHHHHHHhcCHHHHHHHHHHHHhhHHHHHhhcccceehhhhhhccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHhhh--hHhhhccCCcchhHHHHHHhhCCChHHHHHHHHHHHHHHHHHhhcccchHHHHHHHhcCChhhHH
Q 004342 571 AEKIEFIISAFRG--QVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERT 648 (760)
Q Consensus 571 ~e~~~~Ii~~L~~--~i~~Ls~hkyGS~VLQklLe~~~~~~q~~~Il~eL~~~l~~La~Dq~GNyVVQ~LLe~~~~k~R~ 648 (760)
++...+|++.|.+ ++..+|+|+|||||||++||+|..+ +...++++|..++..|+.|+||||||||+|+++++.++.
T Consensus 312 ~~~~~Fiv~~f~~~~~~~~ls~~~YGCRVIQr~lE~c~~~-~~~~i~~ei~~~~~~L~~dQygNYVIQHVie~g~~~~~~ 390 (503)
T KOG1488|consen 312 PDAWQFIVDFFSGDDNLLELSTHKYGCRVIQRILEHCSED-QKQPLMEEIIRNCDQLAQDQYGNYVIQHVIEHGSPYRDT 390 (503)
T ss_pred hHHHHHHHHHhcCCCceeEeeccCcccHHHHHHhhcCChH-hhhHHHHHHHHHHHHHHhhhhhhHHHHHHHhcCChhhhh
Confidence 9999999999999 9999999999999999999999865 456699999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhcCccHHHHHHHHHHhCCHHHHHHHHHHHhcCCCCc-HHHHHhhcCCChhHHHHHHHhhCCHHHHHH
Q 004342 649 QILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEEN-DNLLVMMKDQYANYVVQKILEKCNEKLRET 727 (760)
Q Consensus 649 ~Iie~L~~~l~~Ls~~K~GS~VVEk~L~~a~~keRk~II~eLl~~~~~k-e~L~~La~DqyGnyVIQklL~~~dd~~rk~ 727 (760)
.|++.|.+++.+|+++||+|+|||+||.++.+.+|..|++|++....+. +.|..||+|+|||||||++|+.|++.+|+.
T Consensus 391 ~I~~~l~~~ll~~Sq~KfASnVVEk~~~~a~~~~r~~i~~Ei~~~~~~~~~~L~~mmkdQYgNYVVQkmi~~~~~~q~~~ 470 (503)
T KOG1488|consen 391 IIIKCLLGNLLSMSQHKFASNVVEKAFLFAPPLLRALIMNEIFPGYVEHPDALDIMMKDQYGNYVVQKMIDICGPEQREL 470 (503)
T ss_pred hHHHHHHhhHHHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHhcCCccCCccHHHHHHHHhhhhhHHHHHHHhcCHHHHHH
Confidence 9999999999999999999999999999999999999999999876544 789999999999999999999999999999
Q ss_pred HHHHHHHhHHHHhhCCChHHHHHHHHHHHhcC
Q 004342 728 LISRIRVHCDALKKYTYGKHIVARFEQLYGEG 759 (760)
Q Consensus 728 Il~~Lk~~l~~L~~~~yGk~Vv~kLekl~~~g 759 (760)
|..+|++|+..|++++|||||+++|||+...+
T Consensus 471 i~~rI~~h~~~Lrk~syGKhIia~lek~~~~~ 502 (503)
T KOG1488|consen 471 IKSRVKPHASRLRKFSYGKHIIAKLEKLRSKG 502 (503)
T ss_pred HHHHHHHHHHHHccCccHHHHHHHHHHhcccC
Confidence 99999999999999999999999999997654
No 2
>cd07920 Pumilio Pumilio-family RNA binding domain. Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA. Other proteins that contain Puf domains are also plausible RNA binding proteins. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canon
Probab=100.00 E-value=3.1e-56 Score=479.25 Aligned_cols=319 Identities=59% Similarity=0.948 Sum_probs=307.4
Q ss_pred hHHhHH-HHHHHHhcCCCcCHHHHHhhhcCCHHHHHHHHHHHhhchhhhccCcccchhhhhhhccCCHHHHHHHHHHHhh
Q 004342 433 ELSDIA-GRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVG 511 (760)
Q Consensus 433 ~L~eI~-GkvveLa~dq~gSRvIQ~lLe~~s~Eqr~~If~EL~p~~~eL~~D~yGnhVIQKLLe~~s~eqr~~Ii~~L~g 511 (760)
.++++. |+++++++|++|||+||++|++++++++..||+++.|++.+||.|+||||||||+|++++++++..|++.+.+
T Consensus 3 ~~~~~~~~~~~~l~~~~~gsr~lQ~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~g~~vvq~~l~~~~~~~~~~i~~~~~~ 82 (322)
T cd07920 3 TLQDIKAGHIVEFAKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYVIQKLFEHGTEEQRLQLLEKILG 82 (322)
T ss_pred CHHhccCcchhhccCCchhhHHHHHHhccCCHHHHHHHHHHHHHhHHHHhcCccccHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 466677 9999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccccccccHHHHHHHHhhCHHHHHHHHHHhhhhHhHHhhcccCChhhhHhhhcCChhHHHHHHHHhhhhHhhhccC
Q 004342 512 QVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTH 591 (760)
Q Consensus 512 ~v~~Ls~h~yGSrVIQklLe~as~eqr~~Lv~EL~g~i~~L~kDq~GNhVLQklLe~~~~e~~~~Ii~~L~~~i~~Ls~h 591 (760)
++..|+.|+|||||||++|+.+..+++..|+++|.+++..|++|++||||+|+++++++++.++.|++.+.+++.+++.|
T Consensus 83 ~~~~l~~~~~g~~vlqkll~~~~~~~~~~i~~~l~~~~~~L~~d~~gn~Vvq~~l~~~~~~~~~~i~~~l~~~~~~l~~~ 162 (322)
T cd07920 83 HVVRLSLDMYGCRVIQKLLESISEEQISLLVKELRGHVVELVKDQNGNHVIQKCIEKFPPEDLQFIIDAFKGNCVALSTH 162 (322)
T ss_pred HHHHHcccchhHHHHHHHHHhcCHHHHHHHHHHHHHCHHHHhhcccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHcC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcchhHHHHHHhhCCChHHHHHHHHHHHHHHHHHhhcccchHHHHHHHhcCChhhHHHHHHHHHHHHHHHhcCccHHHHH
Q 004342 592 PYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVV 671 (760)
Q Consensus 592 kyGS~VLQklLe~~~~~~q~~~Il~eL~~~l~~La~Dq~GNyVVQ~LLe~~~~k~R~~Iie~L~~~l~~Ls~~K~GS~VV 671 (760)
++||+|+|++++.+. ++.++.+++++.+++..|+.|+|||||||++|+.+.++.++.|++.+.+++.+|++++|||+|+
T Consensus 163 ~~G~~vvq~~l~~~~-~~~~~~l~~~l~~~~~~L~~d~~Gn~vvq~~l~~~~~~~~~~i~~~l~~~~~~l~~~k~Gs~Vv 241 (322)
T cd07920 163 PYGCRVIQRCLEHCS-EEQREPLLEEILEHALELVQDQFGNYVVQHVLELGDPDDTSRIIEKLLGNIVQLSCHKFASNVV 241 (322)
T ss_pred ccccHHHHHHHHhCC-HHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHhcCCHHHHHHHHHHHHHHHHHHHcCcchHHHH
Confidence 999999999999876 5678889999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhCCHHHHHHHHHHHhcCCCCcHHHHHhhcCCChhHHHHHHHhhCCHHHHHHHHHHHHHhHHHHhhCCChHHHHHH
Q 004342 672 EKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVAR 751 (760)
Q Consensus 672 Ek~L~~a~~keRk~II~eLl~~~~~ke~L~~La~DqyGnyVIQklL~~~dd~~rk~Il~~Lk~~l~~L~~~~yGk~Vv~k 751 (760)
++||+.++++.|+.|+++|+....+++.+.+|++|+|||||||++|+.++++.++.|++.|++++.+|+.++||++|+++
T Consensus 242 e~~l~~~~~~~~~~ii~~l~~~~~~~~~l~~l~~d~~Gn~Viq~~l~~~~~~~~~~i~~~l~~~~~~L~~~~~G~~v~~~ 321 (322)
T cd07920 242 EKCLKHASKEERELIIDEILASGNETSALDTLMKDQYGNYVIQTALDVAKEEQRELLVEAIRPHLPSLRKSPYGKHILAK 321 (322)
T ss_pred HHHHHHCCHHHHHHHHHHHhcCCCchhHHHHHhCCCcccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHcCCCcHHHHHHh
Confidence 99999999999999999999753224699999999999999999999999999999999999999999999999999987
Q ss_pred H
Q 004342 752 F 752 (760)
Q Consensus 752 L 752 (760)
|
T Consensus 322 ~ 322 (322)
T cd07920 322 L 322 (322)
T ss_pred C
Confidence 4
No 3
>PF07990 NABP: Nucleic acid binding protein NABP; InterPro: IPR012940 This domain occurs in some putative nucleic acid binding proteins. One of these proteins has been partially characterised [] and contains two putative phosphorylation sites and a possible dimerisation / leucine zipper domain.
Probab=100.00 E-value=1.9e-51 Score=442.45 Aligned_cols=325 Identities=31% Similarity=0.452 Sum_probs=248.3
Q ss_pred CCCCcchhhhhhcccccchhHHHHHHhHHHHHHHhhhhhhcccCCccccCCCccccccccccccCCCCCCCCCCCCCCCC
Q 004342 63 KNAGLEDVASVSAASQSDVSRAESRMRKKQEEQKYQGRIMMQQYPSAQQGFQYQVQGVQGQAVSLGMNNAHNGMDKNSYG 142 (760)
Q Consensus 63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 142 (760)
.-....| +|++-+++..|.. ++-.+ +...|.++.+. .+.|++....+|+++.+..-| .+. .+....
T Consensus 34 ~~~e~aD--lvAALSGLNLS~~--~~~~e--e~~~qSqlqqd--vdnqq~~lf~~q~~q~~~~Qq----~~~--~~se~~ 99 (385)
T PF07990_consen 34 GINESAD--LVAALSGLNLSGN--RAADE--ENHMQSQLQQD--VDNQQDFLFNVQGGQNQGNQQ----SYM--KKSESG 99 (385)
T ss_pred CCCcHHH--HHHHHhcCCcCcC--ccccc--cccchHHHHHH--HHHhhhhhhcCccchhhhhhH----HHh--hccchh
Confidence 3344445 7788888887732 22111 22222222222 334556666677776633222 111 111111
Q ss_pred CCCCccccCccccCCCCCCCC---CCCCCcccCCCCCC---CCCCCCCCCCCCCCCcCCCCcccCCCCCCCCcccCCCCC
Q 004342 143 HGKFSSFEAQPSMNSPGLTPP---LYASAGTYMPSGNP---FYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQ 216 (760)
Q Consensus 143 ~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 216 (760)
+..+ +++++..+.+. ++.+.++..+.++. .|||++.+++ ..+||++|++. |+||++++++
T Consensus 100 ~l~~------~e~~~a~~~~~~s~~~~~~~s~~~~~g~~~~~~q~~~~~n~-------~~~gy~~n~~~-~s~~~~~~~~ 165 (385)
T PF07990_consen 100 HLNA------PELQKAAFPSGNSYFKNSNASKLSGGGGSPFPYQNSDNPNS-------SFGGYALNPAL-PSMMASQLNN 165 (385)
T ss_pred hccc------cccccccCCCccccccCCCcccccCCCCCCCcccCCCcccc-------cccccccCccc-hhhhhccccC
Confidence 1111 34455555443 55555666665553 5778777633 33999999998 9999999999
Q ss_pred CCCCCCCCCC------CCCCCCCC--CCccc-----CCCCCCcccccccccccCCc-CCCCCCCCCChhhhhhccCCccc
Q 004342 217 GPVPMPFDAT------SGSSFNIR--TTSVS-----TGEGIPHIGSTQHQKFYGHQ-GLMLQSPFVDPLHMQYFQHPFGD 282 (760)
Q Consensus 217 ~~~~~~~~~~------~~~~~~~~--~~~~~-----~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~ 282 (760)
|++|++||++ +.++++++ |..+. ..+| +++++|+|||+ |.++|+||+||+|+||||+++++
T Consensus 166 gn~p~~fd~~~~~s~~~~~~~~s~~~g~~~~s~~~~~~~d-----~~~l~r~gnq~~g~~lq~~~~DP~Y~Qylq~~~~a 240 (385)
T PF07990_consen 166 GNIPPLFDNSAAASALASPGMDSRSLGGGLDSGGNQGASD-----GQNLNRFGNQVAGSALQSPFVDPLYLQYLQAPEYA 240 (385)
T ss_pred CCCCccccccccchhhccCCCcccccCCcccccccccccc-----hhhhhhhcccccCcccCCCCCCchHHHHhccccch
Confidence 9999999993 45556652 11111 1257 99999999997 79999999999999999999999
Q ss_pred ccccccccc-cccCCCCCC-CCCCC-CCchhHHhhhhhhhcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 004342 283 AYNASVQHR-LASSGVNGA-LADPS-SKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFPT 359 (760)
Q Consensus 283 ~~~~~~~~~-~~~~~~~~~-~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 359 (760)
+++.++++| +++|+|+|+ ++|++ .|| +||++||++||+||+ +| + .|+|+++++||| +|.||++|+||+
T Consensus 241 a~~~a~~~dP~~~R~~~G~s~~dl~~~qK-ayl~~lL~~QK~Qy~---~P---~-~~~~~~n~~y~g-np~~G~gm~Y~g 311 (385)
T PF07990_consen 241 AQQAAAQNDPSVDRNYMGSSYMDLLGLQK-AYLEALLAQQKSQYG---VP---L-KKSGSMNHGYYG-NPSYGLGMPYPG 311 (385)
T ss_pred hhhhhccCCcccccCCcCccccchHHHHH-HHHHHHHHHHHHhhC---Cc---c-ccCCCCCCCCCC-CCCccccCCCCC
Confidence 999999999 999999999 99998 999 999999999999999 98 6 999999999999 899999999999
Q ss_pred CCCCCCCCCCCCCCCCCC--CCcccccCCCCCccCCC--CCCCCcccccccCCCcccCchhhhHHHHHhhccccccchHH
Q 004342 360 SPIASPVLPSSPVGSTSQ--LGLRHEMRLPQGLNRNT--GIYSGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELS 435 (760)
Q Consensus 360 ~~~~~~~~~~~~~~~~~~--~~~r~~~~~~~~~~~~~--~~~~~W~~~r~~~~~~~~~~~~rs~LLeeL~s~~~~~~~L~ 435 (760)
|||++||||++|+|+++| ++||+ | ||++++|+. |++|.|+.++..+ +++.+.+.|||||+++|+|+|||+
T Consensus 312 splaspvlPsspvG~gsp~r~~er~-~-R~~s~mRn~~GG~~GsW~~d~g~~----~d~~~~sSlLEEFKsNKtr~FELS 385 (385)
T PF07990_consen 312 SPLASPVLPSSPVGPGSPLRHNERN-M-RFPSGMRNSSGGSMGSWHSDAGGN----MDENFASSLLEEFKSNKTRSFELS 385 (385)
T ss_pred CCCcCCCCCCCCCCCCCCCcCCccc-c-ccCccccccccccccccccccccc----ccccchhHHHHHHhcCCccceecC
Confidence 999999999999999999 99998 8 889999944 5999999999777 999999999999999999999984
No 4
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.3e-47 Score=444.27 Aligned_cols=320 Identities=42% Similarity=0.678 Sum_probs=299.7
Q ss_pred HHHHHHHH-hcCCCcCHHHHHhhhcCCHHHHHHHHHHHhhchhhhccCcccchhhhhhhccCCHHHHHHHHHHHhhcccc
Q 004342 437 IAGRIVEF-SVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLP 515 (760)
Q Consensus 437 I~GkvveL-a~dq~gSRvIQ~lLe~~s~Eqr~~If~EL~p~~~eL~~D~yGnhVIQKLLe~~s~eqr~~Ii~~L~g~v~~ 515 (760)
+-+....+ ++||+|||+||++|+.-+.++...|+.|+.+...+||.|.|||||||||||+++.+|+..++..+.+++..
T Consensus 438 ~l~~~~~~~~~Dq~g~r~LQk~Lds~s~~~~~~~~~e~~d~~~eLs~d~fGNyliQK~fe~~s~~q~~~ml~~~~~~~~~ 517 (777)
T COG5099 438 ILGPSIIVSCKDQHGSRFLQKLLDSNSSPEIEVIFNEILDQLVELSSDYFGNYLIQKLFEYGSEIQKSIMLSKSSKHLVS 517 (777)
T ss_pred cccCccccccCCcHHHHHHHHHhcccchHHHHHHHHHHhhhhHHHHHhhhcchhhHHHHHhccHHHHHHHHHHhhhhHHH
Confidence 33444444 49999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccccHHHHHHHHhhCHHHHH-HHHHHhhhhHhHHhhcccCChhhhHhhhcCChhHHHHHHHHhhhhHhhhccCCcc
Q 004342 516 LSLQMYGCRVIQKALEVIELHQKS-QLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYG 594 (760)
Q Consensus 516 Ls~h~yGSrVIQklLe~as~eqr~-~Lv~EL~g~i~~L~kDq~GNhVLQklLe~~~~e~~~~Ii~~L~~~i~~Ls~hkyG 594 (760)
++.|+|||||+||++++...+.+. .|++||.+++..|++|++||||+|||++..+.+...+|++.+.+++.++++|+||
T Consensus 518 ls~~~~Gtrv~QK~id~~~t~~qi~~lv~~l~~~~~~li~dqngNHviqKci~~~~~~~~~fif~~~~~~~~~is~~r~G 597 (777)
T COG5099 518 LSVHKYGTRVLQKAIDIVSTDIQISLLVEELRPYCLQLIKDQNGNHVIQKCIEKFNKEKNQFIFDSINENLYDLSTHRYG 597 (777)
T ss_pred hhccccccHHHHHHHhccCchhhHHHHHHHhhhhhHHHHHhccCCHHHHHHHHhcCccccchHHHHHHhhhHhhhccccc
Confidence 999999999999999999877777 8899999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHhhCCChHHHHHHHHHHHHHHHHHhhcccchHHHHHHHhcCChhhHHHHHHHHHH-HHHHHhcCccHHHHHHH
Q 004342 595 CRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAG-KIVQMSQHKYASNVVEK 673 (760)
Q Consensus 595 S~VLQklLe~~~~~~q~~~Il~eL~~~l~~La~Dq~GNyVVQ~LLe~~~~k~R~~Iie~L~~-~l~~Ls~~K~GS~VVEk 673 (760)
|+|||+|||+|..+ ..+.++++|+.+...|+.|+|||||||++|+.+.+..++.|+..+.. ++++|++|||||.|||+
T Consensus 598 s~vvq~~le~~~~~-~~~~~~~~Ii~~~~~L~~dq~GNyvvq~il~~g~~~~k~~i~~~~l~~~v~elS~~kfaSnvVeK 676 (777)
T COG5099 598 SRVVQRCLENCNSE-DKENLVEEIISNSKYLSQDQYGNYVVQHILDNGAEPNKERIIIKLLSKRVVELSTHKFASNVVEK 676 (777)
T ss_pred cHHHHHHHHhccHh-HHHHHHHHHHHHHHhhccCCcchhhhhHHhhcCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999865 45789999999999999999999999999999999999999999888 99999999999999999
Q ss_pred HHHhCCHHH-HHHHHHHHhcCCCCcHH-HHHhhcCCChhHHHHHHHhhCCHHHHHHHHHHHHHhHHHHhhCCChHHHHHH
Q 004342 674 CLEYGDTAE-RELLIEEILGQSEENDN-LLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVAR 751 (760)
Q Consensus 674 ~L~~a~~ke-Rk~II~eLl~~~~~ke~-L~~La~DqyGnyVIQklL~~~dd~~rk~Il~~Lk~~l~~L~~~~yGk~Vv~k 751 (760)
|+.++.+.+ |++|+.++.....+++. |..|+.|+|||||+|++++......|..+.+.++.++..|++.++|+||...
T Consensus 677 ~i~~~~~~~~~~ril~~~~~~~~~~~~~l~~i~~d~y~Nyv~q~~~~~s~~~~~~l~~~~i~~~~~~l~~s~~g~~i~~~ 756 (777)
T COG5099 677 CIKYASDSFKRSRILNELTNRGIEKPGFLMLILDDQYANYVIQYLLDVSPEIQRSLLARAIKKVIPSLKKSMYGQHILAL 756 (777)
T ss_pred HHhcCCcchHHHHHHHHHhcccccCChHHHHHHHhhhcchHHHHHHhhCchhhHHHHHHHHHHHHHHHhcCCccHHHHHH
Confidence 999988777 59999999873333454 8889999999999999999999999999999999999999999999999999
Q ss_pred HHHHHh
Q 004342 752 FEQLYG 757 (760)
Q Consensus 752 Lekl~~ 757 (760)
||+...
T Consensus 757 le~~~~ 762 (777)
T COG5099 757 LEKVGS 762 (777)
T ss_pred HHHHhc
Confidence 998753
No 5
>KOG2049 consensus Translational repressor MPT5/PUF4 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.8e-43 Score=392.52 Aligned_cols=313 Identities=32% Similarity=0.508 Sum_probs=292.0
Q ss_pred HHhHHHHHHHHhcCCCcCHHHHHhhhcCCHHHHHHHHHHHhhchhhhccCcccchhhhhhhccCCHHHHHHHHHHHhh--
Q 004342 434 LSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVG-- 511 (760)
Q Consensus 434 L~eI~GkvveLa~dq~gSRvIQ~lLe~~s~Eqr~~If~EL~p~~~eL~~D~yGnhVIQKLLe~~s~eqr~~Ii~~L~g-- 511 (760)
+.++.|.+..+++|++|||++|+.+..++.+....||.|+..++.+||.|+||+++||||++.|+++|+..|+..+..
T Consensus 212 ~~~~~~~~~~~akd~~gc~~lq~~~~~~~~~~~~~if~~~~~~~~~Lm~d~fGny~vqkl~~~~~~eq~~~i~~~lts~p 291 (536)
T KOG2049|consen 212 MVEIQGSINLIAKDQHGCRLLQKLLSEGTKVSILKIFLETIQDVPELMEDPFGNYLVQKLLEVCDEEQLTKIVSLLTSDP 291 (536)
T ss_pred hhccchhhhhhcccccCCcccccCcccCccccHHHHHHHHHHHHHHHHhccchhHHHHHHHHhhCHHHHHHHHHHHhcCc
Confidence 345779999999999999999999999999999999999999999999999999999999999999999999999876
Q ss_pred -ccccccccccccHHHHHHHHhhC-HHHHHHHHHHhhhhHhHHhhcccCChhhhHhhhcCChhHHHHHHHHhhhhHhhhc
Q 004342 512 -QVLPLSLQMYGCRVIQKALEVIE-LHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLS 589 (760)
Q Consensus 512 -~v~~Ls~h~yGSrVIQklLe~as-~eqr~~Lv~EL~g~i~~L~kDq~GNhVLQklLe~~~~e~~~~Ii~~L~~~i~~Ls 589 (760)
.++.++.++||+|+||++++... .+|...++..|...+..|++|.||+||+|+||...+++..+++++.+...+.++|
T Consensus 292 ~~fv~i~~N~~GTr~iQkl~~~~~~~dqI~~~~~ai~~~fl~L~~D~~g~~Viq~cl~~f~~~~~~~l~e~i~~~c~~iA 371 (536)
T KOG2049|consen 292 RLFVEICTNMYGTRAVQKLLGKSDSVDQISLFLDAIKPNFLHLIKDKNGNHVIQRCLRVFSKEKNEFLYEAILRYCLDLA 371 (536)
T ss_pred cceeEeeecCchhHHHHHHHhccccHHHHHHHHHHHHhhhHHhhhhcchhHHHHHHHHhcCchhhhHHHHHHHHHHHHHH
Confidence 69999999999999999998764 5555566788999999999999999999999999999999999999999999999
Q ss_pred cCCcchhHHHHHHhhCCChHHHHHHHHHHHHHHHHHhhcccchHHHHHHHhcCChhhHHHHHHHHHHHHHHHhcCccHHH
Q 004342 590 THPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASN 669 (760)
Q Consensus 590 ~hkyGS~VLQklLe~~~~~~q~~~Il~eL~~~l~~La~Dq~GNyVVQ~LLe~~~~k~R~~Iie~L~~~l~~Ls~~K~GS~ 669 (760)
+|.+||.|||+||..... ++++.+++++..+...|+.|+|||||||++|+...+.....|++.|++++++|+.+||||+
T Consensus 372 ~~~hGCcvLq~cl~~~~~-~~rd~Lv~~i~~naL~Ls~d~~GNyvVQyvl~L~~~~~t~~i~~~L~g~~veLS~qKfgS~ 450 (536)
T KOG2049|consen 372 TDQHGCCVLQKCLDYSRG-EQRDRLVEEISRNALLLSNDPYGNYVVQYVLELNDPSCTVNIAEKLRGHYVELSFQKFGSH 450 (536)
T ss_pred HhccccchhHHHhcchhH-HHHHHHHHHHHHHhHhhhcCccccchhhhhhhhcCcchHHHHHHhhhhHHHHHHHHhhccH
Confidence 999999999999999775 6899999999999999999999999999999999988899999999999999999999999
Q ss_pred HHHHHHHhCCHHHHHHHHHHHhcCCCCcHHHHHhhcCCChhHHHHHHHhhCCH----HHHHHHHHHHHHhHHHHhhCCCh
Q 004342 670 VVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNE----KLRETLISRIRVHCDALKKYTYG 745 (760)
Q Consensus 670 VVEk~L~~a~~keRk~II~eLl~~~~~ke~L~~La~DqyGnyVIQklL~~~dd----~~rk~Il~~Lk~~l~~L~~~~yG 745 (760)
|||+||+..... +..||.||++. +.+.+|+.|+|||||||++|+..+. ..+..++..++..+..|+..++|
T Consensus 451 vVEk~L~~~~~~-~~~iV~ell~~----~~~~~Ll~D~ygNyViq~AL~vtk~~~~~~~~~~lv~~~~~~~~~lr~~p~~ 525 (536)
T KOG2049|consen 451 VVEKLLKVRESS-RAQIVLELLSC----DELDRLLRDPYGNYVIQTALRVTKVKLREDLFGLLVQKLMPRIRLLRNNPGG 525 (536)
T ss_pred HHHHHHhcCcch-hhHHHHHHHcc----ccHHHHhhCccchHHHHHHHHHhhhcccchhhHHHHHHHhhhhHHhhcCccc
Confidence 999999986644 47899999984 5799999999999999999999886 68899999999999999999999
Q ss_pred HHHHHHH
Q 004342 746 KHIVARF 752 (760)
Q Consensus 746 k~Vv~kL 752 (760)
+++..+.
T Consensus 526 ~~~~~~~ 532 (536)
T KOG2049|consen 526 NIALIKD 532 (536)
T ss_pred ceeeehh
Confidence 9987654
No 6
>cd07920 Pumilio Pumilio-family RNA binding domain. Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA. Other proteins that contain Puf domains are also plausible RNA binding proteins. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canon
Probab=100.00 E-value=1.3e-40 Score=358.03 Aligned_cols=299 Identities=25% Similarity=0.418 Sum_probs=283.2
Q ss_pred ccCchhhhHHHHHhhc---cccccchHHhHHHHHHHHhcCCCcCHHHHHhhhcCCHHHHHHHHHHHhhchhhhccCcccc
Q 004342 411 TFEDSKKHSFLEELKS---SNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGN 487 (760)
Q Consensus 411 ~~~~~~rs~LLeeL~s---~~~~~~~L~eI~GkvveLa~dq~gSRvIQ~lLe~~s~Eqr~~If~EL~p~~~eL~~D~yGn 487 (760)
-+.+..++++++++.. .+++...++++.+++.+++.|++|++++|++|++++++++..|++++.+++.+|++|+||+
T Consensus 15 l~~~~~gsr~lQ~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~g~~vvq~~l~~~~~~~~~~i~~~~~~~~~~l~~~~~g~ 94 (322)
T cd07920 15 FAKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYVIQKLFEHGTEEQRLQLLEKILGHVVRLSLDMYGC 94 (322)
T ss_pred ccCCchhhHHHHHHhccCCHHHHHHHHHHHHHhHHHHhcCccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHcccchhH
Confidence 4577888899887654 3466778888999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhhccCCHHHHHHHHHHHhhccccccccccccHHHHHHHHhhCHHHHHHHHHHhhhhHhHHhhcccCChhhhHhhh
Q 004342 488 YVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIE 567 (760)
Q Consensus 488 hVIQKLLe~~s~eqr~~Ii~~L~g~v~~Ls~h~yGSrVIQklLe~as~eqr~~Lv~EL~g~i~~L~kDq~GNhVLQklLe 567 (760)
+||||+|++++++++..|++++.+++.+|+.|.+|++|+|+++++++++++..|+++|.+++..+++|++|++|+|++++
T Consensus 95 ~vlqkll~~~~~~~~~~i~~~l~~~~~~L~~d~~gn~Vvq~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~G~~vvq~~l~ 174 (322)
T cd07920 95 RVIQKLLESISEEQISLLVKELRGHVVELVKDQNGNHVIQKCIEKFPPEDLQFIIDAFKGNCVALSTHPYGCRVIQRCLE 174 (322)
T ss_pred HHHHHHHHhcCHHHHHHHHHHHHHCHHHHhhcccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHcCccccHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCChhHHHHHHHHhhhhHhhhccCCcchhHHHHHHhhCCChHHHHHHHHHHHHHHHHHhhcccchHHHHHHHhcCChhhH
Q 004342 568 CVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYER 647 (760)
Q Consensus 568 ~~~~e~~~~Ii~~L~~~i~~Ls~hkyGS~VLQklLe~~~~~~q~~~Il~eL~~~l~~La~Dq~GNyVVQ~LLe~~~~k~R 647 (760)
.++++.++.|++.+.+++..|+.++||++|||++++... ++.+..+++.+.+++..|+.++||++|++++|+.++++.|
T Consensus 175 ~~~~~~~~~l~~~l~~~~~~L~~d~~Gn~vvq~~l~~~~-~~~~~~i~~~l~~~~~~l~~~k~Gs~Vve~~l~~~~~~~~ 253 (322)
T cd07920 175 HCSEEQREPLLEEILEHALELVQDQFGNYVVQHVLELGD-PDDTSRIIEKLLGNIVQLSCHKFASNVVEKCLKHASKEER 253 (322)
T ss_pred hCCHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHhcCC-HHHHHHHHHHHHHHHHHHHcCcchHHHHHHHHHHCCHHHH
Confidence 999999999999999999999999999999999999876 5678899999999999999999999999999999999999
Q ss_pred HHHHHHHH------HHHHHHhcCccHHHHHHHHHHhCCHHHHHHHHHHHhcCCCCcHHHHHhhcCCChhHHHHHH
Q 004342 648 TQILSKLA------GKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKI 716 (760)
Q Consensus 648 ~~Iie~L~------~~l~~Ls~~K~GS~VVEk~L~~a~~keRk~II~eLl~~~~~ke~L~~La~DqyGnyVIQkl 716 (760)
+.|++.|. +++.+|+.++||+.||+++|..++++.++.|+..|. +++..|+.++||+.|+.++
T Consensus 254 ~~ii~~l~~~~~~~~~l~~l~~d~~Gn~Viq~~l~~~~~~~~~~i~~~l~------~~~~~L~~~~~G~~v~~~~ 322 (322)
T cd07920 254 ELIIDEILASGNETSALDTLMKDQYGNYVIQTALDVAKEEQRELLVEAIR------PHLPSLRKSPYGKHILAKL 322 (322)
T ss_pred HHHHHHHhcCCCchhHHHHHhCCCcccHHHHHHHHhCCHHHHHHHHHHHH------HHHHHHcCCCcHHHHHHhC
Confidence 99999994 599999999999999999999999999999999994 6899999999999999874
No 7
>KOG1488 consensus Translational repressor Pumilio/PUF3 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.7e-42 Score=381.52 Aligned_cols=269 Identities=29% Similarity=0.428 Sum_probs=247.2
Q ss_pred CCCCCCCCcccccccCCCcccCchhhhHHHHHhhccccccchHHhHHHHHHHHhcCCCcCHHHHHhhhcCCHHHHHHHHH
Q 004342 392 RNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFK 471 (760)
Q Consensus 392 ~~~~~~~~W~~~r~~~~~~~~~~~~rs~LLeeL~s~~~~~~~L~eI~GkvveLa~dq~gSRvIQ~lLe~~s~Eqr~~If~ 471 (760)
++++++|++..|+.++ .-. .++++.....+.|++++||.|.+||||||+.|+.-+.++..++++
T Consensus 221 L~~dvFGNyvIQkffE----~gt------------~~q~~~l~~~~~g~v~~Lsld~ygCRVIQkale~id~~~~~~Li~ 284 (503)
T KOG1488|consen 221 LMTDVFGNYVIQKFFE----HGT------------EDQRNLLHSQIKGHVLELSLDMYGCRVIQKALEKVDVSLQIQLID 284 (503)
T ss_pred HHHHHhcCchhhhhhc----cCC------------HHHHHHHHHHHHhhhhhhhcccccchhHHHHHHhcCHHHHHHHHH
Confidence 3566777777777666 211 122333344589999999999999999999999999999999999
Q ss_pred HHhhchhhhccCcccchhhhhhhccCCHHHHHHHHHHHhh--ccccccccccccHHHHHHHHhhCHHHHHHHHHHhhhhH
Q 004342 472 EVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVG--QVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHV 549 (760)
Q Consensus 472 EL~p~~~eL~~D~yGnhVIQKLLe~~s~eqr~~Ii~~L~g--~v~~Ls~h~yGSrVIQklLe~as~eqr~~Lv~EL~g~i 549 (760)
||..+++.+++|++|||||||+||..+++.+..|++.|.+ ++..|+.|+|||||||++||+|+++++..++.||..++
T Consensus 285 ELd~~vl~~v~DQngnHViQK~ie~~p~~~~~Fiv~~f~~~~~~~~ls~~~YGCRVIQr~lE~c~~~~~~~i~~ei~~~~ 364 (503)
T KOG1488|consen 285 ELDGHLLKCVKDQNGNHVIQKCIETLPPDAWQFIVDFFSGDDNLLELSTHKYGCRVIQRILEHCSEDQKQPLMEEIIRNC 364 (503)
T ss_pred HHHhhHHHHHhhcccceehhhhhhccChHHHHHHHHHhcCCCceeEeeccCcccHHHHHHhhcCChHhhhHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999 99999999999999999999999999999999999999
Q ss_pred hHHhhcccCChhhhHhhhcCChhHHHHHHHHhhhhHhhhccCCcchhHHHHHHhhCCChHHHHHHHHHHHH-------HH
Q 004342 550 MRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILE-------SA 622 (760)
Q Consensus 550 ~~L~kDq~GNhVLQklLe~~~~e~~~~Ii~~L~~~i~~Ls~hkyGS~VLQklLe~~~~~~q~~~Il~eL~~-------~l 622 (760)
..|+.|+|||||||++|+++.++++..|++.+.++++++++|||+|+|||+||.++. ..++..|++||.+ .|
T Consensus 365 ~~L~~dQygNYVIQHVie~g~~~~~~~I~~~l~~~ll~~Sq~KfASnVVEk~~~~a~-~~~r~~i~~Ei~~~~~~~~~~L 443 (503)
T KOG1488|consen 365 DQLAQDQYGNYVIQHVIEHGSPYRDTIIIKCLLGNLLSMSQHKFASNVVEKAFLFAP-PLLRALIMNEIFPGYVEHPDAL 443 (503)
T ss_pred HHHHhhhhhhHHHHHHHhcCChhhhhhHHHHHHhhHHHHHHHHHHHHHHHHHHhhCC-HHHHHHHHHHhcCCccCCccHH
Confidence 999999999999999999999999999999999999999999999999999999987 4578899999985 48
Q ss_pred HHHhhcccchHHHHHHHhcCChhhHHHHHHHHHHHHHHHhcCccHHHHHHHHHHh
Q 004342 623 FALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEY 677 (760)
Q Consensus 623 ~~La~Dq~GNyVVQ~LLe~~~~k~R~~Iie~L~~~l~~Ls~~K~GS~VVEk~L~~ 677 (760)
..|++|+|||||||++|+.|.+.+|+.|+.+++.|+..|-..+||.|+++++-+.
T Consensus 444 ~~mmkdQYgNYVVQkmi~~~~~~q~~~i~~rI~~h~~~Lrk~syGKhIia~lek~ 498 (503)
T KOG1488|consen 444 DIMMKDQYGNYVVQKMIDICGPEQRELIKSRVKPHASRLRKFSYGKHIIAKLEKL 498 (503)
T ss_pred HHHHHHhhhhhHHHHHHHhcCHHHHHHHHHHHHHHHHHHccCccHHHHHHHHHHh
Confidence 8999999999999999999999999999999999999999999999999986543
No 8
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.2e-39 Score=360.39 Aligned_cols=315 Identities=20% Similarity=0.335 Sum_probs=268.7
Q ss_pred CCccCCCCCCCCcccccccCCCcccCchhhhHHHHHhhccccccchHHhHHHHHHHHhcCCCcCHHHHHhhhcCCHHHHH
Q 004342 388 QGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKV 467 (760)
Q Consensus 388 ~~~~~~~~~~~~W~~~r~~~~~~~~~~~~rs~LLeeL~s~~~~~~~L~eI~GkvveLa~dq~gSRvIQ~lLe~~s~Eqr~ 467 (760)
+...+.--....|+.+|+++ +++++|.+|++|+... ++|+|.+++..|++|||||++++++++++|+
T Consensus 126 p~~~~~qe~kslWEkLR~k~----~~ke~R~klv~el~~l---------ikg~i~~lv~aHDtSRViQt~Vky~s~~~r~ 192 (652)
T KOG2050|consen 126 PTYEISQEAKSLWEKLRRKT----TPKEERDKLVSELYKL---------IKGKISKLVFAHDTSRVIQTCVKYGSEAQRE 192 (652)
T ss_pred ChhHHHHHHHHHHHHHhccC----CcHHHHHHHHHHHHHH---------HhhhHHHHHHHhhhHHHHHHHHHhcCHHHHH
Confidence 33333333456699999998 8999999999998776 9999999999999999999999999999999
Q ss_pred HHHHHHhhchhhhccCcccchhhhhhhccCCHHHHHHHHHHHhhccccccccccccHHHHHHH-HhhCHHHHHHHHHHhh
Q 004342 468 SVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKAL-EVIELHQKSQLVLELD 546 (760)
Q Consensus 468 ~If~EL~p~~~eL~~D~yGnhVIQKLLe~~s~eqr~~Ii~~L~g~v~~Ls~h~yGSrVIQklL-e~as~eqr~~Lv~EL~ 546 (760)
.||+||.|.+++||+++||.|+|||+|.||+++++..|++.|+||++.|++|+.|+.|++.+| ++++.+||..|+.|||
T Consensus 193 ~if~eL~p~~v~l~kskY~k~~v~KmLkyGsk~q~a~iI~sl~Ghv~kLlRH~eaa~Vve~ay~~~A~l~Qr~~li~EfY 272 (652)
T KOG2050|consen 193 QIFEELLPFFVELAKSKYAKFFVQKMLKYGSKAQKAKIINSLRGHVVKLLRHREAAYVVEYAYNDFATLEQRQYLIQEFY 272 (652)
T ss_pred HHHHHHhHHHHHHHHhHHHHHHHHHHHhcCCHHHHHHHHHHHhhhHHHHHhhhHHHHHHHHHHHhhccHHHHHHHHHHHh
Confidence 999999999999999999999999999999999999999999999999999999999999999 6689999999999999
Q ss_pred hhHhHHhhcccCChhhhHhhhcCChhHHHHHHHHhhhhHhhhccCCcchhHHHHHHhhCCChHHHHHHHHHHHHHHHHHh
Q 004342 547 GHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALA 626 (760)
Q Consensus 547 g~i~~L~kDq~GNhVLQklLe~~~~e~~~~Ii~~L~~~i~~Ls~hkyGS~VLQklLe~~~~~~q~~~Il~eL~~~l~~La 626 (760)
|..+.++++.+--++. ++++. .++.+..|+..+...+..+ .+... ..-.|+
T Consensus 273 G~efqlfK~sn~~Tl~-kil~~-~pekk~~I~~~l~~~I~~v-------------~eKg~---v~~tiv----------- 323 (652)
T KOG2050|consen 273 GDEFQLFKDSNDKTLD-KILAE-APEKKASILRHLKAIITPV-------------AEKGS---VDHTIV----------- 323 (652)
T ss_pred hHHHHHHhccCcccHH-HHHHh-ChHhHHHHHHHHHHHhHHH-------------hhcch---hHHHHH-----------
Confidence 9999999995444433 33332 2555666666554433222 22110 001111
Q ss_pred hcccchHHHHHHHhcCChhhHHHHHHHHHHHHHHHhcCccHHHHHHHHHHhCCHHHHHHHHHHHhcCCCCcHHHHHhhcC
Q 004342 627 QDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKD 706 (760)
Q Consensus 627 ~Dq~GNyVVQ~LLe~~~~k~R~~Iie~L~~~l~~Ls~~K~GS~VVEk~L~~a~~keRk~II~eLl~~~~~ke~L~~La~D 706 (760)
..++.-.|..|+++.+.++++.+.+.+.+|++++.||+|..+|++++++++|+.||+.| ++++.++|.|
T Consensus 324 -----Hk~mlEy~~~ade~e~~e~l~ll~elv~e~vHT~dGS~vAm~li~~a~aKeRK~IiK~~------K~h~~K~A~~ 392 (652)
T KOG2050|consen 324 -----HKLMLEYLTIADEEEKSELLELLKELVPEMVHTRDGSRVAMKLIWHATAKERKLIIKNM------KEHVEKIAND 392 (652)
T ss_pred -----HHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHhhCCHHHHHHHHHHH------HHHHHHHHhh
Confidence 12334456688999999999999999999999999999999999999999999999999 6899999999
Q ss_pred CChhHHHHHHHhhCCHH--HHHHHHHHHHHhHHHHhhCCChHHHHHHHHHH
Q 004342 707 QYANYVVQKILEKCNEK--LRETLISRIRVHCDALKKYTYGKHIVARFEQL 755 (760)
Q Consensus 707 qyGnyVIQklL~~~dd~--~rk~Il~~Lk~~l~~L~~~~yGk~Vv~kLekl 755 (760)
+|||.|+..+|+|.||+ .++.|.+++..++.+|..++||++|+.++..-
T Consensus 393 ~yGh~vlia~ldc~DDT~l~kk~i~~e~~~el~~li~Dk~Grrv~lyll~p 443 (652)
T KOG2050|consen 393 EYGHLVLIALLDCTDDTKLLKKLIYDELKSELKSLISDKYGRRVILYLLAP 443 (652)
T ss_pred ccCceehhhhhcccchHHHHHHHHHHHHHHHHHHHhccchhhhhhhhhccC
Confidence 99999999999999999 78899999999999999999999999887644
No 9
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis]
Probab=99.96 E-value=2.1e-29 Score=295.89 Aligned_cols=236 Identities=28% Similarity=0.421 Sum_probs=221.7
Q ss_pred cccccccHHHHHHHHhhCHHHHHHHHHHhhhhHhHHhhcccCChhhhHhhhcCChhHHHHHHHHhhhhHhhhccCCcchh
Q 004342 517 SLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCR 596 (760)
Q Consensus 517 s~h~yGSrVIQklLe~as~eqr~~Lv~EL~g~i~~L~kDq~GNhVLQklLe~~~~e~~~~Ii~~L~~~i~~Ls~hkyGS~ 596 (760)
+.|.+|||.||+.++....++...++.|+.....+|+.|.+||||+|||+|++...++..++..+.+++..|+.|+||||
T Consensus 447 ~~Dq~g~r~LQk~Lds~s~~~~~~~~~e~~d~~~eLs~d~fGNyliQK~fe~~s~~q~~~ml~~~~~~~~~ls~~~~Gtr 526 (777)
T COG5099 447 CKDQHGSRFLQKLLDSNSSPEIEVIFNEILDQLVELSSDYFGNYLIQKLFEYGSEIQKSIMLSKSSKHLVSLSVHKYGTR 526 (777)
T ss_pred cCCcHHHHHHHHHhcccchHHHHHHHHHHhhhhHHHHHhhhcchhhHHHHHhccHHHHHHHHHHhhhhHHHhhccccccH
Confidence 78999999999999998888888899999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhCCChHHHHHHHHHHHHHHHHHhhcccchHHHHHHHhcCChhhHHHHHHHHHHHHHHHhcCccHHHHHHHHHH
Q 004342 597 VIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLE 676 (760)
Q Consensus 597 VLQklLe~~~~~~q~~~Il~eL~~~l~~La~Dq~GNyVVQ~LLe~~~~k~R~~Iie~L~~~l~~Ls~~K~GS~VVEk~L~ 676 (760)
|+||+++...++.+...+++++.+++..|++|++||+|+|++++.........|++.+.+++.++++++|||+||++||+
T Consensus 527 v~QK~id~~~t~~qi~~lv~~l~~~~~~li~dqngNHviqKci~~~~~~~~~fif~~~~~~~~~is~~r~Gs~vvq~~le 606 (777)
T COG5099 527 VLQKAIDIVSTDIQISLLVEELRPYCLQLIKDQNGNHVIQKCIEKFNKEKNQFIFDSINENLYDLSTHRYGSRVVQRCLE 606 (777)
T ss_pred HHHHHHhccCchhhHHHHHHHhhhhhHHHHHhccCCHHHHHHHHhcCccccchHHHHHHhhhHhhhccccccHHHHHHHH
Confidence 99999999998888888999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hCCHHHHHHHHHHHhcCCCCcHHHHHhhcCCChhHHHHHHHhhCCHHHHHHHHHHHHH-hHHHHhhCCChHHHHHHHHHH
Q 004342 677 YGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRV-HCDALKKYTYGKHIVARFEQL 755 (760)
Q Consensus 677 ~a~~keRk~II~eLl~~~~~ke~L~~La~DqyGnyVIQklL~~~dd~~rk~Il~~Lk~-~l~~L~~~~yGk~Vv~kLekl 755 (760)
++..++.+.++++|+. ....|+.|+||+|||||+|+.+....+++|+..+.. ++.+|..++||..||++|.+.
T Consensus 607 ~~~~~~~~~~~~~Ii~------~~~~L~~dq~GNyvvq~il~~g~~~~k~~i~~~~l~~~v~elS~~kfaSnvVeK~i~~ 680 (777)
T COG5099 607 NCNSEDKENLVEEIIS------NSKYLSQDQYGNYVVQHILDNGAEPNKERIIIKLLSKRVVELSTHKFASNVVEKCIKY 680 (777)
T ss_pred hccHhHHHHHHHHHHH------HHHhhccCCcchhhhhHHhhcCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 9999999999999974 677899999999999999999999999999988888 999999999999999999887
Q ss_pred Hhc
Q 004342 756 YGE 758 (760)
Q Consensus 756 ~~~ 758 (760)
+-+
T Consensus 681 ~~~ 683 (777)
T COG5099 681 ASD 683 (777)
T ss_pred CCc
Confidence 654
No 10
>KOG2049 consensus Translational repressor MPT5/PUF4 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=99.96 E-value=8.2e-30 Score=287.15 Aligned_cols=263 Identities=25% Similarity=0.316 Sum_probs=233.2
Q ss_pred CcccCchhhhHHHHHhhc--cccccchHHh-HH---HHHHHHhcCCCcCHHHHHhhhcC-CHHHHHHHHHHHhhchhhhc
Q 004342 409 QRTFEDSKKHSFLEELKS--SNAQKFELSD-IA---GRIVEFSVDQHGSRFIQQKLEHC-SAEEKVSVFKEVLPHASKLM 481 (760)
Q Consensus 409 ~~~~~~~~rs~LLeeL~s--~~~~~~~L~e-I~---GkvveLa~dq~gSRvIQ~lLe~~-s~Eqr~~If~EL~p~~~eL~ 481 (760)
++.|.|+++..++++|.+ +++++..+.. +. +.+++++.+.+|+|.||++++.. +.+|+..|+..|++.+..|+
T Consensus 256 ~~Lm~d~fGny~vqkl~~~~~~eq~~~i~~~lts~p~~fv~i~~N~~GTr~iQkl~~~~~~~dqI~~~~~ai~~~fl~L~ 335 (536)
T KOG2049|consen 256 PELMEDPFGNYLVQKLLEVCDEEQLTKIVSLLTSDPRLFVEICTNMYGTRAVQKLLGKSDSVDQISLFLDAIKPNFLHLI 335 (536)
T ss_pred HHHHhccchhHHHHHHHHhhCHHHHHHHHHHHhcCccceeEeeecCchhHHHHHHHhccccHHHHHHHHHHHHhhhHHhh
Confidence 446788888888887775 3344333322 22 46899999999999999999875 66788999999999999999
Q ss_pred cCcccchhhhhhhccCCHHHHHHHHHHHhhccccccccccccHHHHHHHHhhCHHHHHHHHHHhhhhHhHHhhcccCChh
Q 004342 482 TDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHV 561 (760)
Q Consensus 482 ~D~yGnhVIQKLLe~~s~eqr~~Ii~~L~g~v~~Ls~h~yGSrVIQklLe~as~eqr~~Lv~EL~g~i~~L~kDq~GNhV 561 (760)
+|.||+||||+||+.-++++.+.+++.+..++.++|+|.+||.|||++|.....++|..+++|+..+...|+.|+|||||
T Consensus 336 ~D~~g~~Viq~cl~~f~~~~~~~l~e~i~~~c~~iA~~~hGCcvLq~cl~~~~~~~rd~Lv~~i~~naL~Ls~d~~GNyv 415 (536)
T KOG2049|consen 336 KDKNGNHVIQRCLRVFSKEKNEFLYEAILRYCLDLATDQHGCCVLQKCLDYSRGEQRDRLVEEISRNALLLSNDPYGNYV 415 (536)
T ss_pred hhcchhHHHHHHHHhcCchhhhHHHHHHHHHHHHHHHhccccchhHHHhcchhHHHHHHHHHHHHHHhHhhhcCccccch
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHhhhcCChhHHHHHHHHhhhhHhhhccCCcchhHHHHHHhhCCChHHHHHHHHHHHH--HHHHHhhcccchHHHHHHH
Q 004342 562 IQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILE--SAFALAQDQYGNYVTQHVL 639 (760)
Q Consensus 562 LQklLe~~~~e~~~~Ii~~L~~~i~~Ls~hkyGS~VLQklLe~~~~~~q~~~Il~eL~~--~l~~La~Dq~GNyVVQ~LL 639 (760)
+|.+++.-.+.....|+..|.+++++|+.+||||+|||+||+.+... +..|+.|++. .+..|+.|+|||||||+.|
T Consensus 416 VQyvl~L~~~~~t~~i~~~L~g~~veLS~qKfgS~vVEk~L~~~~~~--~~~iV~ell~~~~~~~Ll~D~ygNyViq~AL 493 (536)
T KOG2049|consen 416 VQYVLELNDPSCTVNIAEKLRGHYVELSFQKFGSHVVEKLLKVRESS--RAQIVLELLSCDELDRLLRDPYGNYVIQTAL 493 (536)
T ss_pred hhhhhhhcCcchHHHHHHhhhhHHHHHHHHhhccHHHHHHHhcCcch--hhHHHHHHHccccHHHHhhCccchHHHHHHH
Confidence 99999998888899999999999999999999999999999987643 3678899998 8999999999999999999
Q ss_pred hcCCh----hhHHHHHHHHHHHHHHHhcCccHHHHHHH
Q 004342 640 ERGKS----YERTQILSKLAGKIVQMSQHKYASNVVEK 673 (760)
Q Consensus 640 e~~~~----k~R~~Iie~L~~~l~~Ls~~K~GS~VVEk 673 (760)
...+. ..+..++..++..+..|-..++|..+..+
T Consensus 494 ~vtk~~~~~~~~~~lv~~~~~~~~~lr~~p~~~~~~~~ 531 (536)
T KOG2049|consen 494 RVTKVKLREDLFGLLVQKLMPRIRLLRNNPGGNIALIK 531 (536)
T ss_pred HHhhhcccchhhHHHHHHHhhhhHHhhcCcccceeeeh
Confidence 98775 56777888888888888888888766544
No 11
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis]
Probab=99.94 E-value=4e-25 Score=247.87 Aligned_cols=314 Identities=18% Similarity=0.303 Sum_probs=255.2
Q ss_pred hHHhHHHHHHHHhcCCCcCHHHHHhhhcCCHHHHHHHHHHHhhchhhhccCcccchhhhhhhccCC--------------
Q 004342 433 ELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGS-------------- 498 (760)
Q Consensus 433 ~L~eI~GkvveLa~dq~gSRvIQ~lLe~~s~Eqr~~If~EL~p~~~eL~~D~yGnhVIQKLLe~~s-------------- 498 (760)
++++..|++++++.++-+|.++|.++..++..|...+|.++.+++..+++|+||+||+|++|+...
T Consensus 93 i~ee~~grel~l~tnqi~Sk~le~l~~f~d~~ql~~ff~~~~g~lr~i~~~r~gshVle~~L~~~a~~vg~e~~~~s~de 172 (650)
T KOG2188|consen 93 IFEEVYGRELDLATNQIGSKVLEDLLGFSDSRQLCDFFSALNGVLRSIAQHRFGSHVLESALEKLAALVGQEAALLSEDE 172 (650)
T ss_pred HHHHhccceeehhccchhHHHHHHHhccCCchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhCccccccchhh
Confidence 688899999999999999999999999999999999999999999999999999999999997621
Q ss_pred ------------HHHHHHHHHHHhhccc-cccccccccHHHHHHHHhhCH-----H-------H----------------
Q 004342 499 ------------PDQRKELAEKLVGQVL-PLSLQMYGCRVIQKALEVIEL-----H-------Q---------------- 537 (760)
Q Consensus 499 ------------~eqr~~Ii~~L~g~v~-~Ls~h~yGSrVIQklLe~as~-----e-------q---------------- 537 (760)
++....+.+.+..++. .|+.|.+|+||+.+++-.+.. + +
T Consensus 173 a~~~ke~p~~t~e~~~~~m~nei~~~~~~~l~~~~~gshv~rt~~l~l~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 252 (650)
T KOG2188|consen 173 AAVEKEGPFVTCENLLLLMLNEISPHVLKTLMELIFGSHVLRTILLLLFSMCPIAESEHKLALRKAAHRGMDDWDAVTTP 252 (650)
T ss_pred hcccccCcccccchHHHHHHHHhhHHHHHHHHHHHHhHHHHHHHHHHHccCcchhhhHHHHHHHHHhhccccchhhhhcC
Confidence 2234567778888988 999999999999988743211 0 0
Q ss_pred ------------------------------H-------------HHHHHHhh----------------------------
Q 004342 538 ------------------------------K-------------SQLVLELD---------------------------- 546 (760)
Q Consensus 538 ------------------------------r-------------~~Lv~EL~---------------------------- 546 (760)
+ ..|.-.+.
T Consensus 253 pqsFp~~l~~~i~~~l~~~~~~s~~~~~~~k~~~vDk~~s~v~q~~i~l~~~~~~~~~~~~~~~lv~~~~~~~e~d~~~~ 332 (650)
T KOG2188|consen 253 PQSFPQRLIVWICTGLSALQDVSESKKRDLKGYEVDKSSSNVLQKAIRLAFDENKNDQFMESPRLVTKFQLFNEKDGLWG 332 (650)
T ss_pred hhhccHHHHHHHhhhccccccchhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhhhhHHHhhhhccccCcccc
Confidence 0 00000000
Q ss_pred ---hhHhHHhhcccCChhhhHhhhcCChhHHHHHHHHhhhhHhhhccCCcchhHHHHHHhhCCChHHHHHHHHHHHHHHH
Q 004342 547 ---GHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAF 623 (760)
Q Consensus 547 ---g~i~~L~kDq~GNhVLQklLe~~~~e~~~~Ii~~L~~~i~~Ls~hkyGS~VLQklLe~~~~~~q~~~Il~eL~~~l~ 623 (760)
+....+..|+.|+|++..+++.++++....+...|.+++.+|+.|+.+..+||++|++..+.+....|++|+.+++.
T Consensus 333 kE~~~~k~~l~d~tgSrllE~Imeva~~~~~~lf~~~f~~rl~~La~~p~aNF~lQrli~h~~~~e~v~~v~eeL~P~~~ 412 (650)
T KOG2188|consen 333 KERSFLKELLSDQTGSRLLEVIMEVASESLLSLFYIVFCGRLDELAVHPIANFPLQRLINHLTSLEDVGSVIEELAPKLS 412 (650)
T ss_pred cccHHHHHHHhcCcccHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHhCccccchHHHHHHhccCHHHHHHHHHHHhHHHH
Confidence 00222557899999999999999999997778889999999999999999999999999988888999999988655
Q ss_pred HHhhcc-----------------------------------------------------------------cchHHHHHH
Q 004342 624 ALAQDQ-----------------------------------------------------------------YGNYVTQHV 638 (760)
Q Consensus 624 ~La~Dq-----------------------------------------------------------------~GNyVVQ~L 638 (760)
.|.... .|+.++|++
T Consensus 413 ~LL~~g~~gVv~sLia~~~rl~s~q~~~l~~Li~a~~~~~~~~k~il~~lL~~~~~~g~~~~~~~t~~~h~~ga~lle~l 492 (650)
T KOG2188|consen 413 SLLEQGNSGVVASLIAASARLGSYQDKMLQQLIQAFHAASESKKNILPCLLFSLTLFGCVGEWFLTEKFHQKGAVLLEEL 492 (650)
T ss_pred HHHHcCCchHhHHHHHHHHhhchhHHHHHHHHHHHHhcCChhhcchHHHHHHHhhhcccccccccHHHHhhchhHHHHHH
Confidence 554333 234444444
Q ss_pred HhcCChh---hHHHHHHHHHHHHHHHhcCccHHHHHHHHHHh--CCHHHHHHHHHHHhcCCCCcHHHHHhhcCCChhHHH
Q 004342 639 LERGKSY---ERTQILSKLAGKIVQMSQHKYASNVVEKCLEY--GDTAERELLIEEILGQSEENDNLLVMMKDQYANYVV 713 (760)
Q Consensus 639 Le~~~~k---~R~~Iie~L~~~l~~Ls~~K~GS~VVEk~L~~--a~~keRk~II~eLl~~~~~ke~L~~La~DqyGnyVI 713 (760)
+...++. .-..+.....++|.+++++++||||||.+|.. .+++.|++||..|- ....+|+++.+|++|+
T Consensus 493 v~f~k~~i~~litsll~L~~eqi~e~~~~~~~ShlIeavL~S~~l~~~~~~kLi~~l~------g~~~~La~~~~GSrv~ 566 (650)
T KOG2188|consen 493 VNFSKTHIQTLITSLLSLSEEQILEMSCNGVGSHLIEAVLASKDLGEKIKEKLINILD------GSFVTLALSTFGSRVF 566 (650)
T ss_pred HhhchhhhHHHHHHHHhhhHHHHHHHhcCCchHHHHHHHHHhccccHHHHHHHHHHhh------ccchheeecCcccHHH
Confidence 4443331 12233344467999999999999999999998 77889999999984 3678999999999999
Q ss_pred HHHHhhCCHHHHHHHHHHHHHhHHHHhhCCChHHHHHHH
Q 004342 714 QKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARF 752 (760)
Q Consensus 714 QklL~~~dd~~rk~Il~~Lk~~l~~L~~~~yGk~Vv~kL 752 (760)
.+||+.+++..|++|+++|...-..|+.++||+.|+.++
T Consensus 567 eK~wea~~~~~k~rIakeL~~~~~~vk~s~~gk~v~~~~ 605 (650)
T KOG2188|consen 567 EKCWEATDVLYKERIAKELVGIHNDVKSSKYGKFVMLNW 605 (650)
T ss_pred HHHHHHhhHHHHHHHHHHHHhhccccccCcchHHHHHhc
Confidence 999999999999999999999999999999999998764
No 12
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis]
Probab=99.86 E-value=1.1e-20 Score=212.29 Aligned_cols=287 Identities=18% Similarity=0.261 Sum_probs=219.7
Q ss_pred HHHHHHHhhchhhhccCcccchhhhhhhccCCHHHHHHHHHHHhhccccccccccccHHHHHHHHhhC------------
Q 004342 467 VSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIE------------ 534 (760)
Q Consensus 467 ~~If~EL~p~~~eL~~D~yGnhVIQKLLe~~s~eqr~~Ii~~L~g~v~~Ls~h~yGSrVIQklLe~as------------ 534 (760)
+.||+|..+....|++++.|++++|+++.-++..|...++.++.++++.++.|++|+||+|++|+...
T Consensus 91 n~i~ee~~grel~l~tnqi~Sk~le~l~~f~d~~ql~~ff~~~~g~lr~i~~~r~gshVle~~L~~~a~~vg~e~~~~s~ 170 (650)
T KOG2188|consen 91 NSIFEEVYGRELDLATNQIGSKVLEDLLGFSDSRQLCDFFSALNGVLRSIAQHRFGSHVLESALEKLAALVGQEAALLSE 170 (650)
T ss_pred hhHHHHhccceeehhccchhHHHHHHHhccCCchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhCccccccch
Confidence 34899999999999999999999999999999999999999999999999999999999999997531
Q ss_pred --------------HHHHHHHHHHhhhhHh-HHhhcccCChhhhHhhhcCChh---------------------------
Q 004342 535 --------------LHQKSQLVLELDGHVM-RCVRDQNGNHVIQKCIECVPAE--------------------------- 572 (760)
Q Consensus 535 --------------~eqr~~Lv~EL~g~i~-~L~kDq~GNhVLQklLe~~~~e--------------------------- 572 (760)
++...-|..|+.+++. .++.+.+|.||+..++.+....
T Consensus 171 dea~~~ke~p~~t~e~~~~~m~nei~~~~~~~l~~~~~gshv~rt~~l~l~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 250 (650)
T KOG2188|consen 171 DEAAVEKEGPFVTCENLLLLMLNEISPHVLKTLMELIFGSHVLRTILLLLFSMCPIAESEHKLALRKAAHRGMDDWDAVT 250 (650)
T ss_pred hhhcccccCcccccchHHHHHHHHhhHHHHHHHHHHHHhHHHHHHHHHHHccCcchhhhHHHHHHHHHhhccccchhhhh
Confidence 1122346678888888 8999999999998877642110
Q ss_pred -------------------------------HHHHHHHHhhhh-------------------------------------
Q 004342 573 -------------------------------KIEFIISAFRGQ------------------------------------- 584 (760)
Q Consensus 573 -------------------------------~~~~Ii~~L~~~------------------------------------- 584 (760)
.+...++.....
T Consensus 251 ~~pqsFp~~l~~~i~~~l~~~~~~s~~~~~~~k~~~vDk~~s~v~q~~i~l~~~~~~~~~~~~~~~lv~~~~~~~e~d~~ 330 (650)
T KOG2188|consen 251 TPPQSFPQRLIVWICTGLSALQDVSESKKRDLKGYEVDKSSSNVLQKAIRLAFDENKNDQFMESPRLVTKFQLFNEKDGL 330 (650)
T ss_pred cChhhccHHHHHHHhhhccccccchhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhhhhHHHhhhhccccCcc
Confidence 000000000000
Q ss_pred -------HhhhccCCcchhHHHHHHhhCCChHHHHHHHHHHHHHHHHHhhcccchHHHHHHHhcCC-hhhHHHHHHHHHH
Q 004342 585 -------VATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGK-SYERTQILSKLAG 656 (760)
Q Consensus 585 -------i~~Ls~hkyGS~VLQklLe~~~~~~q~~~Il~eL~~~l~~La~Dq~GNyVVQ~LLe~~~-~k~R~~Iie~L~~ 656 (760)
...+..|+.||++++.+++.+... ....+...+...+..|+.++.+|++||++|++.. .++...|++.|.+
T Consensus 331 ~~kE~~~~k~~l~d~tgSrllE~Imeva~~~-~~~lf~~~f~~rl~~La~~p~aNF~lQrli~h~~~~e~v~~v~eeL~P 409 (650)
T KOG2188|consen 331 WGKERSFLKELLSDQTGSRLLEVIMEVASES-LLSLFYIVFCGRLDELAVHPIANFPLQRLINHLTSLEDVGSVIEELAP 409 (650)
T ss_pred cccccHHHHHHHhcCcccHHHHHHHHhcCHH-HHHHHHHHHHHHHHHHHhCccccchHHHHHHhccCHHHHHHHHHHHhH
Confidence 011224677888888888888744 4466667777889999999999999999999988 7888999999988
Q ss_pred HHHHHhcCcc-----------------------------------------------------------------HHHHH
Q 004342 657 KIVQMSQHKY-----------------------------------------------------------------ASNVV 671 (760)
Q Consensus 657 ~l~~Ls~~K~-----------------------------------------------------------------GS~VV 671 (760)
++..|..+.+ |+-++
T Consensus 410 ~~~~LL~~g~~gVv~sLia~~~rl~s~q~~~l~~Li~a~~~~~~~~k~il~~lL~~~~~~g~~~~~~~t~~~h~~ga~ll 489 (650)
T KOG2188|consen 410 KLSSLLEQGNSGVVASLIAASARLGSYQDKMLQQLIQAFHAASESKKNILPCLLFSLTLFGCVGEWFLTEKFHQKGAVLL 489 (650)
T ss_pred HHHHHHHcCCchHhHHHHHHHHhhchhHHHHHHHHHHHHhcCChhhcchHHHHHHHhhhcccccccccHHHHhhchhHHH
Confidence 8877764443 33333
Q ss_pred HHHHHhCCHHHHHHHHHHHhcCCCCcHHHHHhhcCCChhHHHHHHHhh--CCHHHHHHHHHHHHHhHHHHhhCCChHHHH
Q 004342 672 EKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEK--CNEKLRETLISRIRVHCDALKKYTYGKHIV 749 (760)
Q Consensus 672 Ek~L~~a~~keRk~II~eLl~~~~~ke~L~~La~DqyGnyVIQklL~~--~dd~~rk~Il~~Lk~~l~~L~~~~yGk~Vv 749 (760)
|.++.+..+ ....+|..|+... .++|.+++++.+|++||+.+|++ .+...|++|+..+.++..+|+.+++|+||+
T Consensus 490 e~lv~f~k~-~i~~litsll~L~--~eqi~e~~~~~~~ShlIeavL~S~~l~~~~~~kLi~~l~g~~~~La~~~~GSrv~ 566 (650)
T KOG2188|consen 490 EELVNFSKT-HIQTLITSLLSLS--EEQILEMSCNGVGSHLIEAVLASKDLGEKIKEKLINILDGSFVTLALSTFGSRVF 566 (650)
T ss_pred HHHHhhchh-hhHHHHHHHHhhh--HHHHHHHhcCCchHHHHHHHHHhccccHHHHHHHHHHhhccchheeecCcccHHH
Confidence 333333221 1123333333332 47899999999999999999999 567799999999999999999999999999
Q ss_pred HHHHHHHh
Q 004342 750 ARFEQLYG 757 (760)
Q Consensus 750 ~kLekl~~ 757 (760)
++|++.++
T Consensus 567 eK~wea~~ 574 (650)
T KOG2188|consen 567 EKCWEATD 574 (650)
T ss_pred HHHHHHhh
Confidence 99999876
No 13
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=99.86 E-value=2.3e-20 Score=208.00 Aligned_cols=288 Identities=18% Similarity=0.266 Sum_probs=236.6
Q ss_pred HHHHHHHHHHHhhchhhhccCcccchhhhhhhccC-CHHHHHH----HHHHHhhccccccccccccHHHHHHHHhhCHHH
Q 004342 463 AEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHG-SPDQRKE----LAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQ 537 (760)
Q Consensus 463 ~Eqr~~If~EL~p~~~eL~~D~yGnhVIQKLLe~~-s~eqr~~----Ii~~L~g~v~~Ls~h~yGSrVIQklLe~as~eq 537 (760)
..|+..+..|.+-.=-.-...+-.+-+.+||=..- +.+.|.. |++.+++++.+|+.-+..|||||+++.+++.++
T Consensus 111 ~~e~K~l~kerK~~rp~~~~~qe~kslWEkLR~k~~~ke~R~klv~el~~likg~i~~lv~aHDtSRViQt~Vky~s~~~ 190 (652)
T KOG2050|consen 111 RKERKKLLKERKSKRPTYEISQEAKSLWEKLRRKTTPKEERDKLVSELYKLIKGKISKLVFAHDTSRVIQTCVKYGSEAQ 190 (652)
T ss_pred hHHHHHHHHHHHhcCChhHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHhhhHHHHHHHhhhHHHHHHHHHhcCHHH
Confidence 34555555554322222222333344555554443 3455554 445568999999999999999999999999999
Q ss_pred HHHHHHHhhhhHhHHhhcccCChhhhHhhhcCChhHHHHHHHHhhhhHhhhccCCcchhHHHHHHhhCCChHHHHHHHHH
Q 004342 538 KSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDE 617 (760)
Q Consensus 538 r~~Lv~EL~g~i~~L~kDq~GNhVLQklLe~~~~e~~~~Ii~~L~~~i~~Ls~hkyGS~VLQklLe~~~~~~q~~~Il~e 617 (760)
|.+|+.||.+.+++|+++.||-|++|+++.++++..+..|++.|.++++.|..|..|+.|++.++....+..|++.|+.|
T Consensus 191 r~~if~eL~p~~v~l~kskY~k~~v~KmLkyGsk~q~a~iI~sl~Ghv~kLlRH~eaa~Vve~ay~~~A~l~Qr~~li~E 270 (652)
T KOG2050|consen 191 REQIFEELLPFFVELAKSKYAKFFVQKMLKYGSKAQKAKIINSLRGHVVKLLRHREAAYVVEYAYNDFATLEQRQYLIQE 270 (652)
T ss_pred HHHHHHHHhHHHHHHHHhHHHHHHHHHHHhcCCHHHHHHHHHHHhhhHHHHHhhhHHHHHHHHHHHhhccHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999988888999999999
Q ss_pred HHHHHHHHhhcccchHHHHHHHhcCChhhHHHHHHHHHHHHHHHhcCc-----cHHHHHHHHHHhCCHHHHHHHHHHHhc
Q 004342 618 ILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHK-----YASNVVEKCLEYGDTAERELLIEEILG 692 (760)
Q Consensus 618 L~~~l~~La~Dq~GNyVVQ~LLe~~~~k~R~~Iie~L~~~l~~Ls~~K-----~GS~VVEk~L~~a~~keRk~II~eLl~ 692 (760)
+......++.+.. -..|..+++. .++.|..|+..|.+.+..++... .=..++...|..++++++..++..+
T Consensus 271 fYG~efqlfK~sn-~~Tl~kil~~-~pekk~~I~~~l~~~I~~v~eKg~v~~tivHk~mlEy~~~ade~e~~e~l~ll-- 346 (652)
T KOG2050|consen 271 FYGDEFQLFKDSN-DKTLDKILAE-APEKKASILRHLKAIITPVAEKGSVDHTIVHKLMLEYLTIADEEEKSELLELL-- 346 (652)
T ss_pred HhhHHHHHHhccC-cccHHHHHHh-ChHhHHHHHHHHHHHhHHHhhcchhHHHHHHHHHHHHHHhCCHHHHHHHHHHH--
Confidence 9999999999833 3345555554 35677888888888776655322 2344555566779999999999888
Q ss_pred CCCCcHHHHHhhcCCChhHHHHHHHhhCCHHHHHHHHHHHHHhHHHHhhCCChHHHHHHHHHHHhc
Q 004342 693 QSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLYGE 758 (760)
Q Consensus 693 ~~~~ke~L~~La~DqyGnyVIQklL~~~dd~~rk~Il~~Lk~~l~~L~~~~yGk~Vv~kLekl~~~ 758 (760)
++.+.+|+..+-|+.|--+|+-.+..+.|+.|++.++.|+..++++.||+.|+-.+..++||
T Consensus 347 ----~elv~e~vHT~dGS~vAm~li~~a~aKeRK~IiK~~K~h~~K~A~~~yGh~vlia~ldc~DD 408 (652)
T KOG2050|consen 347 ----KELVPEMVHTRDGSRVAMKLIWHATAKERKLIIKNMKEHVEKIANDEYGHLVLIALLDCTDD 408 (652)
T ss_pred ----HHHHHHHhcCCchHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHhhccCceehhhhhcccch
Confidence 46899999999999999999999999999999999999999999999999999999888876
No 14
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=99.62 E-value=1.3e-15 Score=174.98 Aligned_cols=290 Identities=20% Similarity=0.244 Sum_probs=229.0
Q ss_pred CHHHHHHHHHHHhhchhhhccCcccchhhhhhhccCCHHHHHHHHHHHhhccccccccccccHHHHHHHHhhCHHH-HHH
Q 004342 462 SAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQ-KSQ 540 (760)
Q Consensus 462 s~Eqr~~If~EL~p~~~eL~~D~yGnhVIQKLLe~~s~eqr~~Ii~~L~g~v~~Ls~h~yGSrVIQklLe~as~eq-r~~ 540 (760)
+..+.+.+.-++.++..+|..|-.||-|+||+|++++...++........++..+..|++|.++.|++++++..+. ...
T Consensus 533 S~pEied~ai~mLDe~~elsSdylGNtVvqkfFe~sS~~ik~aml~r~s~ylts~gvHknGtw~~qk~ik~a~te~qik~ 612 (1007)
T KOG4574|consen 533 SAPEIEDLAILMLDELPELSSDYLGNTVVQKFFELSSDIIKDAMLRRGSKYLTSMGVHKNGTWACQKIIKMAFTERQIKL 612 (1007)
T ss_pred cchhHHHHHHHHhccCCcchhhhhcchhhHHHHhhccHHHHHHHHhhhhhhhhhccccccchHHHHHHHHHhhchhhhhe
Confidence 3456677778889999999999999999999999999999999999999999999999999999999999986554 455
Q ss_pred HHHHhhhhHhHHhhcccCChhhhHhhhcCChhHHHHHHHHhhhhHhhhccCCcchhHHHHHHhhCCChHHHHHHHHHH--
Q 004342 541 LVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEI-- 618 (760)
Q Consensus 541 Lv~EL~g~i~~L~kDq~GNhVLQklLe~~~~e~~~~Ii~~L~~~i~~Ls~hkyGS~VLQklLe~~~~~~q~~~Il~eL-- 618 (760)
+++-.++....+++|++||||+|.+|...-+. -.+|++.+..++.++.+..||++-+.+||+...-.-+.+.+..+.
T Consensus 613 iv~g~dpyc~~l~~dqfgnyvaqd~LkF~fp~-nsFVfE~v~s~~~~ivQsrfGsravrAcle~lNa~~e~qsl~~~s~i 691 (1007)
T KOG4574|consen 613 IVRGVDPYCTPLLNDQFGNYVAQDSLKFGFPW-NSFVFESVFSHFWDIVQSRFGSRAVRACLEALNANTEDQSLVRESCI 691 (1007)
T ss_pred eeeccCcchhhHHHHhhcceeeeeehhccCcc-chHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhccCchhhhhhhhhhh
Confidence 66788889999999999999999999986554 367789999999999999999999999999654322223333322
Q ss_pred HHHHHHHhhcccchHHHHHHHhcCChhhHH-HHHHHHHHHHHHHhcCccHHHHHHHHHHhCC-HHHHHHHHHHHhcCCCC
Q 004342 619 LESAFALAQDQYGNYVTQHVLERGKSYERT-QILSKLAGKIVQMSQHKYASNVVEKCLEYGD-TAERELLIEEILGQSEE 696 (760)
Q Consensus 619 ~~~l~~La~Dq~GNyVVQ~LLe~~~~k~R~-~Iie~L~~~l~~Ls~~K~GS~VVEk~L~~a~-~keRk~II~eLl~~~~~ 696 (760)
+.....++.+..|-..|.++|+.+....|. .++..+.++++.+|+|+.|+-+|.|+++.+. ++.|++|++.|+.....
T Consensus 692 Is~ss~latnsng~llvtw~lDns~~~nrh~~l~~~lt~el~~lC~h~Lgsttv~Kl~n~~qepvs~ekii~hlf~~~n~ 771 (1007)
T KOG4574|consen 692 ISKSSYLATNSNGLLLVTWLLDNSSLPNRHTILAHGLTKELVMLCFHKLGSTTVLKLLNLRQEPVSREKIIEHLFHLRNF 771 (1007)
T ss_pred hhchhhhhhcCccceeeeeecccccccchhhHHhhhhhhccchhhhhhccchhhhhhhhcCCChHHHHHHHHHHhhcccc
Confidence 233577889999999999999988765554 4556677999999999999999999999855 55599999999842111
Q ss_pred ------------------------cHHHHHhhcCCChhHHHHHHHhhCCHHHHHHHHHHHHHhHHHHhhCCChHHHHHHH
Q 004342 697 ------------------------NDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARF 752 (760)
Q Consensus 697 ------------------------ke~L~~La~DqyGnyVIQklL~~~dd~~rk~Il~~Lk~~l~~L~~~~yGk~Vv~kL 752 (760)
++.+.....|+++.+|.|.|+.......- ++ ++|...+.-.+.+++|++-+..+
T Consensus 772 kd~~lt~Vl~~~~~gpmfiikvi~~p~iel~f~dQf~kvvrq~il~~~a~~na-rv-~~LleevgliSasksgs~s~q~~ 849 (1007)
T KOG4574|consen 772 KDSALTEVLTEANYGPMFIIKVITKPTIELAFRDQFIKVVRQVILNSPAVSNA-RV-QRLLEEVGLISASKSGSQSIQMH 849 (1007)
T ss_pred ccchhhhhhhhhccccceeeeeeccccchHHHHHHHHHHHHHHHHhcCCccHH-HH-HHHHHHHhhhccccchhHHHHhh
Confidence 23355566788888988888887433211 11 56666677777888888866554
Q ss_pred HH
Q 004342 753 EQ 754 (760)
Q Consensus 753 ek 754 (760)
.+
T Consensus 850 ~s 851 (1007)
T KOG4574|consen 850 IS 851 (1007)
T ss_pred hc
Confidence 43
No 15
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=99.29 E-value=2e-12 Score=149.14 Aligned_cols=141 Identities=22% Similarity=0.307 Sum_probs=124.3
Q ss_pred HHHHHHHHhhhhHhHHhhcccCChhhhHhhhcCChhHHHHHHHHhhhhHhhhccCCcchhHHHHHHhhCCChHHHHHHHH
Q 004342 537 QKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVD 616 (760)
Q Consensus 537 qr~~Lv~EL~g~i~~L~kDq~GNhVLQklLe~~~~e~~~~Ii~~L~~~i~~Ls~hkyGS~VLQklLe~~~~~~q~~~Il~ 616 (760)
+...+..+..+...++-.|-.||.|+|++++....-.++.+......++..+..|++|.+..|++++.+..+.+.+.++.
T Consensus 536 Eied~ai~mLDe~~elsSdylGNtVvqkfFe~sS~~ik~aml~r~s~ylts~gvHknGtw~~qk~ik~a~te~qik~iv~ 615 (1007)
T KOG4574|consen 536 EIEDLAILMLDELPELSSDYLGNTVVQKFFELSSDIIKDAMLRRGSKYLTSMGVHKNGTWACQKIIKMAFTERQIKLIVR 615 (1007)
T ss_pred hHHHHHHHHhccCCcchhhhhcchhhHHHHhhccHHHHHHHHhhhhhhhhhccccccchHHHHHHHHHhhchhhhheeee
Confidence 34445555566677788899999999999999988888888888889999999999999999999999998888888888
Q ss_pred HHHHHHHHHhhcccchHHHHHHHhcCChhhHHHHHHHHHHHHHHHhcCccHHHHHHHHHHhC
Q 004342 617 EILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYG 678 (760)
Q Consensus 617 eL~~~l~~La~Dq~GNyVVQ~LLe~~~~k~R~~Iie~L~~~l~~Ls~~K~GS~VVEk~L~~a 678 (760)
........++.|+|||||+|.+|.++-+.. ..|++.+..+++.+.+.+||++.+.+||+..
T Consensus 616 g~dpyc~~l~~dqfgnyvaqd~LkF~fp~n-sFVfE~v~s~~~~ivQsrfGsravrAcle~l 676 (1007)
T KOG4574|consen 616 GVDPYCTPLLNDQFGNYVAQDSLKFGFPWN-SFVFESVFSHFWDIVQSRFGSRAVRACLEAL 676 (1007)
T ss_pred ccCcchhhHHHHhhcceeeeeehhccCccc-hHHHHHHHHHHHHHHHHhhhhHHHHHHHHHh
Confidence 888899999999999999999999887665 5678999999999999999999999999973
No 16
>PF00806 PUF: Pumilio-family RNA binding repeat; InterPro: IPR001313 The drosophila pumilio gene codes for an unusual protein that binds through the Puf domain that usually occurs as a tandem repeat of eight domains. The FBF-2 protein of Caenorhabditis elegans also has a Puf domain. Both proteins function as translational repressors in early embryonic development by binding sequences in the 3' UTR of target mRNAs [, ]. The same type of repetitive domain has been found in in a number of other proteins from all eukaryotic kingdoms. The Puf proteins characterised to date have been reported to bind to 3'-untranslated region (UTR) sequences encompassing a so-called UGUR tetranucleotide motif and thereby to repress gene expression by affecting mRNA translation or stability. In Saccharomyces cerevisiae (Baker's yeast), five proteins, termed Puf1p to Puf5p, bear six to eight Puf repeats []. Puf3p binds nearly exclusively to cytoplasmic mRNAs that encode mitochondrial proteins; Puf1p and Puf2p interact preferentially with mRNAs encoding membrane-associated proteins; Puf4p preferentially binds mRNAs encoding nucleolar ribosomal RNA-processing factors; and Puf5p is associated with mRNAs encoding chromatin modifiers and components of the spindle pole body. This suggests the existence of an extensive network of RNA-protein interactions that coordinate the post-transcriptional fate of large sets of cytotopically and functionally related RNAs through each stage of its lifecycle.; GO: 0003723 RNA binding; PDB: 3BX2_A 4DZS_B 3BX3_B 3BWT_A 3GVT_B 3GVO_A 1IB2_A 3Q0N_A 2YJY_A 1M8Z_A ....
Probab=98.09 E-value=1.3e-06 Score=64.52 Aligned_cols=35 Identities=43% Similarity=0.727 Sum_probs=25.5
Q ss_pred HHhhchhhhccCcccchhhhhhhccCCHHHHHHHH
Q 004342 472 EVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELA 506 (760)
Q Consensus 472 EL~p~~~eL~~D~yGnhVIQKLLe~~s~eqr~~Ii 506 (760)
|+.+++.+|++|+||||||||+|++++++++..|+
T Consensus 1 ~i~~~~~~l~~d~~Gn~VvQk~le~~~~~~~~~il 35 (35)
T PF00806_consen 1 EIKGNLVELSKDQYGNYVVQKCLEHASPEQRQLIL 35 (35)
T ss_dssp CHTTTHHHHHTSTTHHHHHHHHHHHSSHHHHHHHH
T ss_pred ChHHHHHHHHhccccCHHHHHHHHHCCHHHHHhhC
Confidence 35677777777777777777777777777776653
No 17
>smart00025 Pumilio Pumilio-like repeats. Pumilio-like repeats that bind RNA.
Probab=97.64 E-value=1.6e-05 Score=57.75 Aligned_cols=32 Identities=41% Similarity=0.642 Sum_probs=16.5
Q ss_pred hhchhhhccCcccchhhhhhhccCCHHHHHHH
Q 004342 474 LPHASKLMTDVFGNYVIQKFFEHGSPDQRKEL 505 (760)
Q Consensus 474 ~p~~~eL~~D~yGnhVIQKLLe~~s~eqr~~I 505 (760)
++++.+|++|+|||+||||+|++++++++..|
T Consensus 3 ~~~~~~l~~~~~g~~viqk~l~~~~~~~~~~i 34 (36)
T smart00025 3 KGHLLELSKDQYGNRVVQKLLEHASESQREQI 34 (36)
T ss_pred hHHHHHHHhcchhhHHHHHHHHHCCHHHHHHh
Confidence 34455555555555555555555555544443
No 18
>PF00806 PUF: Pumilio-family RNA binding repeat; InterPro: IPR001313 The drosophila pumilio gene codes for an unusual protein that binds through the Puf domain that usually occurs as a tandem repeat of eight domains. The FBF-2 protein of Caenorhabditis elegans also has a Puf domain. Both proteins function as translational repressors in early embryonic development by binding sequences in the 3' UTR of target mRNAs [, ]. The same type of repetitive domain has been found in in a number of other proteins from all eukaryotic kingdoms. The Puf proteins characterised to date have been reported to bind to 3'-untranslated region (UTR) sequences encompassing a so-called UGUR tetranucleotide motif and thereby to repress gene expression by affecting mRNA translation or stability. In Saccharomyces cerevisiae (Baker's yeast), five proteins, termed Puf1p to Puf5p, bear six to eight Puf repeats []. Puf3p binds nearly exclusively to cytoplasmic mRNAs that encode mitochondrial proteins; Puf1p and Puf2p interact preferentially with mRNAs encoding membrane-associated proteins; Puf4p preferentially binds mRNAs encoding nucleolar ribosomal RNA-processing factors; and Puf5p is associated with mRNAs encoding chromatin modifiers and components of the spindle pole body. This suggests the existence of an extensive network of RNA-protein interactions that coordinate the post-transcriptional fate of large sets of cytotopically and functionally related RNAs through each stage of its lifecycle.; GO: 0003723 RNA binding; PDB: 3BX2_A 4DZS_B 3BX3_B 3BWT_A 3GVT_B 3GVO_A 1IB2_A 3Q0N_A 2YJY_A 1M8Z_A ....
Probab=97.57 E-value=4.6e-05 Score=56.19 Aligned_cols=35 Identities=40% Similarity=0.639 Sum_probs=32.2
Q ss_pred hHHHHHHHHhcCCCcCHHHHHhhhcCCHHHHHHHH
Q 004342 436 DIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVF 470 (760)
Q Consensus 436 eI~GkvveLa~dq~gSRvIQ~lLe~~s~Eqr~~If 470 (760)
++.+++.+++.|++||||||++|+.++++++..|+
T Consensus 1 ~i~~~~~~l~~d~~Gn~VvQk~le~~~~~~~~~il 35 (35)
T PF00806_consen 1 EIKGNLVELSKDQYGNYVVQKCLEHASPEQRQLIL 35 (35)
T ss_dssp CHTTTHHHHHTSTTHHHHHHHHHHHSSHHHHHHHH
T ss_pred ChHHHHHHHHhccccCHHHHHHHHHCCHHHHHhhC
Confidence 37789999999999999999999999999998875
No 19
>smart00025 Pumilio Pumilio-like repeats. Pumilio-like repeats that bind RNA.
Probab=97.35 E-value=0.00014 Score=52.69 Aligned_cols=34 Identities=38% Similarity=0.662 Sum_probs=31.8
Q ss_pred HHHHHHHHhcCCCcCHHHHHhhhcCCHHHHHHHH
Q 004342 437 IAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVF 470 (760)
Q Consensus 437 I~GkvveLa~dq~gSRvIQ~lLe~~s~Eqr~~If 470 (760)
+.+++.+++.|++||||||++|+.++++++..|+
T Consensus 2 ~~~~~~~l~~~~~g~~viqk~l~~~~~~~~~~i~ 35 (36)
T smart00025 2 IKGHLLELSKDQYGNRVVQKLLEHASESQREQII 35 (36)
T ss_pred chHHHHHHHhcchhhHHHHHHHHHCCHHHHHHhh
Confidence 5789999999999999999999999999998876
No 20
>PRK05686 fliG flagellar motor switch protein G; Validated
Probab=95.49 E-value=3.9 Score=45.46 Aligned_cols=117 Identities=16% Similarity=0.200 Sum_probs=62.7
Q ss_pred cchHHHHHHHhcCChhhHHHHHHHHHHHHHHHhcCccHHHHHHHHHHh-----CCHHHHHHHHHHHhcCCCCcHHHHHhh
Q 004342 630 YGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEY-----GDTAERELLIEEILGQSEENDNLLVMM 704 (760)
Q Consensus 630 ~GNyVVQ~LLe~~~~k~R~~Iie~L~~~l~~Ls~~K~GS~VVEk~L~~-----a~~keRk~II~eLl~~~~~ke~L~~La 704 (760)
-|...+-.+|...+....+.|++.|...=.++ +-.|-+++|.+ .++.....|++++= ...+.+|
T Consensus 202 ~g~~~~a~Iln~~~~~~~~~il~~L~~~d~~~-----a~~Ir~~mF~Fedl~~l~~~~l~~ll~~v~------~~~L~~A 270 (339)
T PRK05686 202 GGVKTVAEILNNLDRQTEKTILESLEEEDPEL-----AEKIKDLMFVFEDLVDLDDRSIQRLLREVD------NDVLALA 270 (339)
T ss_pred CcHHHHHHHHhcCCchHHHHHHHHHHhhCHHH-----HHHHHHHhcCHHHHhcCCHHHHHHHHHhCC------HHHHHHH
Confidence 46677778888888777778888876533333 34555555554 34455555555551 2233333
Q ss_pred cCCChhHHHHHHHhhCCHHHHHHHHHHHHHh----HHHHhhCCChHHHHHHHHHHHhcC
Q 004342 705 KDQYANYVVQKILEKCNEKLRETLISRIRVH----CDALKKYTYGKHIVARFEQLYGEG 759 (760)
Q Consensus 705 ~DqyGnyVIQklL~~~dd~~rk~Il~~Lk~~----l~~L~~~~yGk~Vv~kLekl~~~g 759 (760)
.--...-+.+++|.+-....++.|-+++... +.++. .-=+.|+..+-++.++|
T Consensus 271 Lkga~~~~~~~il~nmS~R~a~~l~eel~~~g~v~~~dve--~Aq~~I~~~~r~l~~~G 327 (339)
T PRK05686 271 LKGASEELREKFLSNMSKRAAEMLREDLEALGPVRLSDVE--EAQKKIVQIARRLAEAG 327 (339)
T ss_pred HCCCCHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHH--HHHHHHHHHHHHHHHCC
Confidence 3333344555555555555555554444321 11111 11234777777777766
No 21
>TIGR00207 fliG flagellar motor switch protein FliG. The fliG protein along with fliM and fliN interact to form the switch complex of the bacterial flagellar motor located at the base of the basal body. This complex interacts with chemotaxis proteins (eg CHEY). In addition the complex interacts with other components of the motor that determine the direction of flagellar rotation. The model contains putative members of the fliG family at scores of less than 100 from Agrobacterium radiobacter and Sinorhizobium meliloti as well as fliG-like genes from treponema pallidum and Borrelia burgdorferi. That is why the suggested cutoff is set at 20 but was set at 100 to construct the family.
Probab=94.62 E-value=9.1 Score=42.71 Aligned_cols=117 Identities=14% Similarity=0.165 Sum_probs=60.8
Q ss_pred cchHHHHHHHhcCChhhHHHHHHHHHHHHHHHhcCccHHHHHHHHHHh-----CCHHHHHHHHHHHhcCCCCcHHHHHhh
Q 004342 630 YGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEY-----GDTAERELLIEEILGQSEENDNLLVMM 704 (760)
Q Consensus 630 ~GNyVVQ~LLe~~~~k~R~~Iie~L~~~l~~Ls~~K~GS~VVEk~L~~-----a~~keRk~II~eLl~~~~~ke~L~~La 704 (760)
-|.-.+..+|...+....+.|++.|...=.++ +..|-+++|.+ .+++....|++++= ...+.+|
T Consensus 199 gG~~~~a~ILN~~~~~~~~~il~~L~~~dp~l-----a~~Ir~~mF~Fedl~~ld~~~l~~llrev~------~~~L~~A 267 (338)
T TIGR00207 199 GGVRAVAEIINLMDRKTEKTIITSLEEFDPEL-----AEEIKKEMFVFEDIVDLDDRSIQRVLREVD------SEDLLLA 267 (338)
T ss_pred ChHHHHHHHHHhCCchHHHHHHHHHHHhCHHH-----HHHHHHHccCHHHHhcCCHHHHHHHHHhCC------HHHHHHH
Confidence 36677788888888888888888876533333 24555555544 34455555555551 1222333
Q ss_pred cCCChhHHHHHHHhhCCHHHHHHHHHHHHHh----HHHHhhCCChHHHHHHHHHHHhcC
Q 004342 705 KDQYANYVVQKILEKCNEKLRETLISRIRVH----CDALKKYTYGKHIVARFEQLYGEG 759 (760)
Q Consensus 705 ~DqyGnyVIQklL~~~dd~~rk~Il~~Lk~~----l~~L~~~~yGk~Vv~kLekl~~~g 759 (760)
.---.--+.+++|.+-+...++.|.+++... +.++. .-=+.|+..+-++.++|
T Consensus 268 Lkga~~e~~~~il~nmS~R~a~~l~ee~~~~GpV~~sdvE--~Aq~~Iv~~~r~L~~~G 324 (338)
T TIGR00207 268 LKGAEQPLREKFLNNMSQRAAEILKEDMEFLGPVRLKDVE--EAQKKIVSIVRKLEETG 324 (338)
T ss_pred HCcCCHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHH--HHHHHHHHHHHHHHHCC
Confidence 3333333555555555444444444443210 11111 11245777777777666
No 22
>PRK05686 fliG flagellar motor switch protein G; Validated
Probab=92.13 E-value=15 Score=40.97 Aligned_cols=143 Identities=14% Similarity=0.247 Sum_probs=69.7
Q ss_pred cCHHHHHhhhc-CCHHHHHHHHHHHhhchhhhccCcccchhhhhhhccCCHHHHHHHHHHHhhccccccccccccHHHHH
Q 004342 450 GSRFIQQKLEH-CSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQK 528 (760)
Q Consensus 450 gSRvIQ~lLe~-~s~Eqr~~If~EL~p~~~eL~~D~yGnhVIQKLLe~~s~eqr~~Ii~~L~g~v~~Ls~h~yGSrVIQk 528 (760)
|-..+..+|.. .+.++-..|++++.+.-. .++++.|- ..+++.+..++.....++..++...--..+-.+
T Consensus 81 g~~~~~~iL~~~l~~~~a~~il~~i~~~~~--------~~~fe~L~-~ld~~~l~~lL~~EhpqtiA~iLs~l~~~~aa~ 151 (339)
T PRK05686 81 GIDYARSLLEKALGEEKADSILERILESLG--------TSGFDFLR-KMDPQQLANFIRNEHPQTIALILSYLKPDQAAE 151 (339)
T ss_pred hHHHHHHHHHHHcCHHHHHHHHHHHhcccc--------CchHHHHh-cCCHHHHHHHHHhcCHHHHHHHHhCCCHHHHHH
Confidence 34456666664 566666666666654321 24555333 446666666666555554444444444444444
Q ss_pred HHHhhCHHHHHHHHHHhhhhHhHHhhcccCChhhhHhhhcCChhHHHHHHHHhhhhHhhhc----cCCcchhHHHHHHhh
Q 004342 529 ALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLS----THPYGCRVIQRVLEH 604 (760)
Q Consensus 529 lLe~as~eqr~~Lv~EL~g~i~~L~kDq~GNhVLQklLe~~~~e~~~~Ii~~L~~~i~~Ls----~hkyGS~VLQklLe~ 604 (760)
+|...+.+.+..++..+- -++..+++..+.|-+.|...+..+. ...-|...+-.+|..
T Consensus 152 vL~~l~~~~~~~v~~ria------------------~l~~v~~~~~~~i~~~L~~~l~~~~~~~~~~~~g~~~~a~Iln~ 213 (339)
T PRK05686 152 ILSLLPEELRADVMMRIA------------------TLEGVSPEALKEVEEVLEKKLSSMANADRTKMGGVKTVAEILNN 213 (339)
T ss_pred HHHhCCHHHHHHHHHHHH------------------ccCCCCHHHHHHHHHHHHHHHhhcccccccccCcHHHHHHHHhc
Confidence 444444444443333221 0122344444444444444444322 223466666777776
Q ss_pred CCChHHHHHHHHHHHH
Q 004342 605 CSDEQQGQCIVDEILE 620 (760)
Q Consensus 605 ~~~~~q~~~Il~eL~~ 620 (760)
.... ..+.+++.|..
T Consensus 214 ~~~~-~~~~il~~L~~ 228 (339)
T PRK05686 214 LDRQ-TEKTILESLEE 228 (339)
T ss_pred CCch-HHHHHHHHHHh
Confidence 6533 34456655554
No 23
>PF04286 DUF445: Protein of unknown function (DUF445); InterPro: IPR007383 This entry contains proteins of unknown function. They are predicted to be transmembrane proteins with 2 or 3 TM domains.
Probab=91.45 E-value=21 Score=39.08 Aligned_cols=49 Identities=24% Similarity=0.224 Sum_probs=30.6
Q ss_pred hhhHHHHHHHHHHHHHHHhcC--ccHHHHHHHHHHhCCHHHHHHHHHHHhc
Q 004342 644 SYERTQILSKLAGKIVQMSQH--KYASNVVEKCLEYGDTAERELLIEEILG 692 (760)
Q Consensus 644 ~k~R~~Iie~L~~~l~~Ls~~--K~GS~VVEk~L~~a~~keRk~II~eLl~ 692 (760)
+..++.+.+.+...+..+... -.=..+|+.-+..-+.++...++...++
T Consensus 289 ~~l~~~i~~~i~~~l~~~v~~~~~~i~~~V~~~l~~~~~~~l~~~i~~~v~ 339 (367)
T PF04286_consen 289 PELREKINRFIENLLERIVESNHIDIGEIVEEKLNSLDDEELEELIESKVG 339 (367)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 556666666666666666655 3445555555566677766666666655
No 24
>PF08144 CPL: CPL (NUC119) domain; InterPro: IPR012959 This C-terminal domain is found in Penguin-like proteins (CPL) and is associated with Pumilio like repeats [].; GO: 0003723 RNA binding
Probab=90.47 E-value=0.46 Score=46.78 Aligned_cols=72 Identities=8% Similarity=0.193 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHhcCccHHHHHHHHHHhCCHHH---HHHHHHHHhcC--CCCcHHHHHhhcCCChhHHHHHHHhhCC
Q 004342 650 ILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAE---RELLIEEILGQ--SEENDNLLVMMKDQYANYVVQKILEKCN 721 (760)
Q Consensus 650 Iie~L~~~l~~Ls~~K~GS~VVEk~L~~a~~ke---Rk~II~eLl~~--~~~ke~L~~La~DqyGnyVIQklL~~~d 721 (760)
|++.+..+..+|..++.|+.+|..+|..++.+. ...|++.+... .++.+.=..+..+++|++++.+++....
T Consensus 58 Ll~~i~~~~~~ll~~~~g~~~i~eiL~~~~gdk~~a~~Aia~~~~~~~~~~~~~~e~H~i~~p~~~r~lK~Liq~~~ 134 (148)
T PF08144_consen 58 LLEAIAENAEELLSSSFGCQFITEILLSATGDKSAALEAIASLAAEPLFPGDIDEEYHLIEHPFGHRMLKKLIQGDK 134 (148)
T ss_pred HHHHHHHhHHHHHhcCcccHHHHHHHhccCccHHHHHHHHHHHHhhccCCCCCcCccchhcCchHHHHHHHHHHCCC
Confidence 445556677889999999999999999864221 22333333322 1112222367799999999999997643
No 25
>COG1536 FliG Flagellar motor switch protein [Cell motility and secretion]
Probab=84.20 E-value=78 Score=35.56 Aligned_cols=14 Identities=29% Similarity=0.366 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHhcC
Q 004342 746 KHIVARFEQLYGEG 759 (760)
Q Consensus 746 k~Vv~kLekl~~~g 759 (760)
+.|+..+-++...|
T Consensus 314 ~~il~~~r~l~~~G 327 (339)
T COG1536 314 KAILNIVRRLAESG 327 (339)
T ss_pred HHHHHHHHHHHHCC
Confidence 45666666666655
No 26
>PF08144 CPL: CPL (NUC119) domain; InterPro: IPR012959 This C-terminal domain is found in Penguin-like proteins (CPL) and is associated with Pumilio like repeats [].; GO: 0003723 RNA binding
Probab=83.20 E-value=11 Score=37.30 Aligned_cols=19 Identities=11% Similarity=0.385 Sum_probs=14.2
Q ss_pred HHhcCccHHHHHHHHHHhC
Q 004342 660 QMSQHKYASNVVEKCLEYG 678 (760)
Q Consensus 660 ~Ls~~K~GS~VVEk~L~~a 678 (760)
.+..+.+|++++-+++...
T Consensus 115 H~i~~p~~~r~lK~Liq~~ 133 (148)
T PF08144_consen 115 HLIEHPFGHRMLKKLIQGD 133 (148)
T ss_pred chhcCchHHHHHHHHHHCC
Confidence 4567888888888887654
No 27
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=82.57 E-value=69 Score=39.40 Aligned_cols=48 Identities=17% Similarity=0.193 Sum_probs=33.2
Q ss_pred HHHhhchhhhccCcccchhhhhhhccCCHHHHHHHHHHHhhccccccc
Q 004342 471 KEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSL 518 (760)
Q Consensus 471 ~EL~p~~~eL~~D~yGnhVIQKLLe~~s~eqr~~Ii~~L~g~v~~Ls~ 518 (760)
+||+--++++-.+....-+||.|+.+.++...-.-+.+++....+|+-
T Consensus 716 eeik~~ILevne~vLse~~iqnLik~lPe~E~l~~L~e~Kaeye~l~e 763 (1102)
T KOG1924|consen 716 EEIKNVILEVNEDVLSESMIQNLIKHLPEQEQLNKLSELKAEYEDLPE 763 (1102)
T ss_pred HHHHHHHhhccHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhccCCCC
Confidence 455555566666777778899999999765555555666777777763
No 28
>PF12231 Rif1_N: Rap1-interacting factor 1 N terminal; InterPro: IPR022031 This domain family is found in eukaryotes, and is typically between 135 and 146 amino acids in length. Rif1 is a protein which interacts with Rap1 to regulate telomere length. Interaction with telomeres limits their length. The N-terminal region contains many HEAT- and ARMADILLO- type repeats. These are helical folds which form extended curved proteins or RNA interface surfaces.
Probab=77.11 E-value=1.1e+02 Score=34.62 Aligned_cols=168 Identities=10% Similarity=0.018 Sum_probs=76.8
Q ss_pred hhhhHhhhcCChhHHHHHHHHhhhhHhhhccCCcchhHHHHHHhhCCChHHHHHHHHHHHHHHHHHhhc-ccchHHHHHH
Q 004342 560 HVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQD-QYGNYVTQHV 638 (760)
Q Consensus 560 hVLQklLe~~~~e~~~~Ii~~L~~~i~~Ls~hkyGS~VLQklLe~~~~~~q~~~Il~eL~~~l~~La~D-q~GNyVVQ~L 638 (760)
+++..++... .+.+..++.....-...+..++.-+..+..+++....+. .+++++.+.+..|+.+ ..+.+|.|-
T Consensus 179 ~l~~~l~~~~-k~ir~~a~~l~~~~~~~l~~~~~~s~~~~~~~~~~~~~~---~~~~~~~~~L~~mi~~~~~~~~a~~i- 253 (372)
T PF12231_consen 179 ILFPDLLSSA-KDIRTKAISLLLEAKKCLGPNKELSKSVLEDLQRSLENG---KLIQLYCERLKEMIKSKDEYKLAMQI- 253 (372)
T ss_pred HHHHHHhhcc-hHHHHHHHHHHHHHHHHhChhHHHHHHHHHHhccccccc---cHHHHHHHHHHHHHhCcCCcchHHHH-
Confidence 4555555443 233333333333333344445555666666666543221 5777777778777777 444444331
Q ss_pred HhcCChhhHHHHHHHHHHH-HHHHhcCccHHHHHHHHHHhCCHHHHHHHHHHH-------hcCCCCcHHHHHhhcCCChh
Q 004342 639 LERGKSYERTQILSKLAGK-IVQMSQHKYASNVVEKCLEYGDTAERELLIEEI-------LGQSEENDNLLVMMKDQYAN 710 (760)
Q Consensus 639 Le~~~~k~R~~Iie~L~~~-l~~Ls~~K~GS~VVEk~L~~a~~keRk~II~eL-------l~~~~~ke~L~~La~DqyGn 710 (760)
...++-.|... +..-..-+--=.|+|+|+...++..|..-+..- ...........+|...|..+
T Consensus 254 --------W~~~i~LL~~~~~~~w~~~n~wL~v~e~cFn~~d~~~k~~A~~aW~~liy~~~~~~~~~~k~l~lL~~Pl~~ 325 (372)
T PF12231_consen 254 --------WSVVILLLGSSRLDSWEHLNEWLKVPEKCFNSSDPQVKIQAFKAWRRLIYASNPNELTSPKRLKLLCQPLSS 325 (372)
T ss_pred --------HHHHHHHhCCchhhccHhHhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhcCCccccHHHHHHHHHHHHH
Confidence 11111111110 000111111226889999999887774433222 11111223444444555433
Q ss_pred HHHHHHHhhCCHHHHHHHHHHHHHhHHHHh
Q 004342 711 YVVQKILEKCNEKLRETLISRIRVHCDALK 740 (760)
Q Consensus 711 yVIQklL~~~dd~~rk~Il~~Lk~~l~~L~ 740 (760)
..=.+......++.+..++..+...+...-
T Consensus 326 ~l~~~~~~~~~~~~~~~ll~~l~~lly~~f 355 (372)
T PF12231_consen 326 QLRREKSSKTKEEVWWYLLYSLCNLLYYAF 355 (372)
T ss_pred HhCccccccccHHHHHHHHHHHhchHHHHh
Confidence 322222222233456666666665554433
No 29
>COG2733 Predicted membrane protein [Function unknown]
Probab=75.98 E-value=1.5e+02 Score=33.87 Aligned_cols=35 Identities=20% Similarity=0.303 Sum_probs=20.0
Q ss_pred CCHHHHHHHHHHHHHhHHHHhhC---CChHHHHHHHHH
Q 004342 720 CNEKLRETLISRIRVHCDALKKY---TYGKHIVARFEQ 754 (760)
Q Consensus 720 ~dd~~rk~Il~~Lk~~l~~L~~~---~yGk~Vv~kLek 754 (760)
.|+..|.++-+.+..-...|... .-|++|.+.+++
T Consensus 334 ~D~~lr~kln~~~~~aa~~l~e~~~~~it~~I~dTv~~ 371 (415)
T COG2733 334 ADDALRAKLNEHLVQAAERLAEEKHAEITKHISDTVKR 371 (415)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhh
Confidence 46666766666666555555433 336667666554
No 30
>KOG4368 consensus Predicted RNA binding protein, contains SWAP, RPR and G-patch domains [General function prediction only]
Probab=69.93 E-value=1e+02 Score=36.74 Aligned_cols=27 Identities=22% Similarity=0.412 Sum_probs=16.0
Q ss_pred HHHHHHHhcCChhhHHHHHHHHHHHHH
Q 004342 633 YVTQHVLERGKSYERTQILSKLAGKIV 659 (760)
Q Consensus 633 yVVQ~LLe~~~~k~R~~Iie~L~~~l~ 659 (760)
|+|-.++-||..+.-++++..|...++
T Consensus 165 ylind~~~hcqrk~~~~~~~~l~~~v~ 191 (757)
T KOG4368|consen 165 YLINDVLHHCQRKQARELLAALQKVVV 191 (757)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 344445556666666667777765443
No 31
>TIGR00207 fliG flagellar motor switch protein FliG. The fliG protein along with fliM and fliN interact to form the switch complex of the bacterial flagellar motor located at the base of the basal body. This complex interacts with chemotaxis proteins (eg CHEY). In addition the complex interacts with other components of the motor that determine the direction of flagellar rotation. The model contains putative members of the fliG family at scores of less than 100 from Agrobacterium radiobacter and Sinorhizobium meliloti as well as fliG-like genes from treponema pallidum and Borrelia burgdorferi. That is why the suggested cutoff is set at 20 but was set at 100 to construct the family.
Probab=69.48 E-value=1.9e+02 Score=32.28 Aligned_cols=55 Identities=11% Similarity=0.101 Sum_probs=34.2
Q ss_pred hhccCCHHHHHHHHHHHhhccccccccccc-cHHHHHHHHhh-CHHHHHHHHHHhhh
Q 004342 493 FFEHGSPDQRKELAEKLVGQVLPLSLQMYG-CRVIQKALEVI-ELHQKSQLVLELDG 547 (760)
Q Consensus 493 LLe~~s~eqr~~Ii~~L~g~v~~Ls~h~yG-SrVIQklLe~a-s~eqr~~Lv~EL~g 547 (760)
-+...++++...++++|...+..-..-..| -..++++++.+ .++.-..+++++.+
T Consensus 48 ~l~~v~~~~~~~vl~eF~~~~~~~~~~~~g~~~~~~~~L~~alg~~~a~~il~~i~~ 104 (338)
T TIGR00207 48 NVTQIDNQQKDDVLEEFEQIAEAQAYINIGGLDYAREVLEKALGEEKAASILNDLTS 104 (338)
T ss_pred hcCCCCHHHHHHHHHHHHHHHHhcCCccCChHHHHHHHHHHhcCHHHHHHHHHHHhc
Confidence 456678888888888887776655433333 44556776443 55555566666544
No 32
>PLN03083 E3 UFM1-protein ligase 1 homolog; Provisional
Probab=67.11 E-value=3.2e+02 Score=34.18 Aligned_cols=47 Identities=23% Similarity=0.352 Sum_probs=27.4
Q ss_pred hhhhhhhccCCHHHHHHHHHHHhhccccccccccccHHHHHHHHhhCHHHH
Q 004342 488 YVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQK 538 (760)
Q Consensus 488 hVIQKLLe~~s~eqr~~Ii~~L~g~v~~Ls~h~yGSrVIQklLe~as~eqr 538 (760)
.+++.+|+ .+.+.|+.....+...+..|..+. +..+|.++....+..
T Consensus 531 ~~~~~~~~-~~~~~rr~~~~~lq~k~~~l~~n~---~LfeKgl~lF~dd~~ 577 (803)
T PLN03083 531 ERRKALFT-ENAERRRRLLDNLQKKIDESFLNM---QLYEKALDLFEDDQS 577 (803)
T ss_pred HHHHHHHh-cchHHHHHHHHHHHHHHHHHHHHH---HHHHHHHhhCCcccc
Confidence 34667776 566667766666666666555443 355555555544443
No 33
>PF09770 PAT1: Topoisomerase II-associated protein PAT1; InterPro: IPR019167 Proteins in this entry are necessary for accurate chromosome transmission during cell division []. ; PDB: 2XER_C 2XES_B 2XEQ_D.
Probab=65.29 E-value=7.2 Score=48.36 Aligned_cols=94 Identities=13% Similarity=0.240 Sum_probs=57.3
Q ss_pred HHHHHhcCCCcCHHHHHhhhcCCHHHHHHHHHHHhhch-----------------hhhc----cCcccchhhhhhhccCC
Q 004342 440 RIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHA-----------------SKLM----TDVFGNYVIQKFFEHGS 498 (760)
Q Consensus 440 kvveLa~dq~gSRvIQ~lLe~~s~Eqr~~If~EL~p~~-----------------~eL~----~D~yGnhVIQKLLe~~s 498 (760)
.++.+..=.-|-++|-.+|..-+.+++..|+.-|.-++ ..+. .+.|-..|+.-|+.+..
T Consensus 576 ~fi~~ls~~KGkkll~R~~~~l~~~q~~~il~~i~~~l~~l~vv~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~l~~~i~ 655 (808)
T PF09770_consen 576 PFISILSVRKGKKLLPRIFPFLSQEQRLTILTMIFRHLDQLDVVRRASYTDGEDQPLLIKRDDIELFLQAVMPPLMNVIN 655 (808)
T ss_dssp HHHHHTTSHHHHHHHHHHGGGS-HHHHHHHHHHHHHTH-----------------HHHHHTTTTT--GGGGHHHS-HHHH
T ss_pred cceEEEeeCChheeHHhhhhhCChhHHHHHHHHHHHHhhhhcccccccccccccCccccchHhHHHHHHHHHHHHHHHHH
Confidence 34455555556677777888888998888888888777 2232 24566666666665555
Q ss_pred HHHHHHHHHHH-----hhccccccccccccHHHHHHHHhh
Q 004342 499 PDQRKELAEKL-----VGQVLPLSLQMYGCRVIQKALEVI 533 (760)
Q Consensus 499 ~eqr~~Ii~~L-----~g~v~~Ls~h~yGSrVIQklLe~a 533 (760)
......|+..+ ..++..++++++|.-+|-.+|..+
T Consensus 656 ~~~~~~i~gll~~~~~~~~~~~i~~tk~Gls~lt~llsRa 695 (808)
T PF09770_consen 656 EAPFNEIIGLLGLLINNNNVSFIAQTKFGLSLLTMLLSRA 695 (808)
T ss_dssp HHHHHHHTTSTTT-S--HHHHHHHTSHHHHHHHHHHHHHH
T ss_pred hCCHHHHHHHHHHHHhCCCceEEEEChHHHHHHHHHHHHH
Confidence 54444443322 235566778888888888777543
No 34
>PRK07194 fliG flagellar motor switch protein G; Reviewed
Probab=59.28 E-value=2.9e+02 Score=30.80 Aligned_cols=14 Identities=36% Similarity=0.458 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHhcC
Q 004342 746 KHIVARFEQLYGEG 759 (760)
Q Consensus 746 k~Vv~kLekl~~~g 759 (760)
+.|+..+-++.++|
T Consensus 308 ~~Iv~~~r~L~~~G 321 (334)
T PRK07194 308 KEIMALVRELAEAG 321 (334)
T ss_pred HHHHHHHHHHHHCC
Confidence 45777777777766
No 35
>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms. Apoptosis or programmed cell death is a physiological form of cell death that occurs in embryonic development and organ formation. It is characterised by biochemical and morphological changes such as DNA fragmentation and cell volume shrinkage. API5 is an anti apoptosis gene located in Homo sapiens chromosome 11, whose expression prevents the programmed cell death that occurs upon the deprivation of growth factors [,].; PDB: 3U0R_A 3V6A_A.
Probab=56.98 E-value=1.9e+02 Score=34.67 Aligned_cols=111 Identities=16% Similarity=0.190 Sum_probs=52.6
Q ss_pred cCChhhHHHHHHHHHHHHHHHhcCccH------HH---HHHHHHHhCCHHHHHHHHHHHhcCC--------CCcHHHHHh
Q 004342 641 RGKSYERTQILSKLAGKIVQMSQHKYA------SN---VVEKCLEYGDTAERELLIEEILGQS--------EENDNLLVM 703 (760)
Q Consensus 641 ~~~~k~R~~Iie~L~~~l~~Ls~~K~G------S~---VVEk~L~~a~~keRk~II~eLl~~~--------~~ke~L~~L 703 (760)
.+++..|+.+++.|..++..|.....- .. .+.++|.-.+.++.+.++.-|-... .+...|+.|
T Consensus 144 ~~de~~Re~~lkFl~~kl~~l~~~~~~p~~E~e~~i~~~ikkvL~DVTaeEF~l~m~lL~~lk~~~~~~t~~g~qeLv~i 223 (556)
T PF05918_consen 144 SGDEQVRERALKFLREKLKPLKPELLTPQKEMEEFIVDEIKKVLQDVTAEEFELFMSLLKSLKIYGGKQTIEGRQELVDI 223 (556)
T ss_dssp HS-HHHHHHHHHHHHHHGGGS-TTTS---HHHHHHHHHHHHHHCTT--HHHHHHHHHHHHTSGG---GSSHHHHHHHHHH
T ss_pred cCchHHHHHHHHHHHHHHhhCcHHHhhchHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhCccccccCChHHHHHHHHH
Confidence 344556788888887777766554443 22 2333343455666666664432210 011122222
Q ss_pred hcCCChhHHHHHHHhhCCHHHHHHHHHHHHHhHHHHhhCCChHHHHHHHHH
Q 004342 704 MKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQ 754 (760)
Q Consensus 704 a~DqyGnyVIQklL~~~dd~~rk~Il~~Lk~~l~~L~~~~yGk~Vv~kLek 754 (760)
+.++- -+...++..|++...+++..++..+.-......+.+++..+.+
T Consensus 224 i~eQa---~Ld~~f~~sD~e~Idrli~C~~~Alp~fs~~v~Sskfv~y~~~ 271 (556)
T PF05918_consen 224 IEEQA---DLDQPFDPSDPESIDRLISCLRQALPFFSRGVSSSKFVNYMCE 271 (556)
T ss_dssp HHHHH---TTTS---SSSHHHHHHHHHHHHHHGGG-BTTB--HHHHHHHHH
T ss_pred HHHHh---ccCCCCCCcCHHHHHHHHHHHHHhhHHhcCCCChHHHHHHHHH
Confidence 22211 0112245566677777777777777766666666666665543
No 36
>KOG2213 consensus Apoptosis inhibitor 5/fibroblast growth factor 2-interacting factor 2, and related proteins [Signal transduction mechanisms]
Probab=53.08 E-value=1.4e+02 Score=34.22 Aligned_cols=113 Identities=13% Similarity=0.187 Sum_probs=73.1
Q ss_pred CChhhHHHHHHHHHHHHHH----HhcCccHHHHHH---HHHHhCCHHHHHHHHHHHhc-----CCCCcHHHHHhhcCCCh
Q 004342 642 GKSYERTQILSKLAGKIVQ----MSQHKYASNVVE---KCLEYGDTAERELLIEEILG-----QSEENDNLLVMMKDQYA 709 (760)
Q Consensus 642 ~~~k~R~~Iie~L~~~l~~----Ls~~K~GS~VVE---k~L~~a~~keRk~II~eLl~-----~~~~ke~L~~La~DqyG 709 (760)
+++..|+..+..|+.++.. +.....-.++++ +.|...+.++....++-|-+ .-.+...|++|+.-+-|
T Consensus 120 ~D~~irek~l~fi~tKl~~l~~e~L~kevE~~iv~eikkal~dVtgeef~lfm~~L~~lk~~~~k~~~a~lqeLa~~~e~ 199 (460)
T KOG2213|consen 120 GDEQIREKVLKFIRTKLITLKGEVLTKEVERHIVDEIKKALEDVTGEEFTLFMDILASLKSLQTKAGEARLQELAEEQEG 199 (460)
T ss_pred hhHHHHHHHHHHHHHHhhcccHHHhhhHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhcccCCCCHHHHHHHHHHHhh
Confidence 3555666666666555543 334333444444 44555666666665555533 12345778888877776
Q ss_pred hHHHHHHHhhCCHHHHHHHHHHHHHhHHHHhhCCChHHHHHHHHHH
Q 004342 710 NYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQL 755 (760)
Q Consensus 710 nyVIQklL~~~dd~~rk~Il~~Lk~~l~~L~~~~yGk~Vv~kLekl 755 (760)
--=+.. ++.+|+..-.++++.+.-.++-.++...+++.+..+-+-
T Consensus 200 ~a~lda-f~~sD~d~VdRfisCl~~AvPfFargapSskf~~y~n~~ 244 (460)
T KOG2213|consen 200 LADLDA-FNVSDADYVDRFISCLLMAVPFFARGAPSSKFVEYLNKH 244 (460)
T ss_pred hhccCc-ccCCChHHHHHHHHHHHHhhhhhhcCCchhHHHHHHHhh
Confidence 555555 778888889999999998888888887777777666543
No 37
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=52.69 E-value=2.7e+02 Score=35.41 Aligned_cols=148 Identities=14% Similarity=0.134 Sum_probs=78.4
Q ss_pred ccccccc-HHHHHHHHhhCHH--HHHHHHHHhhhhHhHHhhcccCChhhhHhhhc--------CChhHHHHHHHHhhhhH
Q 004342 517 SLQMYGC-RVIQKALEVIELH--QKSQLVLELDGHVMRCVRDQNGNHVIQKCIEC--------VPAEKIEFIISAFRGQV 585 (760)
Q Consensus 517 s~h~yGS-rVIQklLe~as~e--qr~~Lv~EL~g~i~~L~kDq~GNhVLQklLe~--------~~~e~~~~Ii~~L~~~i 585 (760)
.+.++|| |+|-.+.+..... -+.+|-.-|..+++..+++++|--.-+.|--+ ..+.....+++.....+
T Consensus 432 ~rqkdGAL~~vgsl~~~L~K~s~~~~~mE~flv~hVfP~f~s~~g~Lrarac~vl~~~~~~df~d~~~l~~ale~t~~~l 511 (1010)
T KOG1991|consen 432 PRQKDGALRMVGSLASILLKKSPYKSQMEYFLVNHVFPEFQSPYGYLRARACWVLSQFSSIDFKDPNNLSEALELTHNCL 511 (1010)
T ss_pred hhhhhhHHHHHHHHHHHHccCCchHHHHHHHHHHHhhHhhcCchhHHHHHHHHHHHHHHhccCCChHHHHHHHHHHHHHh
Confidence 4455665 3444444333211 12333334567777788888887666655332 12223333333322222
Q ss_pred h---hhccCCcchhHHHHHHhhCCCh-HHHHHHHHHHHHHHHHHhhcc---cchHHHHHHHhcCChh---hHHHHHHHHH
Q 004342 586 A---TLSTHPYGCRVIQRVLEHCSDE-QQGQCIVDEILESAFALAQDQ---YGNYVTQHVLERGKSY---ERTQILSKLA 655 (760)
Q Consensus 586 ~---~Ls~hkyGS~VLQklLe~~~~~-~q~~~Il~eL~~~l~~La~Dq---~GNyVVQ~LLe~~~~k---~R~~Iie~L~ 655 (760)
. +|-..--+...+|.++..+... +..+..+..+++.+..|++.- -=..|+|+++..-.++ .-.+++..|.
T Consensus 512 ~~d~~lPV~VeAalALq~fI~~~~~~~e~~~~hvp~~mq~lL~L~ne~End~Lt~vme~iV~~fseElsPfA~eL~q~La 591 (1010)
T KOG1991|consen 512 LNDNELPVRVEAALALQSFISNQEQADEKVSAHVPPIMQELLKLSNEVENDDLTNVMEKIVCKFSEELSPFAVELCQNLA 591 (1010)
T ss_pred ccCCcCchhhHHHHHHHHHHhcchhhhhhHhhhhhHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHhhchhHHHHHHHHH
Confidence 2 1222223667788888887644 335666777777777666432 2345777777654433 2345666666
Q ss_pred HHHHHHhcC
Q 004342 656 GKIVQMSQH 664 (760)
Q Consensus 656 ~~l~~Ls~~ 664 (760)
..+..++.+
T Consensus 592 ~~F~k~l~~ 600 (1010)
T KOG1991|consen 592 ETFLKVLQT 600 (1010)
T ss_pred HHHHHHHhc
Confidence 666666653
No 38
>PF11573 Med23: Mediator complex subunit 23; InterPro: IPR021629 Med23 is one of the subunits of the Tail portion of the Mediator complex that regulates RNA polymerase II activity. Med23 is required for heat-shock-specific gene expression, and has been shown to mediate transcriptional activation of E1A in mice.
Probab=51.68 E-value=2.5e+02 Score=37.15 Aligned_cols=45 Identities=20% Similarity=0.312 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHhcCccHHHHHHHHHHhCCHHHHHHHHHHHh
Q 004342 647 RTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEIL 691 (760)
Q Consensus 647 R~~Iie~L~~~l~~Ls~~K~GS~VVEk~L~~a~~keRk~II~eLl 691 (760)
+.++.+.-..-+..+..++||--.|...|.....+.|....++++
T Consensus 271 ~~el~~~q~~lL~~vL~Qp~srd~v~~~l~~~~~k~~~~~~ee~l 315 (1341)
T PF11573_consen 271 RPELLEPQTRLLYYVLRQPYSRDMVCSMLGLQQQKQRCPALEELL 315 (1341)
T ss_pred ChHHcchHHHHHHHHHcCcchHHHHHHHhcccccCccchHHHHHH
Confidence 344555555566677889999999999987765555544444443
No 39
>KOG2213 consensus Apoptosis inhibitor 5/fibroblast growth factor 2-interacting factor 2, and related proteins [Signal transduction mechanisms]
Probab=50.70 E-value=4.5e+02 Score=30.36 Aligned_cols=39 Identities=13% Similarity=0.008 Sum_probs=30.9
Q ss_pred HhcCChhhHHHHHHHHHHHHHHHhcCccHHHHHHHHHHh
Q 004342 639 LERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEY 677 (760)
Q Consensus 639 Le~~~~k~R~~Iie~L~~~l~~Ls~~K~GS~VVEk~L~~ 677 (760)
+...+++.-+++|..+.-.+.-.+..--+|+.++.+-++
T Consensus 206 f~~sD~d~VdRfisCl~~AvPfFargapSskf~~y~n~~ 244 (460)
T KOG2213|consen 206 FNVSDADYVDRFISCLLMAVPFFARGAPSSKFVEYLNKH 244 (460)
T ss_pred ccCCChHHHHHHHHHHHHhhhhhhcCCchhHHHHHHHhh
Confidence 344567778888888888888888888888888877665
No 40
>KOG1086 consensus Cytosolic sorting protein/ADP-ribosylation factor effector GGA [Intracellular trafficking, secretion, and vesicular transport]
Probab=47.68 E-value=5.2e+02 Score=30.19 Aligned_cols=27 Identities=15% Similarity=0.278 Sum_probs=15.5
Q ss_pred cHHHHHHHHHHhCCHHH---HHHHHHHHhc
Q 004342 666 YASNVVEKCLEYGDTAE---RELLIEEILG 692 (760)
Q Consensus 666 ~GS~VVEk~L~~a~~ke---Rk~II~eLl~ 692 (760)
.-|.++.++|....+++ ..++|++|+.
T Consensus 173 EksklL~rLLkSn~PeDLqaANkLIK~lVk 202 (594)
T KOG1086|consen 173 EKSKLLARLLKSNHPEDLQAANKLIKTLVK 202 (594)
T ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHHHHH
Confidence 35666666666655443 3456666654
No 41
>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms. Apoptosis or programmed cell death is a physiological form of cell death that occurs in embryonic development and organ formation. It is characterised by biochemical and morphological changes such as DNA fragmentation and cell volume shrinkage. API5 is an anti apoptosis gene located in Homo sapiens chromosome 11, whose expression prevents the programmed cell death that occurs upon the deprivation of growth factors [,].; PDB: 3U0R_A 3V6A_A.
Probab=47.04 E-value=4.4e+02 Score=31.75 Aligned_cols=220 Identities=15% Similarity=0.117 Sum_probs=88.4
Q ss_pred HHHHhcC--CCcCHHHHH---hhhcCCHHHHHHHHHHHhhchhhhccCcccchhhhhhh-ccCCHHHHHHHHHHHhhccc
Q 004342 441 IVEFSVD--QHGSRFIQQ---KLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFF-EHGSPDQRKELAEKLVGQVL 514 (760)
Q Consensus 441 vveLa~d--q~gSRvIQ~---lLe~~s~Eqr~~If~EL~p~~~eL~~D~yGnhVIQKLL-e~~s~eqr~~Ii~~L~g~v~ 514 (760)
+..+|.+ .+-+|+..- +|......|...|=..|...+..=.+...+...-|-+- ..+++..|+.+++.+..++.
T Consensus 83 lp~~ck~~~~~v~kvaDvL~QlL~tdd~~E~~~v~~sL~~ll~~d~k~tL~~lf~~i~~~~~~de~~Re~~lkFl~~kl~ 162 (556)
T PF05918_consen 83 LPQLCKDNPEHVSKVADVLVQLLQTDDPVELDAVKNSLMSLLKQDPKGTLTGLFSQIESSKSGDEQVRERALKFLREKLK 162 (556)
T ss_dssp GGGG--T--T-HHHHHHHHHHHTT---HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH---HS-HHHHHHHHHHHHHHGG
T ss_pred HHHHHHhHHHHHhHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHHh
Confidence 3445554 344554443 55555555555544444333322222222222211110 13455567888887777777
Q ss_pred cccccccc---------cHHHHHHHHhhCHHHHHHHHHHhhhh-HhHHhhcccCChhhh------H----hhhcCChhHH
Q 004342 515 PLSLQMYG---------CRVIQKALEVIELHQKSQLVLELDGH-VMRCVRDQNGNHVIQ------K----CIECVPAEKI 574 (760)
Q Consensus 515 ~Ls~h~yG---------SrVIQklLe~as~eqr~~Lv~EL~g~-i~~L~kDq~GNhVLQ------k----lLe~~~~e~~ 574 (760)
.|...-.- ...|.++|+-++.++...++.-|..- ++.......|---+- . .+...+++..
T Consensus 163 ~l~~~~~~p~~E~e~~i~~~ikkvL~DVTaeEF~l~m~lL~~lk~~~~~~t~~g~qeLv~ii~eQa~Ld~~f~~sD~e~I 242 (556)
T PF05918_consen 163 PLKPELLTPQKEMEEFIVDEIKKVLQDVTAEEFELFMSLLKSLKIYGGKQTIEGRQELVDIIEEQADLDQPFDPSDPESI 242 (556)
T ss_dssp GS-TTTS---HHHHHHHHHHHHHHCTT--HHHHHHHHHHHHTSGG---GSSHHHHHHHHHHHHHHHTTTS---SSSHHHH
T ss_pred hCcHHHhhchHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhCccccccCChHHHHHHHHHHHHHhccCCCCCCcCHHHH
Confidence 66444333 12333444444555555444322110 000000011111111 1 1222346677
Q ss_pred HHHHHHhhhhHhhhccCCcchhHHHHHHhhC----CC--hHHHHHHHHHHHHHHHHHhhcc-------cchHHHHHHHhc
Q 004342 575 EFIISAFRGQVATLSTHPYGCRVIQRVLEHC----SD--EQQGQCIVDEILESAFALAQDQ-------YGNYVTQHVLER 641 (760)
Q Consensus 575 ~~Ii~~L~~~i~~Ls~hkyGS~VLQklLe~~----~~--~~q~~~Il~eL~~~l~~La~Dq-------~GNyVVQ~LLe~ 641 (760)
+.++..+...+.-.+....++..+..+.+.. .+ ++.+- +++..+.+++... .=..|.+.++++
T Consensus 243 drli~C~~~Alp~fs~~v~Sskfv~y~~~kvlP~l~~l~e~~kl----~lLk~lAE~s~~~~~~d~~~~L~~i~~~L~~y 318 (556)
T PF05918_consen 243 DRLISCLRQALPFFSRGVSSSKFVNYMCEKVLPKLSDLPEDRKL----DLLKLLAELSPFCGAQDARQLLPSIFQLLKKY 318 (556)
T ss_dssp HHHHHHHHHHGGG-BTTB--HHHHHHHHHHTCCCTT-----HHH----HHHHHHHHHHTT----THHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHhhHHhcCCCChHHHHHHHHHHhcCChhhCChHHHH----HHHHHHHHHcCCCCcccHHHHHHHHHHHHHHh
Confidence 7777777776666666666776666655543 11 11122 2223333333211 123455566554
Q ss_pred CC-----hhhHHHHHHHHHHHHHHHhcC
Q 004342 642 GK-----SYERTQILSKLAGKIVQMSQH 664 (760)
Q Consensus 642 ~~-----~k~R~~Iie~L~~~l~~Ls~~ 664 (760)
.+ ++..-..++.|.-.+..|+..
T Consensus 319 mP~~~~~~~l~fs~vEcLL~afh~La~k 346 (556)
T PF05918_consen 319 MPSKKTEPKLQFSYVECLLYAFHQLARK 346 (556)
T ss_dssp S----------HHHHHHHHHHHHHHHTT
T ss_pred CCCCCCCCcccchHhhHHHHHHHHHhhh
Confidence 33 223335677777777777654
No 42
>PLN03218 maturation of RBCL 1; Provisional
Probab=46.87 E-value=7.8e+02 Score=32.04 Aligned_cols=22 Identities=9% Similarity=0.163 Sum_probs=10.1
Q ss_pred HHHHHHhhCCHHHHHHHHHHHH
Q 004342 712 VVQKILEKCNEKLRETLISRIR 733 (760)
Q Consensus 712 VIQklL~~~dd~~rk~Il~~Lk 733 (760)
+|..+....+.+.-..++++++
T Consensus 725 LI~gy~k~G~~eeAlelf~eM~ 746 (1060)
T PLN03218 725 LITALCEGNQLPKALEVLSEMK 746 (1060)
T ss_pred HHHHHHHCCCHHHHHHHHHHHH
Confidence 3444444444444445555544
No 43
>PF11510 FA_FANCE: Fanconi Anaemia group E protein FANCE; InterPro: IPR021025 Fanconi Anaemia (FA) is a cancer predisposition disorder characterised by chromosome fragility and hypersensitivity to genotoxic agents that suggest defects in the molecular mechanisms of DNA damage signalling and repair. In response to DNA damage, the FA core complex monoubiquitinates the FANCD2 protein. This ubiquitination targets FANCD2 to nuclear foci where it interacts with a variety of DNA repair proteins. The FA group E protein (FANCE) has an important role in DNA repair, functioning as the FANCD2-binding protein in the FA core complex []. This entry represents the C-terminal domain of FANCE, which consists predominantly of helices and does not contain any beta-strands. This domain folds in a continuous right-handed solenoidal pattern from its N terminus to its C terminus. ; PDB: 2ILR_A.
Probab=45.47 E-value=3.4e+02 Score=29.55 Aligned_cols=135 Identities=16% Similarity=0.215 Sum_probs=62.2
Q ss_pred HHHhhhcCCHHHHHHHHHHHh-hc-----hhhhccCcccchhhhhhhccCC----HHHHHHHHHHHhhcccccccccccc
Q 004342 454 IQQKLEHCSAEEKVSVFKEVL-PH-----ASKLMTDVFGNYVIQKFFEHGS----PDQRKELAEKLVGQVLPLSLQMYGC 523 (760)
Q Consensus 454 IQ~lLe~~s~Eqr~~If~EL~-p~-----~~eL~~D~yGnhVIQKLLe~~s----~eqr~~Ii~~L~g~v~~Ls~h~yGS 523 (760)
.=+.|-.|++.|.+.+++++. +. +..+|. .++...+ ......+-..+-+++..| ..-++
T Consensus 40 ~lq~L~~csp~q~e~lc~~L~l~~lsd~~l~~lc~---------~ll~Ls~dls~~~a~~l~~sl~LpkilsL--~~~AS 108 (263)
T PF11510_consen 40 ELQFLNECSPSQVEMLCSQLQLPQLSDDGLLQLCS---------SLLALSPDLSHSNATVLLRSLFLPKILSL--EEPAS 108 (263)
T ss_dssp HHHGGGG--HHHHHHHHHHHTGGG--HHHHHHHHH---------HHHH-SS---HHHHHHHHHHHHHHHHHH---SS---
T ss_pred HHHHHHhCCHHHHHHHHHHhCcCCCCHHHHHHHHH---------HHHccCcccchhhHHHHHHHHHHHHHHhc--CCCcc
Confidence 335667889999999999885 32 222222 2221111 111122223345666655 66889
Q ss_pred HHHHHHHHhhCHHHHHHHHHHhhhhHhHHhhcc-cCC---hhhhHhh--hcCChhHHHHHHHHhhhhHhhhccCCcchhH
Q 004342 524 RVIQKALEVIELHQKSQLVLELDGHVMRCVRDQ-NGN---HVIQKCI--ECVPAEKIEFIISAFRGQVATLSTHPYGCRV 597 (760)
Q Consensus 524 rVIQklLe~as~eqr~~Lv~EL~g~i~~L~kDq-~GN---hVLQklL--e~~~~e~~~~Ii~~L~~~i~~Ls~hkyGS~V 597 (760)
|++..++-.+-...-..+++.+. ..++.++ .|+ -++-+++ ++.+++.+..++..+.+ +.-+..-..|
T Consensus 109 R~L~sal~~f~k~~p~~~~~all---~PlL~~~~~g~~Q~eLl~rlvk~~~l~p~~~~l~l~~~L~----~~W~E~~~~V 181 (263)
T PF11510_consen 109 RLLVSALTSFCKKYPRPVCEALL---VPLLQAPGLGPPQCELLCRLVKKECLEPDHRLLLLRQILE----LVWNEETFLV 181 (263)
T ss_dssp HHHHHHHHHHHHHSHHHHHHHHH---HHHHHSTT--HHHHHHHHHHHH-TTS-HHHHHHHHHHHHH----S---HHHHHH
T ss_pred HHHHHHHHHHHHhCcHHHHHHHH---HHHHcCCCCCHHHHHHHHHHHHhccCCHHHHHHHHHHHHh----CcCcHHHHHH
Confidence 99888774332222233333322 2222222 222 2455555 56677777766655432 2223334678
Q ss_pred HHHHHhhCC
Q 004342 598 IQRVLEHCS 606 (760)
Q Consensus 598 LQklLe~~~ 606 (760)
+|.+++...
T Consensus 182 lq~lL~~k~ 190 (263)
T PF11510_consen 182 LQSLLERKV 190 (263)
T ss_dssp HHHHHTT--
T ss_pred HHHHHhcCC
Confidence 888888653
No 44
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=45.32 E-value=5.8e+02 Score=30.06 Aligned_cols=93 Identities=16% Similarity=0.113 Sum_probs=43.2
Q ss_pred hhhHHHHHhhccccccchHHhHHHHHHHHh-cCCCcCHHHHHhhhcCCHHHHHHHHHHHhhchhhh---ccCcccchhhh
Q 004342 416 KKHSFLEELKSSNAQKFELSDIAGRIVEFS-VDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKL---MTDVFGNYVIQ 491 (760)
Q Consensus 416 ~rs~LLeeL~s~~~~~~~L~eI~GkvveLa-~dq~gSRvIQ~lLe~~s~Eqr~~If~EL~p~~~eL---~~D~yGnhVIQ 491 (760)
.+..++++|.....+.-.|.+++..+.... .+..--++|=.+|...+.|+...+++-|..-+..+ ...+.-.-+++
T Consensus 4 ~~~~~l~~l~~~~~~~~~L~~l~~~~~~~~~l~~~~~~~lf~~L~~~~~e~v~~~~~iL~~~l~~~~~~~l~~~~~~~L~ 83 (503)
T PF10508_consen 4 WINELLEELSSKAERLEALPELKTELSSSPFLERLPEPVLFDCLNTSNREQVELICDILKRLLSALSPDSLLPQYQPFLQ 83 (503)
T ss_pred HHHHHHHHHhcccchHHHHHHHHHHHhhhhHHHhchHHHHHHHHhhcChHHHHHHHHHHHHHHhccCHHHHHHHHHHHHH
Confidence 445566666555444444555554432222 11222223444566666666655543332111111 00222223456
Q ss_pred hhhccCCHHHHHHHHHH
Q 004342 492 KFFEHGSPDQRKELAEK 508 (760)
Q Consensus 492 KLLe~~s~eqr~~Ii~~ 508 (760)
+.|.+..+..|...+..
T Consensus 84 ~gL~h~~~~Vr~l~l~~ 100 (503)
T PF10508_consen 84 RGLTHPSPKVRRLALKQ 100 (503)
T ss_pred HHhcCCCHHHHHHHHHH
Confidence 67777777666665554
No 45
>PRK07194 fliG flagellar motor switch protein G; Reviewed
Probab=45.29 E-value=4.8e+02 Score=29.13 Aligned_cols=23 Identities=13% Similarity=0.173 Sum_probs=12.9
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHH
Q 004342 668 SNVVEKCLEYGDTAERELLIEEI 690 (760)
Q Consensus 668 S~VVEk~L~~a~~keRk~II~eL 690 (760)
...+-.+|...+++.|..|+..|
T Consensus 258 ~~~la~aLkg~~~e~r~~il~nm 280 (334)
T PRK07194 258 MELWAVALKGTEPALRQAILRVM 280 (334)
T ss_pred HHHHHHHHccCCHHHHHHHHHHc
Confidence 34444455555666666666665
No 46
>PF04286 DUF445: Protein of unknown function (DUF445); InterPro: IPR007383 This entry contains proteins of unknown function. They are predicted to be transmembrane proteins with 2 or 3 TM domains.
Probab=45.02 E-value=4.5e+02 Score=28.69 Aligned_cols=34 Identities=18% Similarity=0.225 Sum_probs=19.4
Q ss_pred CChhHHHHHHHhhCCHHHHHHHHHHHHHhHHHHh
Q 004342 707 QYANYVVQKILEKCNEKLRETLISRIRVHCDALK 740 (760)
Q Consensus 707 qyGnyVIQklL~~~dd~~rk~Il~~Lk~~l~~L~ 740 (760)
..|..|-+++=...+++.-+.|.+.+...+.-++
T Consensus 313 ~i~~~V~~~l~~~~~~~l~~~i~~~v~~dL~~Ir 346 (367)
T PF04286_consen 313 DIGEIVEEKLNSLDDEELEELIESKVGKDLQWIR 346 (367)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhHhhh
Confidence 4455555555444444455666667777776665
No 47
>COG2733 Predicted membrane protein [Function unknown]
Probab=43.14 E-value=3.7e+02 Score=30.86 Aligned_cols=49 Identities=16% Similarity=0.212 Sum_probs=24.6
Q ss_pred ChhhHHHHHHHHHHHHHHHhcCc---cHHHHHHHHHHhCCHHHHHHHHHHHhc
Q 004342 643 KSYERTQILSKLAGKIVQMSQHK---YASNVVEKCLEYGDTAERELLIEEILG 692 (760)
Q Consensus 643 ~~k~R~~Iie~L~~~l~~Ls~~K---~GS~VVEk~L~~a~~keRk~II~eLl~ 692 (760)
++..|..+.+.+..-...++..+ .+.++.+. ++.=++++....|+--+|
T Consensus 335 D~~lr~kln~~~~~aa~~l~e~~~~~it~~I~dT-v~~wD~~elsr~iel~vG 386 (415)
T COG2733 335 DDALRAKLNEHLVQAAERLAEEKHAEITKHISDT-VKRWDAEELSRQIELNVG 386 (415)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH-HhhcCHHHHHHHHHHhcC
Confidence 45566666666655444444322 23333333 333455665555555555
No 48
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=42.80 E-value=3.8e+02 Score=34.99 Aligned_cols=8 Identities=13% Similarity=0.073 Sum_probs=3.0
Q ss_pred CCCCCCCC
Q 004342 54 NPRIDDTN 61 (760)
Q Consensus 54 ~~~~~~~~ 61 (760)
|=+++..-
T Consensus 1400 nImlgqla 1407 (1605)
T KOG0260|consen 1400 NIMLGQLA 1407 (1605)
T ss_pred eeeecccc
Confidence 33333333
No 49
>COG1536 FliG Flagellar motor switch protein [Cell motility and secretion]
Probab=41.58 E-value=5.6e+02 Score=28.87 Aligned_cols=60 Identities=12% Similarity=0.143 Sum_probs=32.4
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHhcCCCCcHHHHHhhcCCChhHHHHHHHhhC-CHHHHHHHHHHHHHh
Q 004342 667 ASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKC-NEKLRETLISRIRVH 735 (760)
Q Consensus 667 GS~VVEk~L~~a~~keRk~II~eLl~~~~~ke~L~~La~DqyGnyVIQklL~~~-dd~~rk~Il~~Lk~~ 735 (760)
....+...|..++++.|++|++.|. .+..+|.++..+...= +... .++.++.|+..++..
T Consensus 263 ~~~~La~aLkg~~~~lrekilsnms------kR~~e~i~~el~~~gp---i~~~dve~aq~~il~~~r~l 323 (339)
T COG1536 263 DKEDLAIALKGASEELREKILSNMS------KRAAEMLKEELEFLGP---VRLSDVETAQKAILNIVRRL 323 (339)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHhcc------HHHHHHHHHHhhccCC---ccHHHHHHHHHHHHHHHHHH
Confidence 4555566666667777777777763 3455555554432221 1222 233566666666543
No 50
>PF14838 INTS5_C: Integrator complex subunit 5 C-terminus
Probab=40.89 E-value=4e+02 Score=32.85 Aligned_cols=136 Identities=16% Similarity=0.226 Sum_probs=64.6
Q ss_pred hcCCCcCHHHHHhhhcCCHHH------------HHHHHHHHhhchhhhccCcccchhhhhhh-ccCCHHHHHHHHHHHhh
Q 004342 445 SVDQHGSRFIQQKLEHCSAEE------------KVSVFKEVLPHASKLMTDVFGNYVIQKFF-EHGSPDQRKELAEKLVG 511 (760)
Q Consensus 445 a~dq~gSRvIQ~lLe~~s~Eq------------r~~If~EL~p~~~eL~~D~yGnhVIQKLL-e~~s~eqr~~Ii~~L~g 511 (760)
-+++.|.++|+.+|+.+.+.. ..+.+.+|.+.++. | +|+++ .++.+.....++++++.
T Consensus 111 ~~~~G~~~ll~~Lldta~~~s~~~~~~~~~~~~V~~~C~~iL~~ll~---~------Lq~lv~~~~~~~~~ipfL~~l~~ 181 (696)
T PF14838_consen 111 QCEQGAARLLQFLLDTASPASVIDTGGLNAHQAVREACDRILQLLLQ---D------LQKLVRNRGPQPRNIPFLEELKA 181 (696)
T ss_pred hccccHHHHHHHHHHhcccccccchhhhhhHHHHHHHHHHHHHHHHH---H------HHHHHHhccCCcccchHHHHHHH
Confidence 467888999999998876432 33444444432210 0 22222 12344445566677777
Q ss_pred ccccccccccccHHHHHHHHhhCHHHHHHHHHHhhhhHhHHhhcccCChhhh---Hhhhc-CChhHHHHHHHHhhhhHh-
Q 004342 512 QVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQ---KCIEC-VPAEKIEFIISAFRGQVA- 586 (760)
Q Consensus 512 ~v~~Ls~h~yGSrVIQklLe~as~eqr~~Lv~EL~g~i~~L~kDq~GNhVLQ---klLe~-~~~e~~~~Ii~~L~~~i~- 586 (760)
++.+|+ ..++.. +...+.-+. .+.-++.+++-+-+++ .++.. -++++...+++-+.+...
T Consensus 182 ~~~~Lc---------~~lL~~-n~~r~~w~~-----rLL~lL~~~~Psi~~~~~~~lL~~A~~~~~l~lli~L~~~~~~~ 246 (696)
T PF14838_consen 182 HITELC---------KELLSL-NRKRQQWAH-----RLLCLLSSQHPSIAIEAISYLLTKAQNPEHLALLIRLYAGLSVV 246 (696)
T ss_pred HHHHHH---------HHHhcc-chHHHHHHH-----HHHHHHhcCCCchHHHHHHHHHHhcCCHHHHHHHHHHHhcccCC
Confidence 765432 223322 111111111 1222333444343333 22222 356666666665555444
Q ss_pred -hhccCCcchhHHHHHHhh
Q 004342 587 -TLSTHPYGCRVIQRVLEH 604 (760)
Q Consensus 587 -~Ls~hkyGS~VLQklLe~ 604 (760)
-.+...+-..|+++++..
T Consensus 247 ~~~~~~~l~~~vle~~l~~ 265 (696)
T PF14838_consen 247 NFPSLPGLFPAVLEQCLRQ 265 (696)
T ss_pred ccccccchHHHHHHHHHHH
Confidence 123334445677777765
No 51
>cd03567 VHS_GGA VHS domain family, GGA subfamily; GGA (Golgi-localized, Gamma-ear-containing, Arf-binding) comprise a subfamily of ubiquitously expressed, monomeric, motif-binding cargo/clathrin adaptor proteins. The VHS domain has a superhelical structure similar to the structure of the ARM (Armadillo) repeats and is present at the N-termini of proteins. GGA proteins have a multidomain structure consisting of an N-terminal VHS domain linked by a short proline-rich linker to a GAT (GGA and TOM) domain, which is followed by a long flexible linker to the C-terminal appendage, GAE (gamma-adaptin ear) domain. The VHS domain of GGA proteins binds to the acidic-cluster dileucine (DxxLL) motif found on the cytoplasmic tails of cargo proteins trafficked between the trans-Golgi network and the endosomal system.
Probab=40.87 E-value=3.6e+02 Score=26.37 Aligned_cols=74 Identities=18% Similarity=0.291 Sum_probs=37.9
Q ss_pred HHHHHHHHhCCHHHHHHHH-HHHhcCCCCcHHHHHhhcCCC-hhHHHHHHHhhCCHHHHHHHHHHHHHhHHHHhhCCChH
Q 004342 669 NVVEKCLEYGDTAERELLI-EEILGQSEENDNLLVMMKDQY-ANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGK 746 (760)
Q Consensus 669 ~VVEk~L~~a~~keRk~II-~eLl~~~~~ke~L~~La~Dqy-GnyVIQklL~~~dd~~rk~Il~~Lk~~l~~L~~~~yGk 746 (760)
.+++.|.+.|.......|. ++++. .|.+++.+.| | ...+..++++|++-|..=-.++...+.
T Consensus 60 ~LLe~~vkNCG~~fh~evas~~Fl~------el~kl~~~k~~~--------~~~~~~Vk~kil~li~~W~~~f~~~p~-- 123 (139)
T cd03567 60 TVLEACMKNCGERFHSEVGKFRFLN------ELIKLVSPKYLG--------SRTSEKVKTKIIELLYSWTLELPHEPK-- 123 (139)
T ss_pred HHHHHHHHHcCHHHHHHHHhHHHHH------HHHHHhccccCC--------CCCCHHHHHHHHHHHHHHHHHhcccch--
Confidence 4777888887776655544 34432 2445554322 1 112455666666666555555543332
Q ss_pred HHHHHHHHHHhcC
Q 004342 747 HIVARFEQLYGEG 759 (760)
Q Consensus 747 ~Vv~kLekl~~~g 759 (760)
+.+.-..|...|
T Consensus 124 -~~~~Y~~Lk~~G 135 (139)
T cd03567 124 -IKEAYDMLKKQG 135 (139)
T ss_pred -HHHHHHHHHHCC
Confidence 444444444444
No 52
>TIGR00400 mgtE Mg2+ transporter (mgtE). This family of prokaryotic proteins models a class of Mg++ transporter first described in Bacillus firmus. May form a homodimer.
Probab=39.07 E-value=1.6e+02 Score=33.99 Aligned_cols=18 Identities=11% Similarity=0.231 Sum_probs=9.0
Q ss_pred hhhccCCHHHHHHHHHHH
Q 004342 492 KFFEHGSPDQRKELAEKL 509 (760)
Q Consensus 492 KLLe~~s~eqr~~Ii~~L 509 (760)
.+|++.+++.+.++++.+
T Consensus 61 ~vl~~l~~~~~~~ll~~l 78 (449)
T TIGR00400 61 DTFSNLDQSTQNKLLNSF 78 (449)
T ss_pred HHHHcCCHHHHHHHHHhC
Confidence 445555555555555444
No 53
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=38.72 E-value=6.6e+02 Score=28.86 Aligned_cols=264 Identities=15% Similarity=0.131 Sum_probs=0.0
Q ss_pred HHHHHHHhhchhhhccCcccchhhhhhhccCCHHHH--HHHHHH-HhhccccccccccccHHHHHHH----Hh-hCHHHH
Q 004342 467 VSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQR--KELAEK-LVGQVLPLSLQMYGCRVIQKAL----EV-IELHQK 538 (760)
Q Consensus 467 ~~If~EL~p~~~eL~~D~yGnhVIQKLLe~~s~eqr--~~Ii~~-L~g~v~~Ls~h~yGSrVIQklL----e~-as~eqr 538 (760)
.++.+.+.+.+..+..|+.. +|=.+.+.....--+ ..++.. +...+..+..++. --|+..++ +. .+++..
T Consensus 109 ~~~~~~l~~~v~~ll~~~~~-~VRk~A~~~l~~i~~~~p~~~~~~~~~~l~~lL~d~~-~~V~~~a~~~l~~i~~~~~~~ 186 (526)
T PF01602_consen 109 PEMAEPLIPDVIKLLSDPSP-YVRKKAALALLKIYRKDPDLVEDELIPKLKQLLSDKD-PSVVSAALSLLSEIKCNDDSY 186 (526)
T ss_dssp HHHHHHHHHHHHHHHHSSSH-HHHHHHHHHHHHHHHHCHCCHHGGHHHHHHHHTTHSS-HHHHHHHHHHHHHHHCTHHHH
T ss_pred cchhhHHHHHHHHHhcCCch-HHHHHHHHHHHHHhccCHHHHHHHHHHHHhhhccCCc-chhHHHHHHHHHHHccCcchh
Q ss_pred HHHHHHhhhhHhHHhhcccCChhhhHhhhcCChhHHHHHHHHhhhhHhhhccCCcchhHHHHHHhhCCChHHHHHHHHHH
Q 004342 539 SQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEI 618 (760)
Q Consensus 539 ~~Lv~EL~g~i~~L~kDq~GNhVLQklLe~~~~e~~~~Ii~~L~~~i~~Ls~hkyGS~VLQklLe~~~~~~q~~~Il~eL 618 (760)
..++..+...+..++ ....+...-.+++.+......-.....+..+++.++.... ..-..++-+.
T Consensus 187 ~~~~~~~~~~L~~~l-------------~~~~~~~q~~il~~l~~~~~~~~~~~~~~~~i~~l~~~l~--s~~~~V~~e~ 251 (526)
T PF01602_consen 187 KSLIPKLIRILCQLL-------------SDPDPWLQIKILRLLRRYAPMEPEDADKNRIIEPLLNLLQ--SSSPSVVYEA 251 (526)
T ss_dssp TTHHHHHHHHHHHHH-------------TCCSHHHHHHHHHHHTTSTSSSHHHHHHHHHHHHHHHHHH--HHHHHHHHHH
T ss_pred hhhHHHHHHHhhhcc-------------cccchHHHHHHHHHHHhcccCChhhhhHHHHHHHHHHHhh--ccccHHHHHH
Q ss_pred HHHHHHHhhccc-chHHHHHHHhcCChhhHHHHHHHHHHHHHHHhcCc----cHHHHHHHHHHhCCHHHHHHHHHHHhcC
Q 004342 619 LESAFALAQDQY-GNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHK----YASNVVEKCLEYGDTAERELLIEEILGQ 693 (760)
Q Consensus 619 ~~~l~~La~Dq~-GNyVVQ~LLe~~~~k~R~~Iie~L~~~l~~Ls~~K----~GS~VVEk~L~~a~~keRk~II~eLl~~ 693 (760)
...+..+..... -..+++.+..... .....+--.....+..++... ....++-.++...++..-+...-++
T Consensus 252 ~~~i~~l~~~~~~~~~~~~~L~~lL~-s~~~nvr~~~L~~L~~l~~~~~~~v~~~~~~~~~l~~~~d~~Ir~~~l~l--- 327 (526)
T PF01602_consen 252 IRLIIKLSPSPELLQKAINPLIKLLS-SSDPNVRYIALDSLSQLAQSNPPAVFNQSLILFFLLYDDDPSIRKKALDL--- 327 (526)
T ss_dssp HHHHHHHSSSHHHHHHHHHHHHHHHT-SSSHHHHHHHHHHHHHHCCHCHHHHGTHHHHHHHHHCSSSHHHHHHHHHH---
T ss_pred HHHHHHhhcchHHHHhhHHHHHHHhh-cccchhehhHHHHHHHhhcccchhhhhhhhhhheecCCCChhHHHHHHHH---
Q ss_pred CCCcHHHHHhhcCCChhHHHHHHHhhC----CHHHHHHHHHHHHHhHHHHhhCCChHHHHHHHHHHHhcC
Q 004342 694 SEENDNLLVMMKDQYANYVVQKILEKC----NEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLYGEG 759 (760)
Q Consensus 694 ~~~ke~L~~La~DqyGnyVIQklL~~~----dd~~rk~Il~~Lk~~l~~L~~~~yGk~Vv~kLekl~~~g 759 (760)
+..++.......|+..++... |.+.++.++..|..-.... .+.-..++..+.++...+
T Consensus 328 ------L~~l~~~~n~~~Il~eL~~~l~~~~d~~~~~~~i~~I~~la~~~--~~~~~~~v~~l~~ll~~~ 389 (526)
T PF01602_consen 328 ------LYKLANESNVKEILDELLKYLSELSDPDFRRELIKAIGDLAEKF--PPDAEWYVDTLLKLLEIS 389 (526)
T ss_dssp ------HHHH--HHHHHHHHHHHHHHHHHC--HHHHHHHHHHHHHHHHHH--GSSHHHHHHHHHHHHHCT
T ss_pred ------HhhcccccchhhHHHHHHHHHHhccchhhhhhHHHHHHHHHhcc--CchHHHHHHHHHHhhhhc
No 54
>KOG1059 consensus Vesicle coat complex AP-3, delta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=37.23 E-value=6.3e+02 Score=31.42 Aligned_cols=39 Identities=13% Similarity=0.113 Sum_probs=26.8
Q ss_pred hhhhHhHHhhcccCChhhhHhhhcC------ChhHHHHHHHHhhh
Q 004342 545 LDGHVMRCVRDQNGNHVIQKCIECV------PAEKIEFIISAFRG 583 (760)
Q Consensus 545 L~g~i~~L~kDq~GNhVLQklLe~~------~~e~~~~Ii~~L~~ 583 (760)
|-+-+++|+.+..-|+++-|+|+.+ .|...+.+++.+..
T Consensus 219 LAP~ffkllttSsNNWmLIKiiKLF~aLtplEPRLgKKLieplt~ 263 (877)
T KOG1059|consen 219 LAPLFYKLLVTSSNNWVLIKLLKLFAALTPLEPRLGKKLIEPITE 263 (877)
T ss_pred ccHHHHHHHhccCCCeehHHHHHHHhhccccCchhhhhhhhHHHH
Confidence 4566788999999999999998853 34444555544433
No 55
>PF14666 RICTOR_M: Rapamycin-insensitive companion of mTOR, middle domain
Probab=36.99 E-value=1.6e+02 Score=31.09 Aligned_cols=23 Identities=17% Similarity=0.400 Sum_probs=14.0
Q ss_pred HHHHhhhhHhhhccCCcchhHHH
Q 004342 577 IISAFRGQVATLSTHPYGCRVIQ 599 (760)
Q Consensus 577 Ii~~L~~~i~~Ls~hkyGS~VLQ 599 (760)
+......-+..|+.++.|-.+++
T Consensus 139 l~~~Yf~~IG~lS~~~~Gl~lLe 161 (226)
T PF14666_consen 139 LSRGYFLFIGVLSSTPNGLKLLE 161 (226)
T ss_pred HHHHHHHHHHHHhCChhHHHHHH
Confidence 33334445667788888865554
No 56
>PF14666 RICTOR_M: Rapamycin-insensitive companion of mTOR, middle domain
Probab=36.57 E-value=2.1e+02 Score=30.34 Aligned_cols=80 Identities=19% Similarity=0.153 Sum_probs=53.2
Q ss_pred HHHHHHHHHHHHhcCccHHHHHHHH--H----HhCCHHHHHHHHHHHhcCCCCcHHHHHhhcCCChhHHHHHHHhhCCHH
Q 004342 650 ILSKLAGKIVQMSQHKYASNVVEKC--L----EYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEK 723 (760)
Q Consensus 650 Iie~L~~~l~~Ls~~K~GS~VVEk~--L----~~a~~keRk~II~eLl~~~~~ke~L~~La~DqyGnyVIQklL~~~dd~ 723 (760)
+....-.-+-.|+.++.|-.++|++ + ...+.+.|..+++-++.. .....+.+..-++.++|..+++.
T Consensus 139 l~~~Yf~~IG~lS~~~~Gl~lLe~~~if~~l~~i~~~~~~~~l~klil~~-------LDY~~~~~~R~iLsKaLt~~s~~ 211 (226)
T PF14666_consen 139 LSRGYFLFIGVLSSTPNGLKLLERWNIFTMLYHIFSLSSRDDLLKLILSS-------LDYSVDGHPRIILSKALTSGSES 211 (226)
T ss_pred HHHHHHHHHHHHhCChhHHHHHHHCCHHHHHHHHHccCchHHHHHHHHhh-------CCCCCccHHHHHHHHHHhcCCHH
Confidence 3344444567889999999888762 2 123333455555555542 24556778899999999999999
Q ss_pred HHHHHHHHHHHhH
Q 004342 724 LRETLISRIRVHC 736 (760)
Q Consensus 724 ~rk~Il~~Lk~~l 736 (760)
.|....+.|+..+
T Consensus 212 iRl~aT~~L~~ll 224 (226)
T PF14666_consen 212 IRLYATKHLRVLL 224 (226)
T ss_pred HHHHHHHHHHHHh
Confidence 8877776666543
No 57
>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]
Probab=36.51 E-value=8.3e+02 Score=29.37 Aligned_cols=30 Identities=27% Similarity=0.298 Sum_probs=13.1
Q ss_pred ccccccccHHHHHHHHhhCHHHHHHHHHHh
Q 004342 516 LSLQMYGCRVIQKALEVIELHQKSQLVLEL 545 (760)
Q Consensus 516 Ls~h~yGSrVIQklLe~as~eqr~~Lv~EL 545 (760)
++.+.---..+-+++.......+.+|++-|
T Consensus 59 ~s~~~l~d~~l~~~~~~f~~n~k~~~veh~ 88 (711)
T COG1747 59 LSKQLLDDSCLVTLLTIFGDNHKNQIVEHL 88 (711)
T ss_pred hhhccccchHHHHHHHHhccchHHHHHHHH
Confidence 333333333344444444444455554443
No 58
>PF00790 VHS: VHS domain; InterPro: IPR002014 The VHS domain is a ~140 residues long domain, whose name is derived from its occurrence in VPS-27, Hrs and STAM. Based on regions surrounding the domain, VHS-proteins can be divided into 4 groups []: STAM/EAST/Hbp which all share the domain composition VHS-SH3-ITAM and carry one or two ubiquitin-interacting motifs Proteins with a FYVE domain (IPR000306 from INTERPRO) C-terminal to VHS which also carry one or two ubiquitin-interacting motifs GGA proteins with a domain composition VHS-GAT (GGA and Tom1) homology domain VHS domain alone or in combination with domains other than those listed above The VHS domain is always found at the N- terminus of proteins suggesting that such topology is important for function. The domain is considered to have a general membrane targeting/cargo recognition role in vesicular trafficking []. Resolution of the crystal structure of the VHS domain of Drosophila Hrs and human Tom1 revealed that it consists of eight helices arranged in a double-layer superhelix []. The existence of conserved patches of residues on the domain surface suggests that VHS domains may be involved in protein-protein recognition and docking. Overall, sequence similarity is low (approx 25%) amongst domain family members.; GO: 0006886 intracellular protein transport; PDB: 1X5B_A 2L0T_B 1DVP_A 3LDZ_C 3ZYQ_A 4AVX_A 3G2U_A 3G2W_A 1UJJ_A 3G2V_A ....
Probab=36.18 E-value=2.3e+02 Score=27.26 Aligned_cols=57 Identities=16% Similarity=0.279 Sum_probs=37.3
Q ss_pred hhcCCChhHHHHHHHhhCCHH---HHHHHHHHHHHhHHHHhhCCChHHHHHHHHHHHhcC
Q 004342 703 MMKDQYANYVVQKILEKCNEK---LRETLISRIRVHCDALKKYTYGKHIVARFEQLYGEG 759 (760)
Q Consensus 703 La~DqyGnyVIQklL~~~dd~---~rk~Il~~Lk~~l~~L~~~~yGk~Vv~kLekl~~~g 759 (760)
++...|-+.++.-+-...... +|+++++.|..=-..+...+.-+.|.+..+.+...|
T Consensus 81 v~~~~fl~~l~~l~~~~~~~~~~~Vk~k~l~ll~~W~~~f~~~~~~~~i~~~y~~Lk~~G 140 (140)
T PF00790_consen 81 VASKEFLDELVKLIKSKKTDPETPVKEKILELLQEWAEAFKSDPELSLIQDTYKRLKRKG 140 (140)
T ss_dssp HTSHHHHHHHHHHHHHTTTHHHSHHHHHHHHHHHHHHHHTTTSTTGHHHHHHHHHHHHTT
T ss_pred HhHHHHHHHHHHHHccCCCCchhHHHHHHHHHHHHHHHHHCCCCCchHHHHHHHHHHHCc
Confidence 344444444333333334443 788888888887777777788888888888887766
No 59
>KOG1248 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.16 E-value=1.1e+03 Score=30.80 Aligned_cols=272 Identities=11% Similarity=0.102 Sum_probs=0.0
Q ss_pred hHHHHHHHHhcCCCcCHHHHHhh----------hcCCHHHHHHHHHHHhhchhhh---ccCcccchhhhhhhcc-----C
Q 004342 436 DIAGRIVEFSVDQHGSRFIQQKL----------EHCSAEEKVSVFKEVLPHASKL---MTDVFGNYVIQKFFEH-----G 497 (760)
Q Consensus 436 eI~GkvveLa~dq~gSRvIQ~lL----------e~~s~Eqr~~If~EL~p~~~eL---~~D~yGnhVIQKLLe~-----~ 497 (760)
.+...+-+++.+.+-+.--+..+ ++.+.++...+| ++.+.+..- -..+-+-.|+..++.. .
T Consensus 612 ~l~~s~~e~as~~~~s~~~~~~~slLdl~~~~a~~~~e~~vs~l~-~v~~~~e~~~~~~vQkK~yrlL~~l~~~~s~~~~ 690 (1176)
T KOG1248|consen 612 SLKDSAGELASDLDESVASFKTLSLLDLLIALAPVQTESQVSKLF-TVDPEFENSSSTKVQKKAYRLLEELSSSPSGEGL 690 (1176)
T ss_pred HHHHHHHhHhccchhhhhhHHHHHHHHHHHhhhccccchhHHHHH-HhhHHhhccccHHHHHHHHHHHHHHhcCCchhhH
Q ss_pred CHHHHHHHHHHHhhcccccc--ccccccHHHHHHHHhhCHHHHHHHHHHhhhhHhHHhhccc--------------CChh
Q 004342 498 SPDQRKELAEKLVGQVLPLS--LQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQN--------------GNHV 561 (760)
Q Consensus 498 s~eqr~~Ii~~L~g~v~~Ls--~h~yGSrVIQklLe~as~eqr~~Lv~EL~g~i~~L~kDq~--------------GNhV 561 (760)
.....+.|.+.+..-+.... ...-.+.+|-.+++..+.+....+...|..-+..+ ++.+ |+
T Consensus 691 ~~q~i~~I~n~L~ds~qs~~~~~~~~rl~~L~~L~~~~~~e~~~~i~k~I~EvIL~~-Ke~n~~aR~~Af~lL~~i~~-- 767 (1176)
T KOG1248|consen 691 VEQRIDDIFNSLLDSFQSSSSPAQASRLKCLKRLLKLLSAEHCDLIPKLIPEVILSL-KEVNVKARRNAFALLVFIGA-- 767 (1176)
T ss_pred HHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHhc-ccccHHHHhhHHHHHHHHHH--
Q ss_pred hhHhhhcCChh---HHHHHHHHhhhhHhhhccCCcchhHHHHHHhhCCChHHHHHHHHHHHHHHHHHhhcccchHHHHHH
Q 004342 562 IQKCIECVPAE---KIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHV 638 (760)
Q Consensus 562 LQklLe~~~~e---~~~~Ii~~L~~~i~~Ls~hkyGS~VLQklLe~~~~~~q~~~Il~eL~~~l~~La~Dq~GNyVVQ~L 638 (760)
++..++-+.+. .....+..+...+..=.++...|-++.----. .++...+=++....+.+ -|+-.
T Consensus 768 i~~~~d~g~e~~~~~lnefl~~Isagl~gd~~~~~as~Ivai~~il---~e~~~~ld~~~l~~li~---------~V~~~ 835 (1176)
T KOG1248|consen 768 IQSSLDDGNEPASAILNEFLSIISAGLVGDSTRVVASDIVAITHIL---QEFKNILDDETLEKLIS---------MVCLY 835 (1176)
T ss_pred HHhhhcccccchHHHHHHHHHHHHhhhcccHHHHHHHHHHHHHHHH---HHHhccccHHHHHHHHH---------HHHHH
Q ss_pred HhcCChhhHHHHHHHHHHHHHHHhcCccHHHH--HHHHHHhCCHHHHHHHHHHHhcCCCCcHHHHHhhcCCChhHHHHHH
Q 004342 639 LERGKSYERTQILSKLAGKIVQMSQHKYASNV--VEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKI 716 (760)
Q Consensus 639 Le~~~~k~R~~Iie~L~~~l~~Ls~~K~GS~V--VEk~L~~a~~keRk~II~eLl~~~~~ke~L~~La~DqyGnyVIQkl 716 (760)
|.-.+++.++.-+..++--+..+-.-....++ +..-+-.-..+.+..+...+ -.|++.+.-.||--.|+.+
T Consensus 836 L~s~sreI~kaAI~fikvlv~~~pe~~l~~~~~~LL~sll~ls~d~k~~~r~Kv-------r~LlekLirkfg~~eLe~~ 908 (1176)
T KOG1248|consen 836 LASNSREIAKAAIGFIKVLVYKFPEECLSPHLEELLPSLLALSHDHKIKVRKKV-------RLLLEKLIRKFGAEELESF 908 (1176)
T ss_pred HhcCCHHHHHHHHHHHHHHHHcCCHHHHhhhHHHHHHHHHHHHHhhhHHHHHHH-------HHHHHHHHHHhCHHHHHhh
Q ss_pred HhhCCHHHHHHHHHHHHH
Q 004342 717 LEKCNEKLRETLISRIRV 734 (760)
Q Consensus 717 L~~~dd~~rk~Il~~Lk~ 734 (760)
+. ..-.+++..|++
T Consensus 909 ~p----ee~~klL~nIRK 922 (1176)
T KOG1248|consen 909 LP----EEDMKLLTNIRK 922 (1176)
T ss_pred CH----HHHHHHHHHHHH
No 60
>KOG1992 consensus Nuclear export receptor CSE1/CAS (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=34.55 E-value=1.1e+03 Score=30.01 Aligned_cols=224 Identities=13% Similarity=0.179 Sum_probs=99.9
Q ss_pred CHHHHHHHHHHHhhccc--cccccccccHHHHHHHHhhCH--------HHHHHHHHHhhhhHhHHh-h--cccCChhhhH
Q 004342 498 SPDQRKELAEKLVGQVL--PLSLQMYGCRVIQKALEVIEL--------HQKSQLVLELDGHVMRCV-R--DQNGNHVIQK 564 (760)
Q Consensus 498 s~eqr~~Ii~~L~g~v~--~Ls~h~yGSrVIQklLe~as~--------eqr~~Lv~EL~g~i~~L~-k--Dq~GNhVLQk 564 (760)
.+++...++..+..++. ....|.|+...+++++-.... +...-.+..+..++++-. . ...--|+++.
T Consensus 492 ~~~~lm~~~p~li~~L~a~s~vvhsYAA~aiEkil~vre~~~~~if~~~~iap~~~~ll~nLf~a~s~p~~~EneylmKa 571 (960)
T KOG1992|consen 492 GKEHLMALLPRLIRFLEAESRVVHSYAAIAIEKLLTVRENSNAKIFGAEDIAPFVEILLTNLFKALSLPGKAENEYLMKA 571 (960)
T ss_pred ChHHHHHHHHHHHHhccCcchHHHHHHHHHHHhccccccCccccccchhhcchHHHHHHHHHHHhccCCcccccHHHHHH
Confidence 46666666666655544 457899999999999955433 221111122222222111 1 1122244433
Q ss_pred hhh---cCChhH---HHHHHHHhhhhHhhhccCCcchhHHHHHHh--------hCC-ChHHHHHHHHHHHHHHHHHhhc-
Q 004342 565 CIE---CVPAEK---IEFIISAFRGQVATLSTHPYGCRVIQRVLE--------HCS-DEQQGQCIVDEILESAFALAQD- 628 (760)
Q Consensus 565 lLe---~~~~e~---~~~Ii~~L~~~i~~Ls~hkyGS~VLQklLe--------~~~-~~~q~~~Il~eL~~~l~~La~D- 628 (760)
+++ ..+... ...++..|..-+.+.++++.-...-..+|| .|. ++.....+.+.+..-+..+...
T Consensus 572 ImRii~i~~~~i~p~~~~~l~~Lteiv~~v~KNPs~P~fnHYLFEsi~~li~~t~~~~~~~vs~~e~aL~p~fq~Il~eD 651 (960)
T KOG1992|consen 572 IMRIISILQSAIIPHAPELLRQLTEIVEEVSKNPSNPQFNHYLFESIGLLIRKTCKANPSAVSSLEEALFPVFQTILSED 651 (960)
T ss_pred HHHHHHhCHHhhhhhhhHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHHH
Confidence 333 333222 234455555555666665543222222221 111 2112222333333222222111
Q ss_pred -----ccchHHHHHHHhcCCh---hhHHHHHHH-HHHHHHHHhcCcc-HHHHHHHHHHhCCHHHH-HHHHHHHhcCCCCc
Q 004342 629 -----QYGNYVTQHVLERGKS---YERTQILSK-LAGKIVQMSQHKY-ASNVVEKCLEYGDTAER-ELLIEEILGQSEEN 697 (760)
Q Consensus 629 -----q~GNyVVQ~LLe~~~~---k~R~~Iie~-L~~~l~~Ls~~K~-GS~VVEk~L~~a~~keR-k~II~eLl~~~~~k 697 (760)
+|+-.++--+++++.. +.-..++.. |.+.+++..-+-- --++++.+|..++...- ..-+.-+++.-+
T Consensus 652 I~EfiPYvfQlla~lve~~~~~ip~~~~~l~~~lLsp~lW~r~gNipalvrLl~aflk~g~~~~~~~~~l~~iLGifq-- 729 (960)
T KOG1992|consen 652 IQEFIPYVFQLLAVLVEHSSGTIPDSYSPLFPPLLSPNLWKRSGNIPALVRLLQAFLKTGSQIVEAADKLSGILGIFQ-- 729 (960)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHhcCHHHHhhcCCcHHHHHHHHHHHhcCchhhcccccchhHHHHHH--
Confidence 2333344445665443 333334433 2334444332221 34777888877653221 010111221000
Q ss_pred HHHHHhhcCCChhHHHHHHHhhCCHH
Q 004342 698 DNLLVMMKDQYANYVVQKILEKCNEK 723 (760)
Q Consensus 698 e~L~~La~DqyGnyVIQklL~~~dd~ 723 (760)
.-+..=+.|.+|-|.+..++...+..
T Consensus 730 kLiaSka~Dh~GF~LLn~i~~~~~~~ 755 (960)
T KOG1992|consen 730 KLIASKANDHHGFYLLNTIIESIPPN 755 (960)
T ss_pred HHhcCcccchhHHHHHHHHHhcCCHh
Confidence 01112357999999999999998765
No 61
>PF09770 PAT1: Topoisomerase II-associated protein PAT1; InterPro: IPR019167 Proteins in this entry are necessary for accurate chromosome transmission during cell division []. ; PDB: 2XER_C 2XES_B 2XEQ_D.
Probab=34.21 E-value=34 Score=42.53 Aligned_cols=42 Identities=14% Similarity=0.195 Sum_probs=32.1
Q ss_pred chhhhccCcccchhhhhhhccCCHHHHHHHHHHHhhcccccc
Q 004342 476 HASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLS 517 (760)
Q Consensus 476 ~~~eL~~D~yGnhVIQKLLe~~s~eqr~~Ii~~L~g~v~~Ls 517 (760)
.++.++.-.=|..+|-++|.+.+.+++..|+..|..++..|.
T Consensus 576 ~fi~~ls~~KGkkll~R~~~~l~~~q~~~il~~i~~~l~~l~ 617 (808)
T PF09770_consen 576 PFISILSVRKGKKLLPRIFPFLSQEQRLTILTMIFRHLDQLD 617 (808)
T ss_dssp HHHHHTTSHHHHHHHHHHGGGS-HHHHHHHHHHHHHTH----
T ss_pred cceEEEeeCChheeHHhhhhhCChhHHHHHHHHHHHHhhhhc
Confidence 467788888899999999999999999999998888775443
No 62
>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]
Probab=31.13 E-value=1e+03 Score=28.72 Aligned_cols=25 Identities=28% Similarity=0.619 Sum_probs=17.2
Q ss_pred HHHHHHhcCCh--hhHHHHHHHHHHHH
Q 004342 634 VTQHVLERGKS--YERTQILSKLAGKI 658 (760)
Q Consensus 634 VVQ~LLe~~~~--k~R~~Iie~L~~~l 658 (760)
|+.++|++-.. ..|++|++.|++.+
T Consensus 227 Ilk~il~~d~k~~~ar~~~i~~lRd~y 253 (711)
T COG1747 227 ILKHILEHDEKDVWARKEIIENLRDKY 253 (711)
T ss_pred HHHHHhhhcchhhhHHHHHHHHHHHHh
Confidence 66677776543 46888888887744
No 63
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=30.87 E-value=3.6e+02 Score=33.87 Aligned_cols=96 Identities=13% Similarity=0.135 Sum_probs=42.1
Q ss_pred hhHHHHHHhhCCChHHHHHHHHHHHHHHHHHhhc---ccchHHHHHHHhcCChhhHHHHHHHHHHHHHHHhcCccHHHHH
Q 004342 595 CRVIQRVLEHCSDEQQGQCIVDEILESAFALAQD---QYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVV 671 (760)
Q Consensus 595 S~VLQklLe~~~~~~q~~~Il~eL~~~l~~La~D---q~GNyVVQ~LLe~~~~k~R~~Iie~L~~~l~~Ls~~K~GS~VV 671 (760)
..|+..++..|..-..+..-.++|.+.+..++.. .+..-.+..+.+.+....|+.|- |..+...+...+.....|
T Consensus 160 ~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI~id~eAL~lIA~~A~GsmRdALs--LLdQAia~~~~~It~~~V 237 (830)
T PRK07003 160 QKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERIAFEPQALRLLARAAQGSMRDALS--LTDQAIAYSANEVTETAV 237 (830)
T ss_pred hhccchhhhheEEEecCCcCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHH--HHHHHHHhccCCcCHHHH
Confidence 4555566655543222222233444444443322 23345555565555544444331 111222233334444445
Q ss_pred HHHHHhCCHHHHHHHHHHHhc
Q 004342 672 EKCLEYGDTAERELLIEEILG 692 (760)
Q Consensus 672 Ek~L~~a~~keRk~II~eLl~ 692 (760)
..+|...+.+....|++.|+.
T Consensus 238 ~~~LG~~d~~~i~~ll~aL~~ 258 (830)
T PRK07003 238 SGMLGALDQTYMVRLLDALAA 258 (830)
T ss_pred HHHhCCCCHHHHHHHHHHHHc
Confidence 555555555555555555544
No 64
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=30.73 E-value=8.5e+02 Score=32.68 Aligned_cols=37 Identities=14% Similarity=0.101 Sum_probs=22.7
Q ss_pred HHHHhcCCCcCH----HHHHhhhcCCHHHHHHHHHHHhhch
Q 004342 441 IVEFSVDQHGSR----FIQQKLEHCSAEEKVSVFKEVLPHA 477 (760)
Q Consensus 441 vveLa~dq~gSR----vIQ~lLe~~s~Eqr~~If~EL~p~~ 477 (760)
...+-.++..|. .|+..|+-...|.-.+|+++.++.+
T Consensus 1448 erlvrssPNSSi~WI~YMaf~LelsEiekAR~iaerAL~tI 1488 (1710)
T KOG1070|consen 1448 ERLVRSSPNSSILWIRYMAFHLELSEIEKARKIAERALKTI 1488 (1710)
T ss_pred HHHHhcCCCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhC
Confidence 334455666664 4566666677777777777765533
No 65
>PF10230 DUF2305: Uncharacterised conserved protein (DUF2305); InterPro: IPR019363 This entry contains proteins that have no known function.
Probab=30.21 E-value=1.4e+02 Score=31.95 Aligned_cols=46 Identities=17% Similarity=0.217 Sum_probs=20.6
Q ss_pred ccccccccHHHHHHHHhhC-HHHHHHHHHHhhhhHhHHhhcccCChh
Q 004342 516 LSLQMYGCRVIQKALEVIE-LHQKSQLVLELDGHVMRCVRDQNGNHV 561 (760)
Q Consensus 516 Ls~h~yGSrVIQklLe~as-~eqr~~Lv~EL~g~i~~L~kDq~GNhV 561 (760)
|.-|..||++++++++... ...+..-+--|.+.+..+.++++|..+
T Consensus 88 LiGHSIGayi~levl~r~~~~~~~V~~~~lLfPTi~~ia~Sp~G~~l 134 (266)
T PF10230_consen 88 LIGHSIGAYIALEVLKRLPDLKFRVKKVILLFPTIEDIAKSPNGRRL 134 (266)
T ss_pred EEeCcHHHHHHHHHHHhccccCCceeEEEEeCCccccccCCchhHHH
Confidence 4555666666666655443 111111111234555555555555433
No 66
>PF11510 FA_FANCE: Fanconi Anaemia group E protein FANCE; InterPro: IPR021025 Fanconi Anaemia (FA) is a cancer predisposition disorder characterised by chromosome fragility and hypersensitivity to genotoxic agents that suggest defects in the molecular mechanisms of DNA damage signalling and repair. In response to DNA damage, the FA core complex monoubiquitinates the FANCD2 protein. This ubiquitination targets FANCD2 to nuclear foci where it interacts with a variety of DNA repair proteins. The FA group E protein (FANCE) has an important role in DNA repair, functioning as the FANCD2-binding protein in the FA core complex []. This entry represents the C-terminal domain of FANCE, which consists predominantly of helices and does not contain any beta-strands. This domain folds in a continuous right-handed solenoidal pattern from its N terminus to its C terminus. ; PDB: 2ILR_A.
Probab=29.47 E-value=7.7e+02 Score=26.85 Aligned_cols=165 Identities=15% Similarity=0.186 Sum_probs=61.1
Q ss_pred hhhhhccCCHHHHHHHHHHHh-hccccccccccccHHHHHHHHhh---CHHHHHHHH-HHhhhhHhHHhhcccCChhhhH
Q 004342 490 IQKFFEHGSPDQRKELAEKLV-GQVLPLSLQMYGCRVIQKALEVI---ELHQKSQLV-LELDGHVMRCVRDQNGNHVIQK 564 (760)
Q Consensus 490 IQKLLe~~s~eqr~~Ii~~L~-g~v~~Ls~h~yGSrVIQklLe~a---s~eqr~~Lv-~EL~g~i~~L~kDq~GNhVLQk 564 (760)
+-++|..|++.|.+.|-+.+. +.+.+=. =..+.+.++... +...-..++ ..+.+.+..| ..-.++++..
T Consensus 40 ~lq~L~~csp~q~e~lc~~L~l~~lsd~~----l~~lc~~ll~Ls~dls~~~a~~l~~sl~LpkilsL--~~~ASR~L~s 113 (263)
T PF11510_consen 40 ELQFLNECSPSQVEMLCSQLQLPQLSDDG----LLQLCSSLLALSPDLSHSNATVLLRSLFLPKILSL--EEPASRLLVS 113 (263)
T ss_dssp HHHGGGG--HHHHHHHHHHHTGGG--HHH----HHHHHHHHHH-SS---HHHHHHHHHHHHHHHHHH---SS---HHHHH
T ss_pred HHHHHHhCCHHHHHHHHHHhCcCCCCHHH----HHHHHHHHHccCcccchhhHHHHHHHHHHHHHHhc--CCCccHHHHH
Confidence 335666778888888877664 2211100 011111222110 111112222 2345555555 3344455444
Q ss_pred hhhcCChhHHHHHHHHhh-hhHhhhccCCcchhHHHHHH-hhCCChHHHHHHHHHHHHHHHHHhhcccchHHHHHHHhcC
Q 004342 565 CIECVPAEKIEFIISAFR-GQVATLSTHPYGCRVIQRVL-EHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERG 642 (760)
Q Consensus 565 lLe~~~~e~~~~Ii~~L~-~~i~~Ls~hkyGS~VLQklL-e~~~~~~q~~~Il~eL~~~l~~La~Dq~GNyVVQ~LLe~~ 642 (760)
.+..+-...-..+++.+. .-+..-...+.=+-+|-+++ +.+-+++.+..++..+. .+.-+..---|+|.+++..
T Consensus 114 al~~f~k~~p~~~~~all~PlL~~~~~g~~Q~eLl~rlvk~~~l~p~~~~l~l~~~L----~~~W~E~~~~Vlq~lL~~k 189 (263)
T PF11510_consen 114 ALTSFCKKYPRPVCEALLVPLLQAPGLGPPQCELLCRLVKKECLEPDHRLLLLRQIL----ELVWNEETFLVLQSLLERK 189 (263)
T ss_dssp HHHHHHHHSHHHHHHHHHHHHHHSTT--HHHHHHHHHHHH-TTS-HHHHHHHHHHHH----HS---HHHHHHHHHHHTT-
T ss_pred HHHHHHHhCcHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccCCHHHHHHHHHHHH----hCcCcHHHHHHHHHHHhcC
Confidence 443222222233333322 21111112222345667777 55666666655555544 2333344456888888875
Q ss_pred Ch---hhHHHHHHHHHHHHHHHhcC
Q 004342 643 KS---YERTQILSKLAGKIVQMSQH 664 (760)
Q Consensus 643 ~~---k~R~~Iie~L~~~l~~Ls~~ 664 (760)
.+ +....+++.|.+.-..++.+
T Consensus 190 ~~l~~~~~~~l~~~L~~~a~~~skS 214 (263)
T PF11510_consen 190 VELSQELFSLLVELLCEQAPQFSKS 214 (263)
T ss_dssp ----HHHHHHHHHHHH--------S
T ss_pred CCCCHHHHHHHHHHHHHhhHhhhcc
Confidence 43 22333444444443333333
No 67
>KOG2160 consensus Armadillo/beta-catenin-like repeat-containing protein [Posttranslational modification, protein turnover, chaperones]
Probab=28.48 E-value=9.1e+02 Score=27.35 Aligned_cols=122 Identities=16% Similarity=0.185 Sum_probs=62.1
Q ss_pred CCHHHHHHHHHHHh------hchhhhccCcccchhhhhhhccCCHHHHHHHHHHHhhccccccccccccHHHHHHHHhhC
Q 004342 461 CSAEEKVSVFKEVL------PHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIE 534 (760)
Q Consensus 461 ~s~Eqr~~If~EL~------p~~~eL~~D~yGnhVIQKLLe~~s~eqr~~Ii~~L~g~v~~Ls~h~yGSrVIQklLe~as 534 (760)
.+.+++..-|++|. ++...|++...---|+- .++..+.+.|.. +.+||-++...-.
T Consensus 95 ~~le~ke~ald~Le~lve~iDnAndl~~~ggl~~ll~-~l~~~~~~lR~~-----------------Aa~Vigt~~qNNP 156 (342)
T KOG2160|consen 95 VDLEDKEDALDNLEELVEDIDNANDLISLGGLVPLLG-YLENSDAELREL-----------------AARVIGTAVQNNP 156 (342)
T ss_pred CCHHHHHHHHHHHHHHHHhhhhHHhHhhccCHHHHHH-HhcCCcHHHHHH-----------------HHHHHHHHHhcCH
Confidence 46677777777765 45556666555444444 777777766653 5677777776644
Q ss_pred HHHHHHHHHHhhhhHhHHhhcccCChhhhHhhhcCChhHHHHHHHHhhhhHhhhccCCcchhHHHHHHhhCC
Q 004342 535 LHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCS 606 (760)
Q Consensus 535 ~eqr~~Lv~EL~g~i~~L~kDq~GNhVLQklLe~~~~e~~~~Ii~~L~~~i~~Ls~hkyGS~VLQklLe~~~ 606 (760)
..|..-|-.-....++..+....-+++..|.+-... .++.... -.......-+|..+++.+++...
T Consensus 157 ~~Qe~v~E~~~L~~Ll~~ls~~~~~~~r~kaL~Ais-----sLIRn~~-~g~~~fl~~~G~~~L~~vl~~~~ 222 (342)
T KOG2160|consen 157 KSQEQVIELGALSKLLKILSSDDPNTVRTKALFAIS-----SLIRNNK-PGQDEFLKLNGYQVLRDVLQSNN 222 (342)
T ss_pred HHHHHHHHcccHHHHHHHHccCCCchHHHHHHHHHH-----HHHhcCc-HHHHHHHhcCCHHHHHHHHHcCC
Confidence 333332222233444444444444444333222110 1111110 01111223367889999998753
No 68
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=28.38 E-value=8.4e+02 Score=30.83 Aligned_cols=26 Identities=4% Similarity=-0.151 Sum_probs=16.4
Q ss_pred CCHHHHHHHHHHHHHhHHHHhhCCCh
Q 004342 720 CNEKLRETLISRIRVHCDALKKYTYG 745 (760)
Q Consensus 720 ~dd~~rk~Il~~Lk~~l~~L~~~~yG 745 (760)
.+.....++++.|..-+..++.+..-
T Consensus 326 ~s~~~L~r~ie~l~ea~~~lrgn~np 351 (824)
T PRK07764 326 LGPAELTRAADVVNDGLTEMRGATSP 351 (824)
T ss_pred CCHHHHHHHHHHHHHHHHHHhhCCCc
Confidence 44555666777777777777655443
No 69
>KOG2235 consensus Uncharacterized conserved protein [Function unknown]
Probab=27.45 E-value=1.2e+03 Score=28.51 Aligned_cols=32 Identities=16% Similarity=0.220 Sum_probs=26.2
Q ss_pred CCCCCCCCCCcchhhhhhcccccchhHHHHHH
Q 004342 57 IDDTNSKNAGLEDVASVSAASQSDVSRAESRM 88 (760)
Q Consensus 57 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 88 (760)
|+||-+.+||--.+.-++-.-+.|.+++|.+.
T Consensus 63 I~dEl~v~GgRaslvDla~tlnVDl~hIEk~a 94 (776)
T KOG2235|consen 63 IKDELIVAGGRASLVDLAVTLNVDLDHIEKTA 94 (776)
T ss_pred HHHHHHHhCCcchhHHHHHHhCcCHHHHHHHH
Confidence 67888888887777777778888999999776
No 70
>PF10521 DUF2454: Protein of unknown function (DUF2454); InterPro: IPR018870 Putative protein of unknown function; subunit of the ASTRA complex which is part of the chromatin remodeling machinery; similar to Schizosaccharomyces pombe (Fission yeast) Tti2p; may interact with Rsm23p [].
Probab=27.23 E-value=8.1e+02 Score=26.41 Aligned_cols=53 Identities=17% Similarity=0.184 Sum_probs=32.7
Q ss_pred cccHHHHHHHH-hhCHHHHHHHHHHhhhhHhHHhhccc------CChhhhHhhhcCChhH
Q 004342 521 YGCRVIQKALE-VIELHQKSQLVLELDGHVMRCVRDQN------GNHVIQKCIECVPAEK 573 (760)
Q Consensus 521 yGSrVIQklLe-~as~eqr~~Lv~EL~g~i~~L~kDq~------GNhVLQklLe~~~~e~ 573 (760)
+++.++.-++. ..+.....+.+.-+.+-+..++-|.. |..+++++++..+...
T Consensus 95 ~~~~~l~w~v~~~~~~~~i~~~~~liiP~iL~llDD~~~~~K~~G~~lL~~ll~~~~~~~ 154 (282)
T PF10521_consen 95 LASHVLSWIVLSQLDRPWISQHWPLIIPPILNLLDDYSPEIKIQGCQLLHHLLEKVPAAE 154 (282)
T ss_pred ccHHHHHHHHHhcCCcchHHHhhhHHHhhHHHHhcCCCHHHHHHHHHHHHHHHHhCChhh
Confidence 44566666666 55555555566666666777766643 6666677776665544
No 71
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=27.18 E-value=5.9e+02 Score=24.78 Aligned_cols=74 Identities=23% Similarity=0.348 Sum_probs=43.0
Q ss_pred HHHHHHHHHhCCHHHHHHHH-HHHhcCCCCcHHHHHhhcCCChhHHHHHHHhhCCHHHHHHHHHHHHHhHHHHhhCCChH
Q 004342 668 SNVVEKCLEYGDTAERELLI-EEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGK 746 (760)
Q Consensus 668 S~VVEk~L~~a~~keRk~II-~eLl~~~~~ke~L~~La~DqyGnyVIQklL~~~dd~~rk~Il~~Lk~~l~~L~~~~yGk 746 (760)
=.+++.|...|.......|. ++++ +.|..|+.+ ..+..+++++++-|..=-..++..+.=.
T Consensus 62 L~LLe~~vkNCG~~fh~evas~~fl------~~l~~l~~~------------~~~~~Vk~kil~li~~W~~~f~~~~~l~ 123 (142)
T cd03569 62 LLLLESCVKNCGTHFHDEVASREFM------DELKDLIKT------------TKNEEVRQKILELIQAWALAFRNKPQLK 123 (142)
T ss_pred HHHHHHHHHHCCHHHHHHHhhHHHH------HHHHHHHcc------------cCCHHHHHHHHHHHHHHHHHhCCCcccH
Confidence 35677777777655443322 2222 234444444 3455677777777777666666665555
Q ss_pred HHHHHHHHHHhcC
Q 004342 747 HIVARFEQLYGEG 759 (760)
Q Consensus 747 ~Vv~kLekl~~~g 759 (760)
.|.+.-+.|...|
T Consensus 124 ~i~~~y~~L~~~G 136 (142)
T cd03569 124 YVVDTYQILKAEG 136 (142)
T ss_pred HHHHHHHHHHHcC
Confidence 6666666666665
No 72
>PF08625 Utp13: Utp13 specific WD40 associated domain; InterPro: IPR013934 A large ribonuclear protein complex is required for the processing of the small-ribosomal-subunit rRNA - the small-subunit (SSU) processome [, ]. This preribosomal complex contains the U3 snoRNA and at least 40 proteins, which have the following properties: They are nucleolar. They are able to coimmunoprecipitate with the U3 snoRNA and Mpp10 (a protein specific to the SSU processome). They are required for 18S rRNA biogenesis. There appears to be a linkage between polymerase I transcription and the formation of the SSU processome; as some, but not all, of the SSU processome components are required for pre-rRNA transcription initiation. These SSU processome components have been termed t-Utps. They form a pre-complex with pre-18S rRNA in the absence of snoRNA U3 and other SSU processome components. It has been proposed that the t-Utp complex proteins are both rDNA and rRNA binding proteins that are involved in the initiation of pre18S rRNA transcription. Initially binding to rDNA then associating with the 5' end of the nascent pre18S rRNA. The t-Utpcomplex forms the nucleus around which the rest of the SSU processome components, including snoRNA U3, assemble []. From electron microscopy the SSU processome may correspond to the terminal knobs visualized at the 5' ends of nascent 18S rRNA. Utp13 is a nucleolar protein and component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA []. Upt13 is also a component of the Pwp2 complex that forms part of a stable particle subunit independent of the U3 small nucleolar ribonucleoprotein that is essential for the initial assembly steps of the 90S pre-ribosome []. Components of the Pwp2 complex are: Utp1 (Pwp2), Utp6, Utp12 (Dip2), Utp13, Utp18, and Utp21. The relationship between the Pwp2 complex and the t-Utps complex [] that also associates with the 5' end of nascent pre-18S rRNA is unclear. ; GO: 0006364 rRNA processing, 0032040 small-subunit processome
Probab=26.88 E-value=6.1e+02 Score=24.83 Aligned_cols=111 Identities=16% Similarity=0.199 Sum_probs=57.7
Q ss_pred HHHHHhcCChhhHHHHHHHHHHHHHHHhcCccHHHHHHHHHHhCCHHHHHHHHHHHhcCCCCcHHHHHhhcC-CChhHHH
Q 004342 635 TQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKD-QYANYVV 713 (760)
Q Consensus 635 VQ~LLe~~~~k~R~~Iie~L~~~l~~Ls~~K~GS~VVEk~L~~a~~keRk~II~eLl~~~~~ke~L~~La~D-qyGnyVI 713 (760)
+.-.|+...|...-.|++.+.. ..--.+..|+..++.++...+.++...+++-+.. .-.-+++ .-|..|+
T Consensus 17 l~LAl~L~~P~~ll~i~~~~~~--~~~~~~~~g~~~l~~~i~~L~~~~l~~LL~~ir~-------WNTNsr~~~vAQ~vL 87 (141)
T PF08625_consen 17 LRLALKLDHPFRLLKILKDLLE--TEEDEDSIGSEELDEVIKKLDDEQLEKLLRFIRD-------WNTNSRTSHVAQRVL 87 (141)
T ss_pred HHHHHhcCCcHHHHHHHHHHHh--cccccccchHHHHHHHHHhcCHHHHHHHHHHHHH-------hhcccccHHHHHHHH
Confidence 4444555555554445544442 1112233477888888888777777766655532 1111111 1245566
Q ss_pred HHHHhhCCHHHHHHHHHHHHHhHHHHhhCCChHHHHHHHHHHHh
Q 004342 714 QKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLYG 757 (760)
Q Consensus 714 QklL~~~dd~~rk~Il~~Lk~~l~~L~~~~yGk~Vv~kLekl~~ 757 (760)
-.+|..........+ ..++..+..|. +|-.|=..|+++++.
T Consensus 88 ~~il~~~~~~~L~~~-~~~~~~le~li--pYteRH~~Rl~~L~q 128 (141)
T PF08625_consen 88 NAILKSHPPEELLKI-PGLKEILEALI--PYTERHFQRLDRLLQ 128 (141)
T ss_pred HHHHHhCCHHHHHcc-ccHHHHHHHHh--hhHHHHHHHHHHHHH
Confidence 666665554432111 24666666665 555555666666654
No 73
>cd03565 VHS_Tom1 VHS domain family, Tom1 subfamily; The VHS domain is an essential part of Tom1 (Target of myb1 - retroviral oncogene) protein. The VHS domain has a superhelical structure similar to the structure of the ARM repeats and is present at the very N-termini of proteins. It is a right-handed superhelix of eight alpha helices. The VHS domain has been found in a number of proteins, some of which have been implicated in intracellular trafficking and sorting. The VHS domain of the Tom1 protein is essential for the negative regulation of Interleukin-1 and Tumor Necrosis Factor-induced signaling pathways.
Probab=26.05 E-value=6.2e+02 Score=24.62 Aligned_cols=39 Identities=21% Similarity=0.314 Sum_probs=27.8
Q ss_pred CHHHHHHHHHHHHHhHHHHhhCCChHHHHHHHHHHHhcC
Q 004342 721 NEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLYGEG 759 (760)
Q Consensus 721 dd~~rk~Il~~Lk~~l~~L~~~~yGk~Vv~kLekl~~~g 759 (760)
...++++|++-|..=-..++..+.=+.|.+..+.|...|
T Consensus 99 ~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~L~~~G 137 (141)
T cd03565 99 PTIVQEKVLALIQAWADAFRGSPDLTGVVEVYEELKKKG 137 (141)
T ss_pred cHHHHHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHcC
Confidence 345777887777777777776665567777777777766
No 74
>PF12231 Rif1_N: Rap1-interacting factor 1 N terminal; InterPro: IPR022031 This domain family is found in eukaryotes, and is typically between 135 and 146 amino acids in length. Rif1 is a protein which interacts with Rap1 to regulate telomere length. Interaction with telomeres limits their length. The N-terminal region contains many HEAT- and ARMADILLO- type repeats. These are helical folds which form extended curved proteins or RNA interface surfaces.
Probab=25.92 E-value=9.8e+02 Score=26.92 Aligned_cols=48 Identities=8% Similarity=0.072 Sum_probs=28.8
Q ss_pred hcccchHHHHHHHhcCChhhHHHHHHHHHHHHHHHhcCccHHHHHHHHHH
Q 004342 627 QDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLE 676 (760)
Q Consensus 627 ~Dq~GNyVVQ~LLe~~~~k~R~~Iie~L~~~l~~Ls~~K~GS~VVEk~L~ 676 (760)
.++.-+..+..+++...... .+++.+.+.+.+|..++.-...+.++|.
T Consensus 208 ~~~~~s~~~~~~~~~~~~~~--~~~~~~~~~L~~mi~~~~~~~~a~~iW~ 255 (372)
T PF12231_consen 208 PNKELSKSVLEDLQRSLENG--KLIQLYCERLKEMIKSKDEYKLAMQIWS 255 (372)
T ss_pred hhHHHHHHHHHHhccccccc--cHHHHHHHHHHHHHhCcCCcchHHHHHH
Confidence 34444555555555444333 6788888888888888544444444443
No 75
>PF10521 DUF2454: Protein of unknown function (DUF2454); InterPro: IPR018870 Putative protein of unknown function; subunit of the ASTRA complex which is part of the chromatin remodeling machinery; similar to Schizosaccharomyces pombe (Fission yeast) Tti2p; may interact with Rsm23p [].
Probab=25.81 E-value=5.1e+02 Score=27.97 Aligned_cols=83 Identities=13% Similarity=0.141 Sum_probs=46.4
Q ss_pred cCCHHHHHHHHHHHhhchhhhccCc------ccchhhhhhhccCCHHHHHHHHHHHhhccccccccccc-cHHHHHHHHh
Q 004342 460 HCSAEEKVSVFKEVLPHASKLMTDV------FGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYG-CRVIQKALEV 532 (760)
Q Consensus 460 ~~s~Eqr~~If~EL~p~~~eL~~D~------yGnhVIQKLLe~~s~eqr~~Ii~~L~g~v~~Ls~h~yG-SrVIQklLe~ 532 (760)
..+.......+.-+.|-++.|+.|. -|..++..+++.+....- .....+| ..|++.++..
T Consensus 107 ~~~~~~i~~~~~liiP~iL~llDD~~~~~K~~G~~lL~~ll~~~~~~~~-------------~~L~~tGl~~v~~~al~~ 173 (282)
T PF10521_consen 107 QLDRPWISQHWPLIIPPILNLLDDYSPEIKIQGCQLLHHLLEKVPAAEW-------------DILRRTGLFSVFEDALFP 173 (282)
T ss_pred cCCcchHHHhhhHHHhhHHHHhcCCCHHHHHHHHHHHHHHHHhCChhhh-------------HHHHHcChHHHHHHHHHH
Confidence 4555566667777778777777774 355555566655544430 0012222 3455555532
Q ss_pred h--------CHHHHHHHHHHhhhhHhHHhhc
Q 004342 533 I--------ELHQKSQLVLELDGHVMRCVRD 555 (760)
Q Consensus 533 a--------s~eqr~~Lv~EL~g~i~~L~kD 555 (760)
+ +.++-..++.+.++.+..|++-
T Consensus 174 ~L~~LP~~tp~~~s~~Ll~~ay~~L~~L~~~ 204 (282)
T PF10521_consen 174 CLYYLPPITPEDESLELLQAAYPALLSLLKT 204 (282)
T ss_pred HhhcCCCCCCchhhHHHHHHHHHHHHHHHHh
Confidence 2 1355566777777777766554
No 76
>cd03568 VHS_STAM VHS domain family, STAM subfamily; members include STAM (Signal Transducing Adaptor Molecule), EAST (EGFR-associated protein with SH3 and TAM domains) and Hbp (Hrs-binding protein). Collectively, they are referred to as STAM. All STAMs have at their N-termini a VHS domain, which is involved in cytokine-mediated intracellular signal transduction and has a superhelical structure similar to the structure of ARM (Armadillo) repeats, followed by a SH3 (Src homology 3) domain, a well-established protein-protein interaction domain. At the C-termini of most vertebrate STAMS, an ITAM (Immunoreceptor Tyrosine-based Activation) motif is present, which mediates the binding of HRS (hepatocyte growth factor-regulated tyrosine kinase substrate) in endocytic and exocytic machineries.
Probab=25.81 E-value=6.4e+02 Score=24.69 Aligned_cols=75 Identities=16% Similarity=0.279 Sum_probs=45.3
Q ss_pred HHHHHHHHHHhCCHHHHHHHHH-HHhcCCCCcHHHHHhhcCCChhHHHHHHHhhCCHHHHHHHHHHHHHhHHHHhhCCCh
Q 004342 667 ASNVVEKCLEYGDTAERELLIE-EILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYG 745 (760)
Q Consensus 667 GS~VVEk~L~~a~~keRk~II~-eLl~~~~~ke~L~~La~DqyGnyVIQklL~~~dd~~rk~Il~~Lk~~l~~L~~~~yG 745 (760)
+=.+++.|.+.|.......|.. +++ +.|.+|+.++ .+..++++|++-|..=-..+..++.=
T Consensus 57 AL~LLe~~vkNCG~~fh~evask~Fl------~eL~kl~~~~------------~~~~Vk~kil~li~~W~~~f~~~~~l 118 (144)
T cd03568 57 ALTLLDACAENCGKRFHQEVASRDFT------QELKKLINDR------------VHPTVKEKLREVVKQWADEFKNDPSL 118 (144)
T ss_pred HHHHHHHHHHHCCHHHHHHHhhHHHH------HHHHHHhccc------------CCHHHHHHHHHHHHHHHHHhCCCccc
Confidence 3356677777777655433322 222 2344455443 45667778877777777777766666
Q ss_pred HHHHHHHHHHHhcC
Q 004342 746 KHIVARFEQLYGEG 759 (760)
Q Consensus 746 k~Vv~kLekl~~~g 759 (760)
+.|.+.-.+|...|
T Consensus 119 ~~i~~~y~~L~~~G 132 (144)
T cd03568 119 SLMSDLYKKLKNEG 132 (144)
T ss_pred HHHHHHHHHHHHcC
Confidence 66666666666665
No 77
>PF08625 Utp13: Utp13 specific WD40 associated domain; InterPro: IPR013934 A large ribonuclear protein complex is required for the processing of the small-ribosomal-subunit rRNA - the small-subunit (SSU) processome [, ]. This preribosomal complex contains the U3 snoRNA and at least 40 proteins, which have the following properties: They are nucleolar. They are able to coimmunoprecipitate with the U3 snoRNA and Mpp10 (a protein specific to the SSU processome). They are required for 18S rRNA biogenesis. There appears to be a linkage between polymerase I transcription and the formation of the SSU processome; as some, but not all, of the SSU processome components are required for pre-rRNA transcription initiation. These SSU processome components have been termed t-Utps. They form a pre-complex with pre-18S rRNA in the absence of snoRNA U3 and other SSU processome components. It has been proposed that the t-Utp complex proteins are both rDNA and rRNA binding proteins that are involved in the initiation of pre18S rRNA transcription. Initially binding to rDNA then associating with the 5' end of the nascent pre18S rRNA. The t-Utpcomplex forms the nucleus around which the rest of the SSU processome components, including snoRNA U3, assemble []. From electron microscopy the SSU processome may correspond to the terminal knobs visualized at the 5' ends of nascent 18S rRNA. Utp13 is a nucleolar protein and component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA []. Upt13 is also a component of the Pwp2 complex that forms part of a stable particle subunit independent of the U3 small nucleolar ribonucleoprotein that is essential for the initial assembly steps of the 90S pre-ribosome []. Components of the Pwp2 complex are: Utp1 (Pwp2), Utp6, Utp12 (Dip2), Utp13, Utp18, and Utp21. The relationship between the Pwp2 complex and the t-Utps complex [] that also associates with the 5' end of nascent pre-18S rRNA is unclear. ; GO: 0006364 rRNA processing, 0032040 small-subunit processome
Probab=25.42 E-value=3e+02 Score=27.02 Aligned_cols=86 Identities=13% Similarity=0.161 Sum_probs=40.2
Q ss_pred chHHHHHHHhcCChhhHHHHHHHHHHHHHHHhcCccHHHHHHHHHHhCCHHH------HHHHHHHHhcCCCCcHHHHHhh
Q 004342 631 GNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAE------RELLIEEILGQSEENDNLLVMM 704 (760)
Q Consensus 631 GNyVVQ~LLe~~~~k~R~~Iie~L~~~l~~Ls~~K~GS~VVEk~L~~a~~ke------Rk~II~eLl~~~~~ke~L~~La 704 (760)
|+..+..++..-+.++...+++.++.---.=-+...+..|+-.+|..-++++ -+.+++.|+..++ .++.++-
T Consensus 47 g~~~l~~~i~~L~~~~l~~LL~~ir~WNTNsr~~~vAQ~vL~~il~~~~~~~L~~~~~~~~~le~lipYte--RH~~Rl~ 124 (141)
T PF08625_consen 47 GSEELDEVIKKLDDEQLEKLLRFIRDWNTNSRTSHVAQRVLNAILKSHPPEELLKIPGLKEILEALIPYTE--RHFQRLD 124 (141)
T ss_pred hHHHHHHHHHhcCHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCCHHHHHccccHHHHHHHHhhhHH--HHHHHHH
Confidence 4556666666666666666665555422222222234444444444444443 2345555554442 2333333
Q ss_pred cCCChhHHHHHHHh
Q 004342 705 KDQYANYVVQKILE 718 (760)
Q Consensus 705 ~DqyGnyVIQklL~ 718 (760)
.---.+|+|...|.
T Consensus 125 ~L~q~syllDy~l~ 138 (141)
T PF08625_consen 125 RLLQKSYLLDYTLQ 138 (141)
T ss_pred HHHHHHHHHHHHHH
Confidence 33334555555544
No 78
>PF12460 MMS19_C: RNAPII transcription regulator C-terminal; InterPro: IPR024687 This domain, approximately 60 amino acids in length, is found in the N-terminal region of MMS19 proteins. MMS19 is required for both nucleotide excision repair (NER) and RNA polymerase II (RNAP II) transcription [].
Probab=25.14 E-value=1e+03 Score=26.98 Aligned_cols=274 Identities=12% Similarity=0.103 Sum_probs=0.0
Q ss_pred HHHHHhhhcCCHHH-HHHHHHHHhhchhhhc----cCcccchhhhhhhccCCHHHHHH------------HHHHHhhccc
Q 004342 452 RFIQQKLEHCSAEE-KVSVFKEVLPHASKLM----TDVFGNYVIQKFFEHGSPDQRKE------------LAEKLVGQVL 514 (760)
Q Consensus 452 RvIQ~lLe~~s~Eq-r~~If~EL~p~~~eL~----~D~yGnhVIQKLLe~~s~eqr~~------------Ii~~L~g~v~ 514 (760)
|++..+.+.++..+ .+.+...|...+..++ ...|...+++.+.......+... ++..+...+.
T Consensus 21 ~~L~~l~~ls~~~~i~~~~~~~ll~kl~~~~~~~~~~~~~~~il~tl~~~~~~~~~~~~~~~~~~y~~~~lv~~l~~~~~ 100 (415)
T PF12460_consen 21 RILEALAALSTSPQILETLSIRLLNKLSIVCQSESSSDYCHAILSTLQSLLEKKQEDKQFEDNSWYFHRILVPRLFELAL 100 (415)
T ss_pred HHHHHHHHHHCChhHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHhcccccccchHHHHHHhHHHHHHHHHHH
Q ss_pred cccccccc---------cHHHHHHHHhhCHHHHHHHHHHhhhhHhHHhhcccCChhhhHhhhcCChhHHHHHHHHhhhhH
Q 004342 515 PLSLQMYG---------CRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQV 585 (760)
Q Consensus 515 ~Ls~h~yG---------SrVIQklLe~as~eqr~~Lv~EL~g~i~~L~kDq~GNhVLQklLe~~~~e~~~~Ii~~L~~~i 585 (760)
........ ++++..++...+.+.+.++++++..-+. ........-....-....+...-.++..+...+
T Consensus 101 ~~~~~~~~~~~~~L~~~~~l~~~iv~~l~~~~q~~~~~~~~~lf~--~~~~~~~~~~~~~~~~~~~~~~~~l~~~il~~l 178 (415)
T PF12460_consen 101 QASDQSSDLDDRVLELLSRLINLIVRSLSPEKQQEILDELYSLFL--SPKSFSPFQPSSSTISEQQSRLVILFSAILCSL 178 (415)
T ss_pred hhcccccccchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHc--cccccCCCCccccccccccccHHHHHHHHHHcC
Q ss_pred hhhccCCcchhHHHHHHhh---CCChHHHHHHHHHHHHHHHHHhhcccchHHHHHHHhcC----ChhhHHHHHHHH--HH
Q 004342 586 ATLSTHPYGCRVIQRVLEH---CSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERG----KSYERTQILSKL--AG 656 (760)
Q Consensus 586 ~~Ls~hkyGS~VLQklLe~---~~~~~q~~~Il~eL~~~l~~La~Dq~GNyVVQ~LLe~~----~~k~R~~Iie~L--~~ 656 (760)
..=+.-+.-..+++.+++. +.++..+....+.+..-+-.+..+..-.-++..++... .+..+...++.+ ..
T Consensus 179 ~~~~~~~~~~~ll~~l~~~~~~~~~~~~~~~~~~~la~LvNK~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~Wi~ 258 (415)
T PF12460_consen 179 RKDVSLPDLEELLQSLLNLALSSEDEFSRLAALQLLASLVNKWPDDDDLDEFLDSLLQSISSSEDSELRPQALEILIWIT 258 (415)
T ss_pred CcccCccCHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHcCCCChhhHHHHHHHHHhhhcccCCcchhHHHHHHHHHHH
Q ss_pred HHHHHhcCccHHHHHHHHHHh-CCHHHHHHHHHHHhcCCCCcHHHHHhhcCCChhHHHHHHHhhCCHHHHHHHHHHHHHh
Q 004342 657 KIVQMSQHKYASNVVEKCLEY-GDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVH 735 (760)
Q Consensus 657 ~l~~Ls~~K~GS~VVEk~L~~-a~~keRk~II~eLl~~~~~ke~L~~La~DqyGnyVIQklL~~~dd~~rk~Il~~Lk~~ 735 (760)
+-.-|..++.|..++++++.. .+++....+.+.+ .+.....-.+.-...-..+.--.|+++...+.+.
T Consensus 259 KaLv~R~~~~~~~~~~~L~~lL~~~~~g~~aA~~f-----------~il~~d~~~~l~~~~~a~vklLykQR~F~~~~p~ 327 (415)
T PF12460_consen 259 KALVMRGHPLATELLDKLLELLSSPELGQQAAKAF-----------GILLSDSDDVLNKENHANVKLLYKQRFFTQVLPK 327 (415)
T ss_pred HHHHHcCCchHHHHHHHHHHHhCChhhHHHHHHHH-----------hhHhcCcHHhcCccccchhhhHHhHHHHHHHHHH
Q ss_pred HHH
Q 004342 736 CDA 738 (760)
Q Consensus 736 l~~ 738 (760)
+.+
T Consensus 328 L~~ 330 (415)
T PF12460_consen 328 LLE 330 (415)
T ss_pred HHH
No 79
>PF14500 MMS19_N: Dos2-interacting transcription regulator of RNA-Pol-II
Probab=25.00 E-value=8.9e+02 Score=26.08 Aligned_cols=29 Identities=21% Similarity=0.161 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHhcCccHHHHHHHHHHh
Q 004342 647 RTQILSKLAGKIVQMSQHKYASNVVEKCLEY 677 (760)
Q Consensus 647 R~~Iie~L~~~l~~Ls~~K~GS~VVEk~L~~ 677 (760)
++.+-..|+.-+. +...|+..++.-+++.
T Consensus 188 ~edLk~~L~~cl~--s~~~fa~~~~p~LleK 216 (262)
T PF14500_consen 188 REDLKRALRNCLS--STPLFAPFAFPLLLEK 216 (262)
T ss_pred HHHHHHHHHHHhc--CcHhhHHHHHHHHHHH
Confidence 3444444444332 4455555555555554
No 80
>KOG2073 consensus SAP family cell cycle dependent phosphatase-associated protein [Cell cycle control, cell division, chromosome partitioning]
Probab=24.57 E-value=1.4e+03 Score=28.93 Aligned_cols=78 Identities=18% Similarity=0.115 Sum_probs=42.7
Q ss_pred hhHHHHHHHHHH---HHHHHhcCccHHHHHHHHHHhCC---HHHHH---HHHHHHhcCCCCcHHHHHhhcCCChhHHHHH
Q 004342 645 YERTQILSKLAG---KIVQMSQHKYASNVVEKCLEYGD---TAERE---LLIEEILGQSEENDNLLVMMKDQYANYVVQK 715 (760)
Q Consensus 645 k~R~~Iie~L~~---~l~~Ls~~K~GS~VVEk~L~~a~---~keRk---~II~eLl~~~~~ke~L~~La~DqyGnyVIQk 715 (760)
..+..++..+.+ .|++|....-+..+++.-+.... ...|- .+|.+||.... -.-+.+++...+.+.++..
T Consensus 295 ~~~~~~l~~~~p~L~dF~~lL~~~~~~~~l~tt~g~l~pPLG~~Rlki~eliaelL~~~~-~~l~~el~~~~~~~r~lD~ 373 (838)
T KOG2073|consen 295 IVLNELLGAMEPRLGDFVQLLLEPEKLDLLETTYGELEPPLGFERLKIVELIAELLHCSN-MTLLNELRAEGIAERLLDL 373 (838)
T ss_pred cchHHHHHHHHHHHHHHHHHhcCCccchhhhhhhhccCCCcchHHHHHHHHHHHHhccCc-HHHHhHHhhhhhHHHHHHH
Confidence 345556666654 45666666666666665554422 23443 34555554321 2334456666666777777
Q ss_pred HHhhCCHH
Q 004342 716 ILEKCNEK 723 (760)
Q Consensus 716 lL~~~dd~ 723 (760)
+++.....
T Consensus 374 f~~y~~nN 381 (838)
T KOG2073|consen 374 FFEYPWNN 381 (838)
T ss_pred HHhcchhH
Confidence 77665443
No 81
>PLN03200 cellulose synthase-interactive protein; Provisional
Probab=24.50 E-value=2.2e+03 Score=30.44 Aligned_cols=22 Identities=14% Similarity=0.016 Sum_probs=14.8
Q ss_pred cHHHHHHHHHHhCCHHHHHHHH
Q 004342 666 YASNVVEKCLEYGDTAERELLI 687 (760)
Q Consensus 666 ~GS~VVEk~L~~a~~keRk~II 687 (760)
.|=..+..++++.+++.++.-.
T Consensus 609 ggL~~Lv~LL~sgs~~ikk~Aa 630 (2102)
T PLN03200 609 DALRTLIQLLSSSKEETQEKAA 630 (2102)
T ss_pred ccHHHHHHHHcCCCHHHHHHHH
Confidence 4666777777777776665544
No 82
>COG5240 SEC21 Vesicle coat complex COPI, gamma subunit [Intracellular trafficking and secretion]
Probab=24.30 E-value=1.4e+03 Score=28.03 Aligned_cols=111 Identities=13% Similarity=0.209 Sum_probs=61.3
Q ss_pred HHHHHhhccc---chHHHHHHHhcCChhhHHHHHHHHHHHHHHHhcCccHHHHHHHHHHh--CCHHHHHHHHHHHhcCCC
Q 004342 621 SAFALAQDQY---GNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEY--GDTAERELLIEEILGQSE 695 (760)
Q Consensus 621 ~l~~La~Dq~---GNyVVQ~LLe~~~~k~R~~Iie~L~~~l~~Ls~~K~GS~VVEk~L~~--a~~keRk~II~eLl~~~~ 695 (760)
++..|+.|.. .-|.|..+|+.+.++.-+++++.+-..+..|+. .|---+|+++-.- .-|...+.+++-| +
T Consensus 344 evEsLIsd~Nr~IstyAITtLLKTGt~e~idrLv~~I~sfvhD~SD-~FKiI~ida~rsLsl~Fp~k~~s~l~FL-~--- 418 (898)
T COG5240 344 EVESLISDENRTISTYAITTLLKTGTEETIDRLVNLIPSFVHDMSD-GFKIIAIDALRSLSLLFPSKKLSYLDFL-G--- 418 (898)
T ss_pred hHHHHhhcccccchHHHHHHHHHcCchhhHHHHHHHHHHHHHhhcc-CceEEeHHHHHHHHhhCcHHHHHHHHHH-H---
Confidence 4566666664 669999999999999988888888766666653 2322233222111 1123333333322 1
Q ss_pred CcHHHHHhhcCCChhHHHHHHHhhC--CHHHHHHHHHHHHHhHHH
Q 004342 696 ENDNLLVMMKDQYANYVVQKILEKC--NEKLRETLISRIRVHCDA 738 (760)
Q Consensus 696 ~ke~L~~La~DqyGnyVIQklL~~~--dd~~rk~Il~~Lk~~l~~ 738 (760)
+.|..=--=.|-+|.|..+.+.. +++.|+++++.|...++.
T Consensus 419 --~~L~~eGg~eFK~~~Vdaisd~~~~~p~skEraLe~LC~fIED 461 (898)
T COG5240 419 --SSLLQEGGLEFKKYMVDAISDAMENDPDSKERALEVLCTFIED 461 (898)
T ss_pred --HHHHhcccchHHHHHHHHHHHHHhhCchHHHHHHHHHHHHHhh
Confidence 11111111234466666666653 445677777766655543
No 83
>KOG0166 consensus Karyopherin (importin) alpha [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.13 E-value=7e+02 Score=29.78 Aligned_cols=208 Identities=9% Similarity=0.054 Sum_probs=0.0
Q ss_pred CcCHHHHHhhhcCCHHHHHHHHHHHhhchhhhccCcccchhhhhhhccC-----CHHHHHHHHHH-Hhhcccccccc---
Q 004342 449 HGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHG-----SPDQRKELAEK-LVGQVLPLSLQ--- 519 (760)
Q Consensus 449 ~gSRvIQ~lLe~~s~Eqr~~If~EL~p~~~eL~~D~yGnhVIQKLLe~~-----s~eqr~~Ii~~-L~g~v~~Ls~h--- 519 (760)
++|..|--+-+..++.....|-..+.+.+++|..+.-++-++=.|-..+ +.+|...+++. +-..+..|...
T Consensus 256 Da~WAlsyLsdg~ne~iq~vi~~gvv~~LV~lL~~~~~~v~~PaLRaiGNIvtG~d~QTq~vi~~~~L~~l~~ll~~s~~ 335 (514)
T KOG0166|consen 256 DACWALSYLTDGSNEKIQMVIDAGVVPRLVDLLGHSSPKVVTPALRAIGNIVTGSDEQTQVVINSGALPVLSNLLSSSPK 335 (514)
T ss_pred HHHHHHHHHhcCChHHHHHHHHccchHHHHHHHcCCCcccccHHHhhccceeeccHHHHHHHHhcChHHHHHHHhccCcc
Q ss_pred ----ccccHHHHHHHHhhCHHHHHHHHH-HhhhhHhHHhhccc------CChhhhHhhhcCChhHHHHHHHH-hhhhHhh
Q 004342 520 ----MYGCRVIQKALEVIELHQKSQLVL-ELDGHVMRCVRDQN------GNHVIQKCIECVPAEKIEFIISA-FRGQVAT 587 (760)
Q Consensus 520 ----~yGSrVIQklLe~as~eqr~~Lv~-EL~g~i~~L~kDq~------GNhVLQklLe~~~~e~~~~Ii~~-L~~~i~~ 587 (760)
+.+|++|--+-. .+.+|...+++ .|.+.+..++..-. +.+.|-.+...+.+++...+++. +...+-.
T Consensus 336 ~~ikkEAcW~iSNItA-G~~~qiqaVida~l~p~Li~~l~~~ef~~rKEAawaIsN~ts~g~~~qi~yLv~~giI~plcd 414 (514)
T KOG0166|consen 336 ESIKKEACWTISNITA-GNQEQIQAVIDANLIPVLINLLQTAEFDIRKEAAWAISNLTSSGTPEQIKYLVEQGIIKPLCD 414 (514)
T ss_pred hhHHHHHHHHHHHhhc-CCHHHHHHHHHcccHHHHHHHHhccchHHHHHHHHHHHhhcccCCHHHHHHHHHcCCchhhhh
Q ss_pred hccCCcchhHHHHHHhhCCChHHHHHHHHHHH-HHHHHHhhcccchHHHHHHHhcCChhhHHHHHHHHHHHH
Q 004342 588 LSTHPYGCRVIQRVLEHCSDEQQGQCIVDEIL-ESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKI 658 (760)
Q Consensus 588 Ls~hkyGS~VLQklLe~~~~~~q~~~Il~eL~-~~l~~La~Dq~GNyVVQ~LLe~~~~k~R~~Iie~L~~~l 658 (760)
+. .---.++++.+|+....-.+......+.. ..+..++....|-.-|..+=.+.+.+..+...+.+-..+
T Consensus 415 lL-~~~D~~ii~v~Ld~l~nil~~~e~~~~~~~n~~~~~IEe~ggldkiE~LQ~hen~~Iy~~A~~II~~yf 485 (514)
T KOG0166|consen 415 LL-TCPDVKIILVALDGLENILKVGEAEKNRGTNPLAIMIEEAGGLDKIENLQSHENEEIYKKAYKIIDTYF 485 (514)
T ss_pred cc-cCCChHHHHHHHHHHHHHHHHHHHhccccccHHHHHHHHccChhHHHHhhccccHHHHHHHHHHHHHhc
No 84
>KOG2759 consensus Vacuolar H+-ATPase V1 sector, subunit H [Energy production and conversion]
Probab=23.82 E-value=1.2e+03 Score=27.20 Aligned_cols=28 Identities=21% Similarity=0.274 Sum_probs=14.9
Q ss_pred HHHHHHHHHHh-hcccchHHHHHHHhcCC
Q 004342 616 DEILESAFALA-QDQYGNYVTQHVLERGK 643 (760)
Q Consensus 616 ~eL~~~l~~La-~Dq~GNyVVQ~LLe~~~ 643 (760)
+++.+....|. .|.|-+-+-...|+..+
T Consensus 317 e~L~~svq~LsSFDeY~sEl~sG~L~WSP 345 (442)
T KOG2759|consen 317 EKLKNSVQDLSSFDEYKSELRSGRLEWSP 345 (442)
T ss_pred HHHHHHHHhhccHHHHHHHHHhCCcCCCc
Confidence 34444444443 45666666666666444
No 85
>KOG3759 consensus Uncharacterized RUN domain protein [Signal transduction mechanisms]
Probab=23.12 E-value=3.3e+02 Score=31.86 Aligned_cols=82 Identities=22% Similarity=0.329 Sum_probs=36.1
Q ss_pred HHHHHHHhhhhHhhhccCCc--chh-HHH-HHHhhCCChHHHHHHHHHHHHHHH------HHhhcccchHHHHHHHhcCC
Q 004342 574 IEFIISAFRGQVATLSTHPY--GCR-VIQ-RVLEHCSDEQQGQCIVDEILESAF------ALAQDQYGNYVTQHVLERGK 643 (760)
Q Consensus 574 ~~~Ii~~L~~~i~~Ls~hky--GS~-VLQ-klLe~~~~~~q~~~Il~eL~~~l~------~La~Dq~GNyVVQ~LLe~~~ 643 (760)
-+.++..++.++.+|-+-.| |.- +-| -+|+ ..+.|++++...+. .|.+.+.-..|=..+-+..+
T Consensus 147 qkeLi~QLk~Ql~dLE~~AYe~Geg~LPq~viLe------kQk~ilDeLr~Kl~lnl~i~~lsteelr~qVD~A~~q~Vn 220 (621)
T KOG3759|consen 147 QKELIKQLKEQLEDLERTAYENGEGELPQTVILE------KQKAILDELREKLELNLDIDKLSTEELRRQVDDALKQLVN 220 (621)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCcCchHHHHH------HHHHHHHHHHHHhhccCCcccccHHHHHHHHHHHHHHHhC
Confidence 34566666666666554333 111 111 1121 23456666666432 22222222222222223323
Q ss_pred -hhhHHHHHHHHHHHHHHH
Q 004342 644 -SYERTQILSKLAGKIVQM 661 (760)
Q Consensus 644 -~k~R~~Iie~L~~~l~~L 661 (760)
-+.++.+++.|+-+|-.|
T Consensus 221 P~k~KeQLV~QLkTQItDL 239 (621)
T KOG3759|consen 221 PFKEKEQLVDQLKTQITDL 239 (621)
T ss_pred hHHHHHHHHHHHHHHHHHH
Confidence 356666777766555443
No 86
>PF03224 V-ATPase_H_N: V-ATPase subunit H; InterPro: IPR004908 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents subunit H (also known as Vma13p) found in the V1 complex of V-ATPases. This subunit has a regulatory function, being responsible for activating ATPase activity and coupling ATPase activity to proton flow []. The yeast enzyme contains five motifs similar to the HEAT or Armadillo repeats seen in the importins, and can be divided into two distinct domains: a large N-terminal domain consisting of stacked alpha helices, and a smaller C-terminal alpha-helical domain with a similar superhelical topology to an armadillo repeat []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=23.12 E-value=6e+02 Score=27.64 Aligned_cols=25 Identities=16% Similarity=0.336 Sum_probs=13.3
Q ss_pred CCcccccccCCCcccCchhhhHHHHHhhc
Q 004342 398 SGWQGQRTFEGQRTFEDSKKHSFLEELKS 426 (760)
Q Consensus 398 ~~W~~~r~~~~~~~~~~~~rs~LLeeL~s 426 (760)
.+|++..+.. +-+++-..++..+.+
T Consensus 15 i~W~~~~ra~----~is~~~~~~ik~~~~ 39 (312)
T PF03224_consen 15 IPWDGYVRAG----LISEEDLSLIKKLDK 39 (312)
T ss_dssp --HHHHHHTT----SS-HHHHHHHHHHHH
T ss_pred CCHHHHHHhC----CCCHHHHHHHHHHHC
Confidence 3688887666 444444556665543
No 87
>PF05327 RRN3: RNA polymerase I specific transcription initiation factor RRN3; InterPro: IPR007991 This family consists of several eukaryotic proteins which are homologous to the Saccharomyces cerevisiae RRN3 protein. RRN3 is one of the RRN genes specifically required for the transcription of rDNA by RNA polymerase I (Pol I) in the S. cerevisiae [] RNA polymerase I complex within the nucleolus. In mammalian cells, the phosphorylation state of Rrn3 regulates rDNA transcription by determining the steady-state concentration of the Rrn3 [].; PDB: 3TJ1_B.
Probab=23.09 E-value=5.6e+02 Score=30.68 Aligned_cols=19 Identities=21% Similarity=0.008 Sum_probs=8.2
Q ss_pred HHHHHHHHHhhcccccccc
Q 004342 501 QRKELAEKLVGQVLPLSLQ 519 (760)
Q Consensus 501 qr~~Ii~~L~g~v~~Ls~h 519 (760)
+...++..+...+..|-..
T Consensus 52 ~l~~~L~~L~~~Vs~Ld~~ 70 (563)
T PF05327_consen 52 QLIRWLKALSSCVSLLDSS 70 (563)
T ss_dssp HHHHHHHHHHHGGGGG-SC
T ss_pred HHHHHHHHHHHHHHHhhhH
Confidence 4444444444444444333
No 88
>KOG2027 consensus Spindle pole body protein [Cytoskeleton]
Probab=23.09 E-value=7.8e+02 Score=28.31 Aligned_cols=58 Identities=19% Similarity=0.230 Sum_probs=28.6
Q ss_pred HHHHHHHHHhhcccchHHHHHHHhcCChhhHHHHHHHH-----------HHHHHHHhcCccHHHHHHHHHHh
Q 004342 617 EILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKL-----------AGKIVQMSQHKYASNVVEKCLEY 677 (760)
Q Consensus 617 eL~~~l~~La~Dq~GNyVVQ~LLe~~~~k~R~~Iie~L-----------~~~l~~Ls~~K~GS~VVEk~L~~ 677 (760)
+|+..+++|+...+| +|++. ..|+...++.|...| ...|..+...|||-..+..|...
T Consensus 54 e~le~fCelll~R~~--~i~~~-~~cp~~l~EAVsSlifAA~R~~EvpEL~~i~~~f~~kYGk~f~~~a~~l 122 (388)
T KOG2027|consen 54 EILELFCELLLARLS--LIEKQ-KECPDDLKEAVSSLIFAAPRLSEVPELREIRDLFVKKYGKEFVKAAIEL 122 (388)
T ss_pred HHHHHHHHHHHHHhh--HHhhc-ccCCHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHhHHHHHHHHhc
Confidence 444444444443332 23333 344555555544333 22455556667776666666654
No 89
>PF02854 MIF4G: MIF4G domain; InterPro: IPR003890 This entry represents an MIF4G-like domain. MIF4G domains share a common structure but can differ in sequence. This entry is designated "type 3", and is found in nuclear cap-binding proteins, eIF4G, and UPF2. The MIF4G domain is a structural motif with an ARM (Armadillo) repeat-type fold, consisting of a 2-layer alpha/alpha right-handed superhelix. Proteins usually contain two or more structurally similar MIF4G domains connected by unstructured linkers. MIF4G domains are found in several proteins involved in RNA metabolism, including eIF4G (eukaryotic initiation factor 4-gamma), eIF-2b (translation initiation factor), UPF2 (regulator of nonsense transcripts 2), and nuclear cap-binding proteins (CBP80, CBC1, NCBP1), although the sequence identity between them may be low []. The nuclear cap-binding complex (CBC) is a heterodimer. Human CBC consists of a large CBP80 subunit and a small CBP20 subunit, the latter being critical for cap binding. CBP80 contains three MIF4G domains connected with long linkers, while CBP20 has an RNP (ribonucleoprotein)-type domain that associates with domains 2 and 3 of CBP80 []. The complex binds to 5'-cap of eukaryotic RNA polymerase II transcripts, such as mRNA and U snRNA. The binding is important for several mRNA nuclear maturation steps and for nonsense-mediated decay. It is also essential for nuclear export of U snRNAs in metazoans []. Eukaryotic translation initiation factor 4 gamma (eIF4G) plays a critical role in protein expression, and is at the centre of a complex regulatory network. Together with the cap-binding protein eIF4E, it recruits the small ribosomal subunit to the 5'-end of mRNA and promotes the assembly of a functional translation initiation complex, which scans along the mRNA to the translation start codon. The activity of eIF4G in translation initiation could be regulated through intra- and inter-protein interactions involving the ARM repeats []. In eIF4G, the MIF4G domain binds eIF4A, eIF3, RNA and DNA. Nonsense-mediated mRNA decay (NMD) in eukaryotes involves UPF1, UPF2 and UPF3 to accelerate the decay rate of two unique classes of transcripts: (1) nonsense mRNAs that arise through errors in gene expression, and (2) naturally occurring transcripts that lack coding errors but have built-in features that target them for accelerated decay (error-free mRNAs). NMD can trigger decay during any round of translation and can target CBC-bound or eIF-4E-bound transcripts []. UPF2 contains MIF4G domains, while UPF3 contains an RNP domain []. ; GO: 0005515 protein binding, 0016070 RNA metabolic process; PDB: 3FEY_A 3FEX_A 1H6K_C 1H2V_C 1H2U_A 1H2T_C 1N54_A 1N52_A 1HU3_A 3RK6_A ....
Probab=22.98 E-value=7.1e+02 Score=24.22 Aligned_cols=32 Identities=13% Similarity=0.082 Sum_probs=16.1
Q ss_pred HHHHHHHHHhHHHHhhC----CChHHHHHHHHHHHh
Q 004342 726 ETLISRIRVHCDALKKY----TYGKHIVARFEQLYG 757 (760)
Q Consensus 726 k~Il~~Lk~~l~~L~~~----~yGk~Vv~kLekl~~ 757 (760)
...++++...+...... ....++-..++.+++
T Consensus 169 ~~~l~~~~~~~~~~~~~~~~~~~~~r~~~~l~~l~~ 204 (209)
T PF02854_consen 169 PKALDEIFERLQKYANSKKDPNLSSRIRFMLEDLIE 204 (209)
T ss_dssp HHHHHHHHHHHHHHHHHCHSSSSSHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHhhcccCCCHHHHHHHHHHHH
Confidence 34444444444444433 456666666665553
No 90
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=22.56 E-value=1.3e+03 Score=27.13 Aligned_cols=117 Identities=12% Similarity=0.091 Sum_probs=52.4
Q ss_pred HhcCChhhHHHHHHHHHHHHHHHhcCccHHHHHHHHHHhCCHHHHHHHHHHHhcCCCCcHHHHHhhcCCChhHHHHHHHh
Q 004342 639 LERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILE 718 (760)
Q Consensus 639 Le~~~~k~R~~Iie~L~~~l~~Ls~~K~GS~VVEk~L~~a~~keRk~II~eLl~~~~~ke~L~~La~DqyGnyVIQklL~ 718 (760)
|....+..-+.|+.. ...+.+....+--+.++..++...-++.|...++-|.+-....-.+..| ...-| ++.++++
T Consensus 365 l~~~~~~~~~~i~~~-~~~w~~~~~~~~~~~~l~~~~~qPF~elr~a~~~~l~~l~~~~Wg~~~i-~~~~g--fie~lld 440 (503)
T PF10508_consen 365 LTSGTDRQDNDILSI-TESWYESLSGSPLSNLLMSLLKQPFPELRCAAYRLLQALAAQPWGQREI-CSSPG--FIEYLLD 440 (503)
T ss_pred HhcCCCCchHHHHHH-HHHHHHHhcCCchHHHHHHHhcCCchHHHHHHHHHHHHHhcCHHHHHHH-HhCcc--HHhhhcC
Confidence 333444444455533 3333333333333336666666554666655444432211101122222 22222 5566666
Q ss_pred hCCHH------HHHHHHHHHHHhHHHHhhCCChHHHHHHHHHHHhcC
Q 004342 719 KCNEK------LRETLISRIRVHCDALKKYTYGKHIVARFEQLYGEG 759 (760)
Q Consensus 719 ~~dd~------~rk~Il~~Lk~~l~~L~~~~yGk~Vv~kLekl~~~g 759 (760)
...+. -|-.|++.|...........-....+.++.+.+.+|
T Consensus 441 r~~E~~K~~ke~K~~ii~~l~~~~~~~~~~~~~~~~~~kL~~yv~eG 487 (503)
T PF10508_consen 441 RSTETTKEGKEAKYDIIKALAKSSTNASSVFDDPEYLGKLQEYVREG 487 (503)
T ss_pred CCCCCCHHHHHHHHHHHHHHHhcccchhhcCCCHHHHHHHHHHHHcC
Confidence 54332 344555555543332222222344555888888777
No 91
>KOG2956 consensus CLIP-associating protein [General function prediction only]
Probab=22.44 E-value=1.3e+03 Score=27.26 Aligned_cols=12 Identities=17% Similarity=0.360 Sum_probs=8.8
Q ss_pred HHHHHhHHHHhh
Q 004342 730 SRIRVHCDALKK 741 (760)
Q Consensus 730 ~~Lk~~l~~L~~ 741 (760)
+++++|+..|-.
T Consensus 482 ~~mePhL~~Lt~ 493 (516)
T KOG2956|consen 482 EEMEPHLEQLTS 493 (516)
T ss_pred HhhhhHhhhccH
Confidence 677788877754
No 92
>KOG1060 consensus Vesicle coat complex AP-3, beta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.26 E-value=1.3e+03 Score=29.30 Aligned_cols=89 Identities=13% Similarity=0.208 Sum_probs=40.5
Q ss_pred CChhhHHHHHHHHHHHHHHHhcCccHHHHHHHHHHhCCHHHHHHHHHHHhcCCCCcHHHHHhhcCCChh------HHHHH
Q 004342 642 GKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYAN------YVVQK 715 (760)
Q Consensus 642 ~~~k~R~~Iie~L~~~l~~Ls~~K~GS~VVEk~L~~a~~keRk~II~eLl~~~~~ke~L~~La~DqyGn------yVIQk 715 (760)
.++..-..|++.|...+.. ....+++-.|+.+=.++..- ..+-..++ ..|+.|+.+.... -||++
T Consensus 385 a~esni~~ILrE~q~YI~s-~d~~faa~aV~AiGrCA~~~--~sv~~tCL------~gLv~Llsshde~Vv~eaV~vIk~ 455 (968)
T KOG1060|consen 385 ANESNISEILRELQTYIKS-SDRSFAAAAVKAIGRCASRI--GSVTDTCL------NGLVQLLSSHDELVVAEAVVVIKR 455 (968)
T ss_pred hhhccHHHHHHHHHHHHhc-CchhHHHHHHHHHHHHHHhh--CchhhHHH------HHHHHHHhcccchhHHHHHHHHHH
Confidence 3444555666666554432 33346666666665553311 11111111 1233333333322 23333
Q ss_pred HHhhCCHHHHHHHHHHHHHhHHHHh
Q 004342 716 ILEKCNEKLRETLISRIRVHCDALK 740 (760)
Q Consensus 716 lL~~~dd~~rk~Il~~Lk~~l~~L~ 740 (760)
++. .+.....+|+..|...+..+.
T Consensus 456 Llq-~~p~~h~~ii~~La~lldti~ 479 (968)
T KOG1060|consen 456 LLQ-KDPAEHLEILFQLARLLDTIL 479 (968)
T ss_pred HHh-hChHHHHHHHHHHHHHhhhhh
Confidence 333 366666666666666665554
No 93
>PF03378 CAS_CSE1: CAS/CSE protein, C-terminus; InterPro: IPR005043 Mammalian cellular apoptosis susceptibility (CAS) proteins and the yeast chromosome-segregation protein, CSE1 are homologous []. CAS is involved in both cellular apoptosis and proliferation [, ]. Apoptosis is inhibited in CAS-depleted cells, while the expression of CAS correlates to the degree of cellular proliferation. Like CSE1, it is essential for the mitotic checkpoint in the cell cycle (CAS depletion blocks the cell in the G2 phase), and has been shown to be associated with the microtubule network and the mitotic spindle [], as is the protein MEK, which is thought to regulate the intracellular localization (predominantly nuclear vs. predominantly cytosolic) of CAS. In the nucleus, CAS acts as a nuclear transport factor in the importin pathway []. The importin pathway mediates the nuclear transport of several proteins that are necessary for mitosis and further progression. CAS is therefore thought to affect the cell cycle through its effect on the nuclear transport of these proteins []. Since apoptosis also requires the nuclear import of several proteins (such as P53 and transcription factors), it has been suggested that CAS also enables apoptosis by facilitating the nuclear import of at least a subset of these essential proteins []. This entry represents the C-terminal portion of these proteins. Structural studies of the yeast CSE1 protein indicate that this domain binds to both the transport-orchestrating protein RanGTP and the cargo molecule that is being exported [].; GO: 0005515 protein binding; PDB: 1Z3H_B 1WA5_C.
Probab=21.57 E-value=6.1e+02 Score=29.49 Aligned_cols=308 Identities=13% Similarity=0.125 Sum_probs=0.0
Q ss_pred HHHHHhcCCCcCHHHHHhhhcCCHHHHHHHHHHHhhchhhhccCcccchhhhhhhccCCHHH---HHHHHHHHhhccccc
Q 004342 440 RIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQ---RKELAEKLVGQVLPL 516 (760)
Q Consensus 440 kvveLa~dq~gSRvIQ~lLe~~s~Eqr~~If~EL~p~~~eL~~D~yGnhVIQKLLe~~s~eq---r~~Ii~~L~g~v~~L 516 (760)
|+.-+-.+...-++=+.-|+-....-...+|..+...-. ..+-|==.+|.+++-...+.. ...+++.+..-+..+
T Consensus 2 riL~~~~~~~~~~~~~~di~p~~~~ll~~Lf~~i~~~~s--~ENeylMk~iMRvl~~~~e~~~p~~~~il~~L~~il~~v 79 (435)
T PF03378_consen 2 RILFMKDPNGQPRFSKADIQPFAQQLLQNLFALIEKPGS--AENEYLMKCIMRVLSVLQEDILPIAVEILQHLTAILKEV 79 (435)
T ss_dssp HHHTHCC-SSSBSS-GGGTTCCHHHHHHHHHHHHHTT-S--TC-HHHHHHHHHHHHHSTTTTGGGHHHHHHHHHHHHHHH
T ss_pred ceEEEECCCCCeeECHHHhhhhHHHHHHHHHHHHhcCCC--ccchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred cccccccHHHHHHHHhhCHHHH------HHHHHHhhhhHhHHhhcccCCh----------hhhHhhhcCChhHHHHHHHH
Q 004342 517 SLQMYGCRVIQKALEVIELHQK------SQLVLELDGHVMRCVRDQNGNH----------VIQKCIECVPAEKIEFIISA 580 (760)
Q Consensus 517 s~h~yGSrVIQklLe~as~eqr------~~Lv~EL~g~i~~L~kDq~GNh----------VLQklLe~~~~e~~~~Ii~~ 580 (760)
+.++-=-+.-..++|....-.| ...+..|.+.++..+..--.+. ++-.++|..+.......+..
T Consensus 80 ~kNPsnP~FnHylFEsi~~lir~~~~~~~~~v~~~E~~L~P~f~~ILq~dV~EF~PYvfQIla~Lle~~~~~~~p~~y~~ 159 (435)
T PF03378_consen 80 SKNPSNPRFNHYLFESIGALIRFVCEADPEAVSQFEEALFPPFQEILQQDVQEFIPYVFQILAQLLELRPSSPLPDAYKQ 159 (435)
T ss_dssp HTS---HHHHHHHHHHHHHHHHHS-GGGHH---HHHHHHHHHHHHHHHTT-TTTHHHHHHHHHHHHHHSS--S--TTTGG
T ss_pred HhCCCCcchhhhHHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCcHHHHH
Q ss_pred hhhhHhhhccCCcch------hHHHHHHhhCCChHHHHHHHHHHHHHHHHHh----hcccchHHHHHHHhcCC----hhh
Q 004342 581 FRGQVATLSTHPYGC------RVIQRVLEHCSDEQQGQCIVDEILESAFALA----QDQYGNYVTQHVLERGK----SYE 646 (760)
Q Consensus 581 L~~~i~~Ls~hkyGS------~VLQklLe~~~~~~q~~~Il~eL~~~l~~La----~Dq~GNyVVQ~LLe~~~----~k~ 646 (760)
+...+..-..-..-. |+++.+++.....-....-++.+++-+..|+ .|.+|-++++.++++.+ ...
T Consensus 160 L~~~Ll~p~lWe~~gniPalvrLL~a~i~k~~~~i~~~~~l~~iLgvFQkLi~sk~~D~~gF~LL~~iv~~~p~~~l~~y 239 (435)
T PF03378_consen 160 LFPPLLSPALWERRGNIPALVRLLQAYIKKDPSFIVANNQLEPILGVFQKLIASKANDHYGFDLLESIVENLPPEALEPY 239 (435)
T ss_dssp GHHHHTSGGGGGSTTTHHHHHHHHHHHHHHHGGG----S-CHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHS-HHHHGGG
T ss_pred HHHHHcCcchhccCCCcCcHHHHHHHHHHhCchhhcchhhHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHCCHHHHHHH
Q ss_pred HHHHHHHHHHHHHHHhcCccHHHHHHHHHHhCCHHHHHHHHHHHhcCCCCcHHHHH-hhcCCChhHHHHHHHhhCCHHHH
Q 004342 647 RTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLV-MMKDQYANYVVQKILEKCNEKLR 725 (760)
Q Consensus 647 R~~Iie~L~~~l~~Ls~~K~GS~VVEk~L~~a~~keRk~II~eLl~~~~~ke~L~~-La~DqyGnyVIQklL~~~dd~~r 725 (760)
...|+..+...+..--+.||-..+|.-+.-.+-..-...++..+ +.+.. |-..-+.+.++-.+=.......|
T Consensus 240 l~~I~~lll~RLq~skT~kf~~~fv~F~~~~~~~~g~~~li~~i-------d~IQ~glF~~il~~v~lp~~~k~~~~~er 312 (435)
T PF03378_consen 240 LKQIFTLLLTRLQSSKTEKFVKRFVVFLSLFAIKYGPDFLIQTI-------DSIQPGLFGMILEKVWLPDLQKVSGPIER 312 (435)
T ss_dssp HHHHHHHHHHHHHHC--HHHHHHHHHHHHHHHHHH-HHHHHHHH-------HTTSTTHHHHHHHHTHHHHGGG--SHHHH
T ss_pred HHHHHHHHHHHHhhCCcHHHHHHHHHHHHHHHHHcCHHHHHHHH-------HHhcCCcHHHHHHHHhcCchhhcCCcchh
Q ss_pred HHH---HHHHHHhHHHHhhCCChHHHHHHHHHHHh
Q 004342 726 ETL---ISRIRVHCDALKKYTYGKHIVARFEQLYG 757 (760)
Q Consensus 726 k~I---l~~Lk~~l~~L~~~~yGk~Vv~kLekl~~ 757 (760)
|.+ +.++.-....+... |.......++.++.
T Consensus 313 Ki~~vGltkLL~es~~~~~~-~~~~w~~ll~~Ll~ 346 (435)
T PF03378_consen 313 KICAVGLTKLLCESPAFLSE-YSQLWPPLLEALLK 346 (435)
T ss_dssp HHHHHHHHHHHHSSTTHHHH--CHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHhccHhhhhH-HHHHHHHHHHHHHH
No 94
>TIGR00400 mgtE Mg2+ transporter (mgtE). This family of prokaryotic proteins models a class of Mg++ transporter first described in Bacillus firmus. May form a homodimer.
Probab=20.26 E-value=2.8e+02 Score=32.06 Aligned_cols=118 Identities=13% Similarity=0.152 Sum_probs=63.0
Q ss_pred HhHHHHHHHHhcCCCcCHHHHHhhhcCCHHHHHHHHHHHhhchhhhccCcccchhhhhhhccCCHHHHHHHHHHHhhccc
Q 004342 435 SDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVL 514 (760)
Q Consensus 435 ~eI~GkvveLa~dq~gSRvIQ~lLe~~s~Eqr~~If~EL~p~~~eL~~D~yGnhVIQKLLe~~s~eqr~~Ii~~L~g~v~ 514 (760)
.++..++.++..+++ ...++..|+...+.+...+++++.++. -.+++...+++...+++..+.....
T Consensus 5 ~~~~~~~~~~~~~~~-~~~l~~~l~~~~~~dia~~l~~l~~~~------------~~~~~~~l~~~~~a~vl~~l~~~~~ 71 (449)
T TIGR00400 5 DELILRIRILLKEKS-YSKIKEKFLKXQPXDIAEALKRLPGTE------------LILLYRFLPKKIAVDTFSNLDQSTQ 71 (449)
T ss_pred HHHHHHHHHHHHcCC-HHHHHHHHhcCCHHHHHHHHHhCCHHH------------HHHHHHhCChhhHHHHHHcCCHHHH
Confidence 344444444433332 345555666666666666666654432 2245555667777777777665544
Q ss_pred cccccccccHHHHHHHHhhCHHHHHHHHHHhhhhHhHHhhcccCChhhhHhhhcCChhHHHHH
Q 004342 515 PLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFI 577 (760)
Q Consensus 515 ~Ls~h~yGSrVIQklLe~as~eqr~~Lv~EL~g~i~~L~kDq~GNhVLQklLe~~~~e~~~~I 577 (760)
.-....-+..-+..+++..+.+++..+++++.. ...++++...++++++.+
T Consensus 72 ~~ll~~l~~~~~~~~~~~l~~dd~~~ll~~l~~------------~~~~~lL~~l~~~er~~i 122 (449)
T TIGR00400 72 NKLLNSFTNKEISEMINEMNLDDVIDLLEEVPA------------NVVQQLLASSTEEERKAI 122 (449)
T ss_pred HHHHHhCCHHHHHHHHHcCChhHHHHHHHhCCH------------HHHHHHHHcCCHHHHHHH
Confidence 434444444444455555666666666655543 234445555555555444
No 95
>KOG1992 consensus Nuclear export receptor CSE1/CAS (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=20.01 E-value=1.9e+03 Score=27.99 Aligned_cols=53 Identities=25% Similarity=0.234 Sum_probs=36.8
Q ss_pred chhHHHHHHhhCCChHHHHHHHHHHHHHHHHH----hhcccchHHHHHHHhcCChhh
Q 004342 594 GCRVIQRVLEHCSDEQQGQCIVDEILESAFAL----AQDQYGNYVTQHVLERGKSYE 646 (760)
Q Consensus 594 GS~VLQklLe~~~~~~q~~~Il~eL~~~l~~L----a~Dq~GNyVVQ~LLe~~~~k~ 646 (760)
--++++.+++..........-+.-+++.+..| +.|.+|-|++.+++++-+...
T Consensus 700 lvrLl~aflk~g~~~~~~~~~l~~iLGifqkLiaSka~Dh~GF~LLn~i~~~~~~~~ 756 (960)
T KOG1992|consen 700 LVRLLQAFLKTGSQIVEAADKLSGILGIFQKLIASKANDHHGFYLLNTIIESIPPNE 756 (960)
T ss_pred HHHHHHHHHhcCchhhcccccchhHHHHHHHHhcCcccchhHHHHHHHHHhcCCHhh
Confidence 45788999987654433223345566666655 468999999999999877653
Done!