Query 004837
Match_columns 728
No_of_seqs 344 out of 2004
Neff 6.1
Searched_HMMs 46136
Date Thu Mar 28 13:45:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004837.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004837hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4629 Predicted mechanosensi 100.0 2.2E-99 5E-104 865.1 31.9 563 135-724 142-710 (714)
2 PRK10334 mechanosensitive chan 100.0 4.3E-37 9.2E-42 326.3 31.9 219 491-720 63-283 (286)
3 PRK11281 hypothetical protein; 100.0 2.1E-34 4.5E-39 347.6 37.8 218 492-719 873-1093(1113)
4 PRK10929 putative mechanosensi 100.0 6.6E-34 1.4E-38 342.1 34.2 220 490-719 868-1090(1109)
5 PF00924 MS_channel: Mechanose 100.0 2.2E-32 4.7E-37 276.1 22.9 202 499-705 2-206 (206)
6 COG3264 Small-conductance mech 100.0 4.2E-32 9.2E-37 311.9 27.2 260 428-716 550-812 (835)
7 PRK11465 putative mechanosensi 100.0 6.3E-30 1.4E-34 296.6 33.2 217 490-719 506-727 (741)
8 COG0668 MscS Small-conductance 100.0 1.8E-28 3.9E-33 261.9 31.0 212 496-718 86-301 (316)
9 cd00052 EH Eps15 homology doma 90.3 0.73 1.6E-05 37.4 5.7 56 420-476 2-62 (67)
10 KOG0044 Ca2+ sensor (EF-Hand s 90.1 0.62 1.3E-05 47.5 6.1 87 413-501 60-153 (193)
11 PF13499 EF-hand_7: EF-hand do 89.8 0.58 1.3E-05 38.3 4.7 53 420-473 3-66 (66)
12 cd05026 S-100Z S-100Z: S-100Z 89.7 1 2.2E-05 40.2 6.5 62 413-475 6-81 (93)
13 cd05022 S-100A13 S-100A13: S-1 89.6 1.2 2.6E-05 39.7 6.8 63 413-476 4-76 (89)
14 COG5126 FRQ1 Ca2+-binding prot 89.6 0.56 1.2E-05 46.4 5.1 57 416-474 55-119 (160)
15 smart00027 EH Eps15 homology d 88.6 1.4 3.1E-05 39.3 6.7 64 416-480 9-77 (96)
16 PF00036 EF-hand_1: EF hand; 87.8 0.66 1.4E-05 32.6 3.1 27 447-474 1-27 (29)
17 cd05023 S-100A11 S-100A11: S-1 87.6 1.4 3.1E-05 39.1 6.0 62 414-476 6-81 (89)
18 cd00213 S-100 S-100: S-100 dom 86.3 2 4.3E-05 37.4 6.1 62 414-476 5-80 (88)
19 cd05025 S-100A1 S-100A1: S-100 85.8 2.4 5.2E-05 37.5 6.4 61 414-475 6-80 (92)
20 cd05029 S-100A6 S-100A6: S-100 85.6 1.6 3.4E-05 38.8 5.1 62 414-476 7-80 (88)
21 cd05030 calgranulins Calgranul 83.5 2.9 6.3E-05 36.9 5.9 63 413-476 4-80 (88)
22 KOG0027 Calmodulin and related 80.4 3.5 7.6E-05 39.8 5.8 60 419-479 46-117 (151)
23 cd05031 S-100A10_like S-100A10 80.4 4.8 0.0001 35.7 6.2 60 414-474 5-78 (94)
24 PF13833 EF-hand_8: EF-hand do 80.1 4.6 0.0001 31.7 5.3 43 432-475 3-53 (54)
25 PRK12309 transaldolase/EF-hand 79.0 3 6.4E-05 47.1 5.3 63 409-478 326-388 (391)
26 cd05027 S-100B S-100B: S-100B 77.6 6.8 0.00015 34.7 6.2 62 414-476 5-80 (88)
27 PTZ00183 centrin; Provisional 77.0 5.1 0.00011 38.0 5.7 56 417-473 90-152 (158)
28 cd00051 EFh EF-hand, calcium b 76.2 4.6 9.9E-05 30.9 4.3 52 420-472 3-61 (63)
29 PTZ00184 calmodulin; Provision 75.4 6.5 0.00014 36.6 5.9 57 417-474 84-147 (149)
30 PLN02964 phosphatidylserine de 69.4 8.4 0.00018 46.2 6.1 59 416-475 178-243 (644)
31 KOG0028 Ca2+-binding protein ( 69.1 6.6 0.00014 38.9 4.3 54 421-475 73-134 (172)
32 TIGR01299 synapt_SV2 synaptic 68.4 36 0.00079 41.7 11.4 14 104-117 85-98 (742)
33 PTZ00184 calmodulin; Provision 68.1 10 0.00022 35.3 5.4 57 418-475 48-112 (149)
34 KOG0034 Ca2+/calmodulin-depend 67.2 8.8 0.00019 39.0 4.9 62 417-479 66-136 (187)
35 PF13405 EF-hand_6: EF-hand do 67.2 6.3 0.00014 27.6 2.8 26 448-474 2-27 (31)
36 PF14812 PBP1_TM: Transmembran 66.6 0.61 1.3E-05 40.9 -3.0 14 118-131 43-56 (81)
37 cd00252 SPARC_EC SPARC_EC; ext 64.6 15 0.00033 34.4 5.6 60 413-473 44-106 (116)
38 COG5126 FRQ1 Ca2+-binding prot 59.7 13 0.00029 36.8 4.5 55 419-474 94-155 (160)
39 PF13202 EF-hand_5: EF hand; P 59.1 10 0.00022 25.7 2.5 23 449-472 2-24 (25)
40 smart00739 KOW KOW (Kyprides, 58.8 15 0.00032 24.7 3.4 21 558-578 1-26 (28)
41 PTZ00183 centrin; Provisional 58.6 21 0.00047 33.6 5.7 58 418-476 54-119 (158)
42 PRK05886 yajC preprotein trans 57.9 44 0.00096 31.1 7.3 38 558-595 38-76 (109)
43 PF09279 EF-hand_like: Phospho 53.4 29 0.00064 29.8 5.2 53 420-473 3-67 (83)
44 PRK05585 yajC preprotein trans 51.7 34 0.00074 31.6 5.5 38 558-595 52-90 (106)
45 PF12763 EF-hand_4: Cytoskelet 51.4 53 0.0011 30.2 6.7 60 417-478 10-74 (104)
46 KOG0027 Calmodulin and related 51.1 22 0.00048 34.2 4.5 56 417-473 85-147 (151)
47 TIGR00739 yajC preprotein tran 45.4 64 0.0014 28.5 6.0 37 558-594 37-74 (84)
48 COG1862 YajC Preprotein transl 39.6 1.2E+02 0.0025 27.8 6.9 37 559-595 44-81 (97)
49 PF09926 DUF2158: Uncharacteri 39.4 27 0.0006 28.3 2.5 20 559-578 1-22 (53)
50 smart00054 EFh EF-hand, calciu 38.0 31 0.00067 21.7 2.3 26 448-474 2-27 (29)
51 PF10003 DUF2244: Integral mem 37.4 1.9E+02 0.0041 27.9 8.5 58 508-578 22-79 (140)
52 PF13499 EF-hand_7: EF-hand do 37.4 34 0.00074 27.6 2.9 31 448-479 2-32 (66)
53 COG5346 Predicted membrane pro 36.0 1.8E+02 0.0039 27.7 7.6 14 527-540 115-128 (136)
54 KOG0943 Predicted ubiquitin-pr 35.5 41 0.00088 42.7 4.2 6 301-306 1895-1900(3015)
55 cd04466 S1_YloQ_GTPase S1_YloQ 34.2 52 0.0011 26.9 3.6 29 557-585 36-67 (68)
56 PF00467 KOW: KOW motif; Inte 34.1 66 0.0014 22.9 3.6 18 561-578 1-23 (32)
57 PF14801 GCD14_N: tRNA methylt 33.8 22 0.00048 28.9 1.2 18 556-573 3-20 (54)
58 PF04156 IncA: IncA protein; 33.7 1.4E+02 0.0031 29.7 7.4 8 529-536 42-49 (191)
59 PF09953 DUF2187: Uncharacteri 32.2 54 0.0012 27.1 3.1 20 559-578 4-24 (57)
60 KOG3817 Uncharacterized conser 31.6 52 0.0011 36.6 3.9 118 168-285 129-291 (452)
61 COG4873 Uncharacterized protei 30.2 44 0.00096 28.3 2.4 41 537-581 6-47 (81)
62 PF08566 Pam17: Mitochondrial 30.1 1.6E+02 0.0034 29.7 6.7 32 516-547 71-102 (173)
63 PF09026 CENP-B_dimeris: Centr 30.0 18 0.0004 32.8 0.1 10 125-134 40-49 (101)
64 PRK11281 hypothetical protein; 27.8 58 0.0013 41.8 4.0 76 163-241 810-898 (1113)
65 PRK12585 putative monovalent c 26.6 1.7E+02 0.0038 30.0 6.3 12 547-558 71-82 (197)
66 PRK10929 putative mechanosensi 26.5 62 0.0013 41.5 3.9 74 165-241 809-895 (1109)
67 PRK13889 conjugal transfer rel 26.3 86 0.0019 39.8 5.1 43 557-599 599-651 (988)
68 PRK06531 yajC preprotein trans 26.0 1.8E+02 0.0039 27.4 5.9 41 559-599 37-79 (113)
69 PRK12281 rplX 50S ribosomal pr 25.7 82 0.0018 27.4 3.4 22 558-579 6-32 (76)
70 PF02559 CarD_CdnL_TRCF: CarD- 25.6 1.9E+02 0.0041 25.7 5.9 42 559-600 2-52 (98)
71 TIGR02768 TraA_Ti Ti-type conj 25.2 87 0.0019 38.5 4.8 43 557-599 606-658 (744)
72 KOG0031 Myosin regulatory ligh 25.1 2E+02 0.0043 28.7 6.2 57 416-473 100-163 (171)
73 cd05026 S-100Z S-100Z: S-100Z 25.0 93 0.002 27.6 3.8 31 446-476 10-41 (93)
74 PRK08559 nusG transcription an 24.3 2E+02 0.0043 28.1 6.3 43 557-599 93-145 (153)
75 cd05025 S-100A1 S-100A1: S-100 24.1 1.1E+02 0.0024 26.7 4.1 29 446-475 9-39 (92)
76 COG4818 Predicted membrane pro 23.8 1.2E+02 0.0026 27.7 4.1 41 193-242 13-58 (105)
77 PRK11465 putative mechanosensi 23.5 1.5E+02 0.0032 36.5 6.2 52 224-275 432-486 (741)
78 KOG0924 mRNA splicing factor A 23.2 1.1E+02 0.0025 37.0 4.9 21 98-118 158-178 (1042)
79 COG4709 Predicted membrane pro 23.1 4.6E+02 0.01 26.9 8.5 25 416-443 26-50 (195)
80 CHL00141 rpl24 ribosomal prote 23.0 98 0.0021 27.4 3.4 22 558-579 8-34 (83)
81 PF03526 Microcin: Colicin E1 22.6 1E+02 0.0022 25.2 3.0 35 258-292 8-42 (55)
82 PF06107 DUF951: Bacterial pro 22.3 1.6E+02 0.0035 24.3 4.3 41 559-599 2-48 (57)
83 PRK00409 recombination and DNA 21.7 2.5E+02 0.0054 34.9 7.8 44 557-600 635-680 (782)
84 KOG0034 Ca2+/calmodulin-depend 20.7 1.2E+02 0.0025 31.0 3.9 61 412-474 29-94 (187)
85 PRK05609 nusG transcription an 20.3 2.3E+02 0.005 28.0 5.9 43 556-598 124-176 (181)
86 PF00575 S1: S1 RNA binding do 20.1 2.8E+02 0.006 22.8 5.6 46 559-610 2-48 (74)
No 1
>KOG4629 consensus Predicted mechanosensitive ion channel [Cell wall/membrane/envelope biogenesis]
Probab=100.00 E-value=2.2e-99 Score=865.07 Aligned_cols=563 Identities=44% Similarity=0.762 Sum_probs=520.0
Q ss_pred hhhccchhhHHHHHHHHHHHHhhheeeeecccccceechhhHHHHHHHHHHHHhcchhhhhhheeeeeEEeeccceeeee
Q 004837 135 KKRKLKWRLFVELVLFFIIMIGLICSLTIKSIKIERKWGLEIWKWCLMVMVTFCGRLVSAWVMGFAVFLIERNFMLREKV 214 (728)
Q Consensus 135 ~~~~~~~~~~~ew~~~v~i~~~lv~sl~i~~~~~~~~w~l~lwkW~~~~~v~~~Grlvs~w~v~~~v~~ie~nfllrk~v 214 (728)
++.+..++.+++|+.+++++++++|+|+|+..++..+|++..|+||+.++|++||+|++.|.++++||++++|+++|+++
T Consensus 142 ~~~~~~~~~~i~~I~~~~iv~~lv~~l~i~~~~~~~~~~~~~~kw~~~~~v~~~~~lv~~~~~~~vvf~~~~n~~~r~~~ 221 (714)
T KOG4629|consen 142 RRSLLSSITVITWILLVLIVSSLVCSLGIHVHRLVTLWSLILWKWLVTLLVRITAVLVSSWFAALVVFLIESNFLRRKKV 221 (714)
T ss_pred hhcccccHHHHHHHHHHHHHHHHHhhhhhheecccceEEEEeeeehhhhHHHHHHHHHHhhHHHHHHHHhhhhHHHHHHH
Confidence 44678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEeeeechhhHHHHHHH-HHHHHhHHHhhccccchhH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccHHH
Q 004837 215 LYFVYGLRNSIRNCMWLG-LVLLAWTCIFNEKLHKKNK--ILEKVFQALVAVLLGATIWLIKIVLVKVLASSFHVTTYFD 291 (728)
Q Consensus 215 lYfv~glrk~v~~~~W~~-~~l~~w~~l~~~~~~~~~~--~l~~v~kvl~~~~~~~~~~l~k~~lvk~ia~sfH~~~y~d 291 (728)
||||||+++.+|+|+|++ +++++|.++||..+.+... .+.+++++ +|++++++.|++|++++|++|++||+++|++
T Consensus 222 l~~v~~~~~~vq~~~~l~~lv~law~~l~d~~v~~~~r~~~l~~~~~~-i~lli~~~~~lv~ti~~kv~as~f~~s~~~~ 300 (714)
T KOG4629|consen 222 LYFVYGLRKFVQTGIWLGKLVLLAWIFLFDKIVFRKTRAKFLAFVTML-ITLLITEFMWLVKTILMKVIASSFHRSTYFS 300 (714)
T ss_pred HHHHhhhHHHHHHHHHHhHHHHHHHHHhhhhhhhhhhhhhhhhhhhhh-hhhhHHHHHhhchhhhhHHHHHHHhHHHHHh
Confidence 999999999999999999 9999999999988775543 78999999 9999999999999999999999999999999
Q ss_pred HHHHhhHHHHHHHhhcCCCCCCCCCCCcccccCCCCCCCCCCCCCCcccCCCcccccccccccCCCccccchHHHHhhhh
Q 004837 292 RMKESVFHHYILETLSGPPIMEGSMANDEEKQNPNHNLSGSMSLPSNWKEGKWKDARNVYKSKRFGSRKIDMEKLRKLSM 371 (728)
Q Consensus 292 RI~e~~~~~~~L~~Ls~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~l~~g~~~~~~~~~~~~~~~~~~i~~~~~~k~~~ 371 (728)
||||++|+||+|++||++|..+ + .|+.-+ ++...+.... +..+..++++++|++++
T Consensus 301 rI~e~~f~q~~l~~Lsg~p~~e------~--------~gr~s~-------~~~~~s~~~~---r~~s~~i~~~~l~~~~~ 356 (714)
T KOG4629|consen 301 RIQESVFTQEVLETLSGPPREE------D--------VGREST-------FRAIFSPGLS---RSGSAKIGMDKLHKIKK 356 (714)
T ss_pred hcchhhhhHHHHHHhcCCcccc------c--------cccccc-------ceeecccccc---chhhcccccchhhhhhH
Confidence 9999999999999999999721 1 111100 1111111111 12223488899999994
Q ss_pred ccccchhhHHHHHHHhhccCccccccccccCC---CCccccccHHHHHHHHHHHhhcccCCCcceeeHhHHHhhcCHHHH
Q 004837 372 ERTASAWSMKRLVSYIKSSGLSTISKTVDYFG---NAESEITSEWEARNSAQRIFKNVAKPGAKFIEEEDLMRFLKRVEV 448 (728)
Q Consensus 372 ~~~~sa~~~k~l~~~v~~~~l~t~~~~~~~~~---~~~~ei~s~~~A~~lAr~If~~~~~~g~~~I~~eDl~~f~~~eea 448 (728)
.++|||+|+++|+.++..+.++++.+....- ....+|+|+.+|+.+|+.||+++++||..+++++|+.+|+++|+|
T Consensus 357 -~~~sa~~~~~~~~~~~~~~~t~l~~~~~~s~~~~~~~~~i~s~~~a~~aA~~iF~nv~~p~~~~i~ld~~~~f~~~E~a 435 (714)
T KOG4629|consen 357 -KNVSAWNMRRLMTILAAGGLTTLSPGFQLSTSKDSSIIEIRSEKEAKIAARKIFKNVAKPGVILIDLDDLLRFMGDEEA 435 (714)
T ss_pred -hhhcHhhhhHHHHHHhccCcccCCccccccccccchhhhhhhhhhHHHHHHHHHhccCCCCccchhhhhhhhcCCHHHH
Confidence 6699999999999999999999987765443 233489999999999999999999999999999999999999999
Q ss_pred HHHHHHhhhhhcccccchHhHHHHHHHHHHHhhhhhhcccchhhHHHHHHHHHHHHHHHHHHHHHHhhcccchhHHHHHH
Q 004837 449 HTIFPLFEGALETGRITKSSFRNWVVRAYFERKSLAHSLNDTKTAVQQLHKLASAVVIVVIIVVSLLVMELATTKVVFFV 528 (728)
Q Consensus 449 ~~af~lfd~~~~~g~Is~~el~~~vv~~~~eRk~L~~sL~D~~s~v~~L~~il~~iv~iI~iii~L~ilgv~~t~lla~~ 528 (728)
+.++.+|++..+.+ |+++.+++|++++|+||++|+++|+|+++++++|++++.+++.++++++++..+|++++++++.+
T Consensus 436 ~~~~slfe~~~~~~-Itrs~~~~~iv~~~~ERk~L~~tL~d~~taV~kL~~il~~Iv~vv~~~i~lil~~i~~~~~l~~~ 514 (714)
T KOG4629|consen 436 ERAFSLFEGASDEN-ITRSSFKEWIVNIYRERKALARTLNDTKTAVNKLDRILNFIVAVVLLVIWLILLGINTSKLLLVI 514 (714)
T ss_pred HHHHHhhhhhcccC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccceeeeeee
Confidence 99999999985666 99999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhhhhHHHHHHHHHHhhhcCCccCCCEEEECCeEEEEEEEeeEEEEEEEeCCeEEEEeCccccCCcEEecc
Q 004837 529 LTQLVLVGFMFQNTCKMVFESIVFIFVMHPFDIGDRCVIDGVQMVVEEMNILTTVFLRYDMEKIYYPNAVLLTKPISNFY 608 (728)
Q Consensus 529 gs~~LalgFafq~tl~nvf~SgIfLfv~hPFdVGDrI~Idg~~G~VeeI~LlsT~f~t~Dg~~V~IPNS~L~t~~I~N~s 608 (728)
+++.++++|+|+++++++|.|+||+|+.|||||||||.|||++++|+||||++|+|.++||++++||||+|++++|.|++
T Consensus 515 ~sq~v~l~fif~~~~k~~~esiIFlfv~HPyDvGDRv~VDg~~~vVeemnLlsTvF~~~dg~kI~~PNS~L~~k~I~N~r 594 (714)
T KOG4629|consen 515 SSQLVGLAFIFGNIVKELLESIIFLFVMHPYDVGDRVVVDGVNLVVEEMNLLSTVFLRVDGRKIFIPNSVLWTKAISNYR 594 (714)
T ss_pred cccceeeeeehhhHHHHHHHHHhheeecCCCCCCCeEEEeceEEEEEEeccceEEEEEECCeEEEeecHHHHhhhhhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCceEEEEEEEEecCCCHHHHHHHHHHHHHHHHhCCCccCCCcEEEEEEecCCceEEEEEEEEeccCcCCcchHHHHHH
Q 004837 609 RSPEMSDNVNFTIDMSTSMETIIALKKAIQVYVESKPNYWNPKHSVIVKEIAELNKLKMCLSVQHTINHQNYGERSIRIS 688 (728)
Q Consensus 609 RS~~~~~~i~~~V~~~T~~ekI~~Lk~~i~~~v~~~~~~~~p~~~V~v~~i~d~~~l~l~v~v~h~~n~qd~~~~~~rrs 688 (728)
|||.|.+.++|.++..|+++|+++++++|.+|++++|.+|.|.+.+.+.++++.+.+++.++++|+.||||..+++.||.
T Consensus 595 RS~~~~~~v~f~i~~~T~~~Ki~~Lk~rI~~ylks~~~~~~p~~~~~i~~~e~~n~v~i~v~~~h~~n~Qd~~~~~~Rr~ 674 (714)
T KOG4629|consen 595 RSPDMGDEVEFLISSSTPFEKIERLKERIAEYLKSSPDDYYPDLMVVIEEIEDLNSVKICVVVQHKINFQDMKERWSRRT 674 (714)
T ss_pred cCccccccEEEEecCCCCHHHHHHHHHHHHHHHhcCccccccchhhHHHhhhhcCcceEEEEEEeecchhhHHHHHhhHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHCCCcccCCcceEEEecCCCCCCCC
Q 004837 689 ELILELKKIFENLGIKYHLLPQEIHITQLNLDNWTM 724 (728)
Q Consensus 689 ~l~~~I~~~l~e~GI~~~~P~q~V~i~~~~~~~~~~ 724 (728)
++++++.++++|+||+|.++|+++++.+.++.....
T Consensus 675 ~~~~~l~~~~~eLdI~y~l~p~~in~~~~~~~~~d~ 710 (714)
T KOG4629|consen 675 EFVSALTKIMRELDIEYTLYPLDINLKNLPPVSSDR 710 (714)
T ss_pred HHHHHHHHHHHHcCcceeecCcchhhhcCCCcccCC
Confidence 999999999999999999999999999888554433
No 2
>PRK10334 mechanosensitive channel MscS; Provisional
Probab=100.00 E-value=4.3e-37 Score=326.34 Aligned_cols=219 Identities=17% Similarity=0.295 Sum_probs=203.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhhcccchhHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCCccCCCEEEECCe
Q 004837 491 KTAVQQLHKLASAVVIVVIIVVSLLVMELATTKVVFFVLTQLVLVGFMFQNTCKMVFESIVFIFVMHPFDIGDRCVIDGV 570 (728)
Q Consensus 491 ~s~v~~L~~il~~iv~iI~iii~L~ilgv~~t~lla~~gs~~LalgFafq~tl~nvf~SgIfLfv~hPFdVGDrI~Idg~ 570 (728)
.+..+.+.+++.+++++++++++|..+|++++++++++|++|+++|||+|++++| |.||++|++++||+|||+|+++|.
T Consensus 63 ~~~~~~~~~~~~~~i~~~~~~~~l~~lGi~~~~l~a~~G~~glaiG~a~q~~l~N-~~sGi~i~~~rpf~vGD~I~i~~~ 141 (286)
T PRK10334 63 ATVADFLSALVRYGIIAFTLIAALGRVGVQTASVIAVLGAAGLAVGLALQGSLSN-LAAGVLLVMFRPFRAGEYVDLGGV 141 (286)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhcCCCCCCCEEEECCE
Confidence 3566788999999999999999999999999999999999999999999999999 779999999999999999999999
Q ss_pred EEEEEEEeeEEEEEEEeCCeEEEEeCccccCCcEEeccCCCceEEEEEEEEecCCCHHHHHHHHHHHHHHHHhCCCcc-C
Q 004837 571 QMVVEEMNILTTVFLRYDMEKIYYPNAVLLTKPISNFYRSPEMSDNVNFTIDMSTSMETIIALKKAIQVYVESKPNYW-N 649 (728)
Q Consensus 571 ~G~VeeI~LlsT~f~t~Dg~~V~IPNS~L~t~~I~N~sRS~~~~~~i~~~V~~~T~~ekI~~Lk~~i~~~v~~~~~~~-~ 649 (728)
.|+|++|++++|++++.||+.++|||+.+.++.|+|+|+.+.++..+++.|+|++|++ ++++.+++.++++|... .
T Consensus 142 ~G~V~~I~~r~T~i~t~d~~~v~IPNs~~~~~~i~N~s~~~~rr~~~~v~V~y~~d~~---~~~~il~~~~~~~~~vl~~ 218 (286)
T PRK10334 142 AGTVLSVQIFSTTMRTADGKIIVIPNGKIIAGNIINFSREPVRRNEFIIGVAYDSDID---QVKQILTNIIQSEDRILKD 218 (286)
T ss_pred EEEEEEEEeEEEEEEcCCCCEEEEcchHhcCCeeEEcCCCCeEEEEEEEEecCCCCHH---HHHHHHHHHHHhCCceecC
Confidence 9999999999999999999999999999999999999999888999999999999987 57778899999999987 7
Q ss_pred CCcEEEEEEecCCc-eEEEEEEEEeccCcCCcchHHHHHHHHHHHHHHHHHHCCCcccCCcceEEEecCCCC
Q 004837 650 PKHSVIVKEIAELN-KLKMCLSVQHTINHQNYGERSIRISELILELKKIFENLGIKYHLLPQEIHITQLNLD 720 (728)
Q Consensus 650 p~~~V~v~~i~d~~-~l~l~v~v~h~~n~qd~~~~~~rrs~l~~~I~~~l~e~GI~~~~P~q~V~i~~~~~~ 720 (728)
|+|.+.+.++++++ .+++++|+.. ..++..+++++.+++++|+++||++|+|++++++.+.+..
T Consensus 219 p~p~v~~~~~~dssi~~~v~~wv~~-------~~~~~~~~~~~~~I~~~f~~~gI~ip~p~~~v~~~~~~~~ 283 (286)
T PRK10334 219 REMTVRLNELGASSINFVVRVWSNS-------GDLQNVYWDVLERIKREFDAAGISFPYPQMDVNFKRVKED 283 (286)
T ss_pred CCCEEEEEeeeCceEEEEEEEEEec-------chhHHHHHHHHHHHHHHHHHCCCcCCCCCeEEEeccCCcc
Confidence 88999999999998 9999999862 2457889999999999999999999999999999876654
No 3
>PRK11281 hypothetical protein; Provisional
Probab=100.00 E-value=2.1e-34 Score=347.56 Aligned_cols=218 Identities=18% Similarity=0.295 Sum_probs=203.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhcccchhHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCCccCCCEEEECCeE
Q 004837 492 TAVQQLHKLASAVVIVVIIVVSLLVMELATTKVVFFVLTQLVLVGFMFQNTCKMVFESIVFIFVMHPFDIGDRCVIDGVQ 571 (728)
Q Consensus 492 s~v~~L~~il~~iv~iI~iii~L~ilgv~~t~lla~~gs~~LalgFafq~tl~nvf~SgIfLfv~hPFdVGDrI~Idg~~ 571 (728)
+....+.+++.++++++++++++..+|++.+++.+.+|++|+|+|||+|++++| |.||++|++++||+|||+|.|+|..
T Consensus 873 ~~~~~i~~li~y~I~~i~iliaL~~lGi~~t~L~~l~gaLgVgIGfglQ~ilsN-fISGiiIl~eRPfrIGD~I~I~~~~ 951 (1113)
T PRK11281 873 GTSYAITTLLTYIIIAVGAVTAFSTLGVSWDKLQWLVAALSVGLGFGLQEIFAN-FVSGLIILFERPVRIGDTVTIGTFS 951 (1113)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHcCCcCCCCEEEECCEE
Confidence 455778899999999999999999999999999999999999999999999999 7799999999999999999999999
Q ss_pred EEEEEEeeEEEEEEEeCCeEEEEeCccccCCcEEeccCCCc-eEEEEEEEEecCCCHHHHHHHHHHHHHHHHhCCCcc-C
Q 004837 572 MVVEEMNILTTVFLRYDMEKIYYPNAVLLTKPISNFYRSPE-MSDNVNFTIDMSTSMETIIALKKAIQVYVESKPNYW-N 649 (728)
Q Consensus 572 G~VeeI~LlsT~f~t~Dg~~V~IPNS~L~t~~I~N~sRS~~-~~~~i~~~V~~~T~~ekI~~Lk~~i~~~v~~~~~~~-~ 649 (728)
|+|++|++++|+++++||+.|+|||+.+.+..|+|+++++. .+..+++.|+|++|++ .+++.+.+.++++|.+. +
T Consensus 952 G~V~~I~lRsT~Irt~D~~~ViIPNs~~~t~~IiN~S~~~~~~Rv~i~vgV~Y~sDi~---~v~~iL~eaa~~~p~Vl~~ 1028 (1113)
T PRK11281 952 GTVSKIRIRATTITDFDRKEVIVPNKAFVTERLINWSLSDTVTRVVIKVGVAYGSDLE---KVRELLLQAATENPRVMKE 1028 (1113)
T ss_pred EEEEEEEeEEEEEEcCCCCEEEEechhhhcCceEeCCCCCcceEEEEEEEeCCCCCHH---HHHHHHHHHHHcCcccccC
Confidence 99999999999999999999999999999999999999875 7899999999999886 68888999999999988 7
Q ss_pred CCcEEEEEEecCCc-eEEEEEEEEeccCcCCcchHHHHHHHHHHHHHHHHHHCCCcccCCcceEEEecCCC
Q 004837 650 PKHSVIVKEIAELN-KLKMCLSVQHTINHQNYGERSIRISELILELKKIFENLGIKYHLLPQEIHITQLNL 719 (728)
Q Consensus 650 p~~~V~v~~i~d~~-~l~l~v~v~h~~n~qd~~~~~~rrs~l~~~I~~~l~e~GI~~~~P~q~V~i~~~~~ 719 (728)
|+|.|.+.++++++ .+++++|+. +.+.++..++++..+|+++|+++||++|+|+++|++.+.+.
T Consensus 1029 P~P~V~~~~fgdssi~~~lr~wv~------~~~~~~~v~s~L~~~I~~~f~e~GIeIpfPq~~V~i~~~~~ 1093 (1113)
T PRK11281 1029 PEPQVFFLNFGASTLDHELRLYVR------ELGDRSPTVDELNRRIDRLFRENDINIAFNQLDVFLKNQKG 1093 (1113)
T ss_pred CCCEEEEEeccCceEEEEEEEEEc------CHhhHHHHHHHHHHHHHHHHHHCCCcCCCCCeeEEecCCCc
Confidence 99999999999988 899999996 34678899999999999999999999999999999987554
No 4
>PRK10929 putative mechanosensitive channel protein; Provisional
Probab=100.00 E-value=6.6e-34 Score=342.09 Aligned_cols=220 Identities=17% Similarity=0.226 Sum_probs=205.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHhhcccchhHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCCccCCCEEEECC
Q 004837 490 TKTAVQQLHKLASAVVIVVIIVVSLLVMELATTKVVFFVLTQLVLVGFMFQNTCKMVFESIVFIFVMHPFDIGDRCVIDG 569 (728)
Q Consensus 490 ~~s~v~~L~~il~~iv~iI~iii~L~ilgv~~t~lla~~gs~~LalgFafq~tl~nvf~SgIfLfv~hPFdVGDrI~Idg 569 (728)
..+....+.+++.++++++++++++..+|++.+++.+.+|++|+|+|||+|++++| |.|||+|++++||+|||+|+|+|
T Consensus 868 ~~~~~~~i~~l~~y~I~~ig~l~~L~~lGI~~t~l~al~galGVgIGfAlQ~ilsN-fiSGIiIL~erPfrVGD~I~I~~ 946 (1109)
T PRK10929 868 TPGTGYAITTITKYLLMLIGGLVGFSMIGIEWSKLQWLVAALGVGLGFGLQEIFAN-FISGLIILFEKPIRIGDTVTIRD 946 (1109)
T ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhCCCCCCCEEEECC
Confidence 34567889999999999999999999999999999999999999999999999999 77999999999999999999999
Q ss_pred eEEEEEEEeeEEEEEEEeCCeEEEEeCccccCCcEEeccCCCc-eEEEEEEEEecCCCHHHHHHHHHHHHHHHHhCCCcc
Q 004837 570 VQMVVEEMNILTTVFLRYDMEKIYYPNAVLLTKPISNFYRSPE-MSDNVNFTIDMSTSMETIIALKKAIQVYVESKPNYW 648 (728)
Q Consensus 570 ~~G~VeeI~LlsT~f~t~Dg~~V~IPNS~L~t~~I~N~sRS~~-~~~~i~~~V~~~T~~ekI~~Lk~~i~~~v~~~~~~~ 648 (728)
..|+|++|++++|+++++||+.|+|||+.+.++.|+||++++. ++..+.+.|+|++|++ .+++.+.+.++++|.+.
T Consensus 947 ~~GtV~~I~lRsT~Irt~Dg~~IiIPNs~~it~~IiN~S~~d~~~Rv~i~VgV~Y~sDie---~v~~iL~eaa~~~~~VL 1023 (1109)
T PRK10929 947 LTGSVTKINTRATTISDWDRKEIIVPNKAFITEQFINWSLSDSVTRVVLTIPAPADANSE---EVTEILLTAARRCSLVL 1023 (1109)
T ss_pred EEEEEEEEeeeEEEEEeCCCCEEEEEChhhhcCceEecCCCCcceEEEEEEEeCCCCCHH---HHHHHHHHHHHhCcccc
Confidence 9999999999999999999999999999999999999999876 6899999999999886 78888999999999998
Q ss_pred -CCCcEEEEEEecCCc-eEEEEEEEEeccCcCCcchHHHHHHHHHHHHHHHHHHCCCcccCCcceEEEecCCC
Q 004837 649 -NPKHSVIVKEIAELN-KLKMCLSVQHTINHQNYGERSIRISELILELKKIFENLGIKYHLLPQEIHITQLNL 719 (728)
Q Consensus 649 -~p~~~V~v~~i~d~~-~l~l~v~v~h~~n~qd~~~~~~rrs~l~~~I~~~l~e~GI~~~~P~q~V~i~~~~~ 719 (728)
.|+|.|.+.++++++ .+++++|+. +.+.++..+++++..|++.|+++||++|+|+++||+++.+.
T Consensus 1024 ~~P~P~V~~~~fgdssi~~elr~wv~------~~~~~~~v~~el~~~I~~~F~~~GIeIPfPq~~v~i~~~~~ 1090 (1109)
T PRK10929 1024 DNPAPEVFLVDLQQGIQIFELRIYAA------EMGHRMPLRHEIHQLILAGFREHGIDMPFPPFQMRLESLGG 1090 (1109)
T ss_pred CCCCCEEEEEecCCCceEEEEEEEEc------ChhhHHHHHHHHHHHHHHHHHHCCCcCCCCCeEEEeecCCC
Confidence 799999999999887 788999985 34567899999999999999999999999999999998754
No 5
>PF00924 MS_channel: Mechanosensitive ion channel; InterPro: IPR006685 Mechanosensitive (MS) channels provide protection against hypo-osmotic shock, responding both to stretching of the cell membrane and to membrane depolarisation. They are present in the membranes of organisms from the three domains of life: bacteria, archaea, and eukarya []. There are two families of MS channels: large-conductance MS channels (MscL) and small-conductance MS channels (MscS or YGGB). The pressure threshold for MscS opening is 50% that of MscL []. The MscS family is much larger and more variable in size and sequence than the MscL family. Much of the diversity in MscS proteins occurs in the size of the transmembrane regions, which ranges from three to eleven transmembrane helices, although the three C-terminal helices are conserved. This family contains sequences form the MscS family of proteins. MscS folds as a homo-heptamer with a cylindrical shape, and can be divided into transmembrane and extramembrane regions: an N-terminal periplasmic region, a transmembrane region, and a C-terminal cytoplasmic region (middle and C-terminal domains). The transmembrane region forms a channel through the membrane that opens into a chamber enclosed by the extramembrane portion, the latter connecting to the cytoplasm through distinct portals [].; GO: 0055085 transmembrane transport, 0016020 membrane; PDB: 2OAU_E 2VV5_F.
Probab=100.00 E-value=2.2e-32 Score=276.14 Aligned_cols=202 Identities=29% Similarity=0.441 Sum_probs=165.6
Q ss_pred HHHHHHHHHHHHHHHHhhcccchhHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCCccCCCEEEECCeEEEEEEEe
Q 004837 499 KLASAVVIVVIIVVSLLVMELATTKVVFFVLTQLVLVGFMFQNTCKMVFESIVFIFVMHPFDIGDRCVIDGVQMVVEEMN 578 (728)
Q Consensus 499 ~il~~iv~iI~iii~L~ilgv~~t~lla~~gs~~LalgFafq~tl~nvf~SgIfLfv~hPFdVGDrI~Idg~~G~VeeI~ 578 (728)
+++.++++++++++++..+|++.+++++++|++++++||++|++++| +.||+++++++||++||||+|+|..|.|++|+
T Consensus 2 ~i~~~~~~~~~~~~~l~~~g~~~~~l~~~~g~~~~~i~f~~~~~~~n-~~~gi~i~~~~pf~vGD~I~i~~~~G~V~~I~ 80 (206)
T PF00924_consen 2 KIIRIVIIIVGILIILSILGIDVSSLLASLGVLGLAIGFAFQDIISN-FISGIIILFERPFKVGDRIEIGGVEGRVEEIG 80 (206)
T ss_dssp -HHHHHHHHHHHHHHHHCCT--SCCHHHHHHHHHHHHHHHHCHHHHH-HHHHHHHHCC-SS-TT-EEESSS-EEEEEEE-
T ss_pred hHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhccCCccCCCEEEEEEeehHHHhcC
Confidence 57888899999999999999999999999999999999999999999 55778899999999999999999999999999
Q ss_pred eEEEEEEEeCCeEEEEeCccccCCcEEeccC-CCceEEEEEEEEecCCCHHHHHHHHHHHHHHHHhCCCcc-CCCcEEEE
Q 004837 579 ILTTVFLRYDMEKIYYPNAVLLTKPISNFYR-SPEMSDNVNFTIDMSTSMETIIALKKAIQVYVESKPNYW-NPKHSVIV 656 (728)
Q Consensus 579 LlsT~f~t~Dg~~V~IPNS~L~t~~I~N~sR-S~~~~~~i~~~V~~~T~~ekI~~Lk~~i~~~v~~~~~~~-~p~~~V~v 656 (728)
+++|+++++||+.++|||+.+.+++|.|++| ++.++..+.+.+++++++++++++.+.+.+.+++++... .+.+.+.+
T Consensus 81 l~~t~l~~~~g~~v~IPNs~l~~~~i~N~s~~~~~~~~~v~~~v~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~ 160 (206)
T PF00924_consen 81 LRSTRLRTWDGEIVIIPNSKLISSPIVNYSRSSPYRRVVVEIPVDYDTDPEKIEELREKIEEALRSNPYIFKEPEPRVVV 160 (206)
T ss_dssp SSEEEEEETTS-EEEEEHHHHHCS-EEETTT-SSEEEEEEEEEE-TTS----HHHHHHHHHHHHHH-TTC-TTS-EEEEE
T ss_pred cceeeeecCCCCEEEEEchheeeEEEEEeeccCCceeeeeeeeEecCCCchHHHHHHHHHHHHHhcCchhhcCCCCeEEE
Confidence 9999999999999999999999999999999 889999999999999999999999999999999999887 47888999
Q ss_pred EEecCCc-eEEEEEEEEeccCcCCcchHHHHHHHHHHHHHHHHHHCCCcc
Q 004837 657 KEIAELN-KLKMCLSVQHTINHQNYGERSIRISELILELKKIFENLGIKY 705 (728)
Q Consensus 657 ~~i~d~~-~l~l~v~v~h~~n~qd~~~~~~rrs~l~~~I~~~l~e~GI~~ 705 (728)
..+++.+ .+++.+++.. +++.+++..|++++.++++.|+++||++
T Consensus 161 ~~~~~~~~~~~i~~~~~~----~~~~~~~~~~~~i~~~i~~~~~~~gI~~ 206 (206)
T PF00924_consen 161 DEIGDSSLEFRIRVYVKN----QDPEKYWEIRSEIRKRILEILEEHGIEI 206 (206)
T ss_dssp EEE-SSSEEEEEEEEEEC-------CCHHHHHHHHHHHHHHHHHHHT---
T ss_pred ccccCCceEEEEEEEEEe----CchhhHHHHHHHHHHHHHHHHHHccCCC
Confidence 9998776 7777777753 4567889999999999999999999975
No 6
>COG3264 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]
Probab=100.00 E-value=4.2e-32 Score=311.89 Aligned_cols=260 Identities=17% Similarity=0.266 Sum_probs=231.3
Q ss_pred CCCcceeeHhHHHhhcCHHHHHHHHHHhhhhhcccccchHhHHHHHHHHHHHhhhhhhcccchhhHHHHHHHHHHHHHHH
Q 004837 428 KPGAKFIEEEDLMRFLKRVEVHTIFPLFEGALETGRITKSSFRNWVVRAYFERKSLAHSLNDTKTAVQQLHKLASAVVIV 507 (728)
Q Consensus 428 ~~g~~~I~~eDl~~f~~~eea~~af~lfd~~~~~g~Is~~el~~~vv~~~~eRk~L~~sL~D~~s~v~~L~~il~~iv~i 507 (728)
..|...|++-++. .+.-+|- . +..--..+.+|+......|-+++.+. -..+.+++.++++.
T Consensus 550 ~~g~~~isl~~ll---------~avl~~~---~-~~~l~r~~~~~L~~~vl~r~~~~~G~------r~~I~t~~~Y~~~~ 610 (835)
T COG3264 550 VLGVESITLGALL---------QAVLLFL---I-TYVLTRNLPGWLEVRVLQRLDLDAGT------RYSITTLLGYLLIA 610 (835)
T ss_pred hcceeEeeHHHHH---------HHHHHHH---H-HHHHHHHHHHHHHHHHHHhcccCcch------HHHHHHHHHHHHHH
Confidence 4578889988887 3333332 1 12222356667777778888877765 46789999999999
Q ss_pred HHHHHHHhhcccchhHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCCccCCCEEEECCeEEEEEEEeeEEEEEEEe
Q 004837 508 VIIVVSLLVMELATTKVVFFVLTQLVLVGFMFQNTCKMVFESIVFIFVMHPFDIGDRCVIDGVQMVVEEMNILTTVFLRY 587 (728)
Q Consensus 508 I~iii~L~ilgv~~t~lla~~gs~~LalgFafq~tl~nvf~SgIfLfv~hPFdVGDrI~Idg~~G~VeeI~LlsT~f~t~ 587 (728)
++.++.++.+|++.+++-..+|++++|+||++|++++| |.||+.|+++||++|||+|++++..|+|.+|+.+.|++++.
T Consensus 611 i~~l~~lS~~Gi~lssL~~~~gALsvGiGFGLQ~I~~N-FVSGlIiL~ErpvkvGD~It~g~~~G~V~~I~vRAT~I~~f 689 (835)
T COG3264 611 IGGLVGLSTLGIDLSSLQWLAGALSVGLGFGLQEIVSN-FVSGLIILFERPVKVGDTVTIGTVSGTVRKISVRATTIRTF 689 (835)
T ss_pred HHHHHHHHHcCcChHHHHHHHHHhhhhhchhHHHHHHH-hhhhhhhheecCcccCCEEEECCceEEEEEEEeeEEEEEeC
Confidence 99999999999999999999999999999999999999 88999999999999999999999999999999999999999
Q ss_pred CCeEEEEeCccccCCcEEeccCCC-ceEEEEEEEEecCCCHHHHHHHHHHHHHHHHhCCCcc-CCCcEEEEEEecCCc-e
Q 004837 588 DMEKIYYPNAVLLTKPISNFYRSP-EMSDNVNFTIDMSTSMETIIALKKAIQVYVESKPNYW-NPKHSVIVKEIAELN-K 664 (728)
Q Consensus 588 Dg~~V~IPNS~L~t~~I~N~sRS~-~~~~~i~~~V~~~T~~ekI~~Lk~~i~~~v~~~~~~~-~p~~~V~v~~i~d~~-~ 664 (728)
||+.|++||+.+.+..+.||+-++ ..+..+.+.++|++|++ ++++.+.+.+.++|++. +|+|.+.+.+|+++. .
T Consensus 690 d~~~vIVPNs~fI~~qV~NWs~~~~~~R~~i~v~vay~sD~~---~V~~~Ll~~A~~~p~Vl~~P~P~v~f~~fg~s~L~ 766 (835)
T COG3264 690 DRKEVIVPNSAFITEQVINWSLRDTTTRLVIPVGVAYGSDPE---LVRELLLEAAREHPRVLKDPAPEVFFTAFGASSLD 766 (835)
T ss_pred CCCeEEeccHHHHhhheeeeeccCceEEEEEEecccCCCCHH---HHHHHHHHHHHhCCCccCCCCCeeEeeccccccee
Confidence 999999999999999999999665 67899999999999997 78999999999999998 899999999999998 9
Q ss_pred EEEEEEEEeccCcCCcchHHHHHHHHHHHHHHHHHHCCCcccCCcceEEEec
Q 004837 665 LKMCLSVQHTINHQNYGERSIRISELILELKKIFENLGIKYHLLPQEIHITQ 716 (728)
Q Consensus 665 l~l~v~v~h~~n~qd~~~~~~rrs~l~~~I~~~l~e~GI~~~~P~q~V~i~~ 716 (728)
+++++|+.. .+.+...++++...|.+.|+|+||++|+|+.+|++++
T Consensus 767 fELr~~v~~------~~~~~~~~~~l~~~I~~~fre~gI~ipfpq~~v~l~~ 812 (835)
T COG3264 767 FELRVYVAE------LGDRMPVRSELNRAILDRFRENGIEIPFPQREVRLKN 812 (835)
T ss_pred EEEEEEeec------cccccchHHHHHHHHHHHHHHcCCCCCCchHheEecC
Confidence 999999973 4555668999999999999999999999999999997
No 7
>PRK11465 putative mechanosensitive channel protein; Provisional
Probab=99.97 E-value=6.3e-30 Score=296.57 Aligned_cols=217 Identities=15% Similarity=0.112 Sum_probs=184.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHhhcccchhHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCCccCCCEEEECC
Q 004837 490 TKTAVQQLHKLASAVVIVVIIVVSLLVMELATTKVVFFVLTQLVLVGFMFQNTCKMVFESIVFIFVMHPFDIGDRCVIDG 569 (728)
Q Consensus 490 ~~s~v~~L~~il~~iv~iI~iii~L~ilgv~~t~lla~~gs~~LalgFafq~tl~nvf~SgIfLfv~hPFdVGDrI~Idg 569 (728)
.++....+.+++.+++++++++++|..+|++++++++++|++|+++||++|++++| |.||+||++++||+|||+|+++|
T Consensus 506 ~~Tl~~ll~~~~~~~i~~i~~l~vL~~lGi~it~LlA~aGi~GlaiGfaaQ~~l~N-~isGi~Il~e~pf~vGD~I~v~g 584 (741)
T PRK11465 506 TRTLLTLFRNALAVIISTITIMIVLSEIGVNIAPLLAGAGALGLAISFGSQTLVKD-IITGVFIQFENGMNTGDLVTIGP 584 (741)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHcCCcCCCCEEEECC
Confidence 56788999999999999999999999999999999999999999999999999999 67899999999999999999999
Q ss_pred eEEEEEEEeeEEEEEEEeCCeEEEEeCccccCCcEEeccCCCceEEEEEEEEecCCCHHHHHHHHHHHHHHHHhCCC---
Q 004837 570 VQMVVEEMNILTTVFLRYDMEKIYYPNAVLLTKPISNFYRSPEMSDNVNFTIDMSTSMETIIALKKAIQVYVESKPN--- 646 (728)
Q Consensus 570 ~~G~VeeI~LlsT~f~t~Dg~~V~IPNS~L~t~~I~N~sRS~~~~~~i~~~V~~~T~~ekI~~Lk~~i~~~v~~~~~--- 646 (728)
..|+|++|++++|+++++||..++||||.+.+ |.|++|. ..+..+++.|+|++|.+++.++.+.+.+-+.++|.
T Consensus 585 ~~GtVe~I~lRsT~iRt~dg~~i~IPNs~i~~--v~N~Sr~-~~~~~v~v~V~Y~~Didka~~iL~ev~~el~~dpe~~~ 661 (741)
T PRK11465 585 LTGTVERMSIRSVGVRQDTGAYHIIPWSSITT--FANFVRG-IGSVVANYDVDRHEDADKANQALKDAVAELMENEEIRG 661 (741)
T ss_pred eEEEEEEEeeeEEEEEcCCCCEEEEECCccee--eEEeccC-ceEEEEEEEeCCCCCHHHHHHHHHHHHHHhhcCccccc
Confidence 99999999999999999999999999999975 9999986 55788899999999998665543333333444554
Q ss_pred -ccCCCcEEEEEEecCCc-eEEEEEEEEeccCcCCcchHHHHHHHHHHHHHHHHHHCCCcccCCcceEEEecCCC
Q 004837 647 -YWNPKHSVIVKEIAELN-KLKMCLSVQHTINHQNYGERSIRISELILELKKIFENLGIKYHLLPQEIHITQLNL 719 (728)
Q Consensus 647 -~~~p~~~V~v~~i~d~~-~l~l~v~v~h~~n~qd~~~~~~rrs~l~~~I~~~l~e~GI~~~~P~q~V~i~~~~~ 719 (728)
...+...+.+.++++++ .+++++|++ .+.+|..+.+++..+++.|+++||++|+ +++++.+.++
T Consensus 662 ~il~~p~~vgV~~lgdSsi~lrvr~~t~-------p~~qw~v~rel~~~IK~~Fde~GIeIP~--~tv~v~~~~~ 727 (741)
T PRK11465 662 LIIGEPNFAGIVGLTNTAFTLRVSFTTL-------PLKQWTVRFALDSQVKKHFDLAGVRAPV--QTYQVLPAPG 727 (741)
T ss_pred cccCCCCeEEEEEecCceEEEEEEEEEC-------cchHHHHHHHHHHHHHHHHHHCCCCCCC--CceEeecCCC
Confidence 23344568889998887 566666653 4677999999999999999999999865 5556655544
No 8
>COG0668 MscS Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]
Probab=99.97 E-value=1.8e-28 Score=261.87 Aligned_cols=212 Identities=21% Similarity=0.335 Sum_probs=191.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcccchhHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCCccCCCEEEEC-CeEEEE
Q 004837 496 QLHKLASAVVIVVIIVVSLLVMELATTKVVFFVLTQLVLVGFMFQNTCKMVFESIVFIFVMHPFDIGDRCVID-GVQMVV 574 (728)
Q Consensus 496 ~L~~il~~iv~iI~iii~L~ilgv~~t~lla~~gs~~LalgFafq~tl~nvf~SgIfLfv~hPFdVGDrI~Id-g~~G~V 574 (728)
.+.+++.++++++++++++..+|++++++++++|.+|+++||++|++++| +.+|+++.++|||++||+|+++ +..|+|
T Consensus 86 ~~~~~~~~~~~~~~~~~~l~~~g~~~~~lla~~G~~glaigla~q~~~~n-~~~Gi~il~~~~f~vGD~I~i~~~~~G~V 164 (316)
T COG0668 86 FLSNLLRILILVVALLIVLSVLGVQVTSLLAGLGALGLAIGLALQDLLSN-LIAGIFLLLERPFKVGDWIEIGSGVEGTV 164 (316)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHhhHHHHHHHHHHHHHHHH-HHhhhHhheecCcCcCCEEEECCCceEEE
Confidence 78999999999999999999999999999999999999999999999999 6688899999999999999999 799999
Q ss_pred EEEeeEEEEEEEeCCeEEEEeCccccCCcEEeccCCCceEEEEEEEEecCCCHHHHHHHHHHHHHHHHhCCCcc--CCCc
Q 004837 575 EEMNILTTVFLRYDMEKIYYPNAVLLTKPISNFYRSPEMSDNVNFTIDMSTSMETIIALKKAIQVYVESKPNYW--NPKH 652 (728)
Q Consensus 575 eeI~LlsT~f~t~Dg~~V~IPNS~L~t~~I~N~sRS~~~~~~i~~~V~~~T~~ekI~~Lk~~i~~~v~~~~~~~--~p~~ 652 (728)
++|++++|+++++||+.+++|||.+.+..|.|+++.+..+..+.+.|+|+++++ ++++.+++.++..+.+. .|.|
T Consensus 165 ~~i~~~~T~ir~~dg~~v~iPNs~i~~~~i~N~s~~~~~~~~~~v~v~~~~~~~---~~~~i~~~~~~~~~~~~~~~~~~ 241 (316)
T COG0668 165 EDIGLRSTTIRTLDGRIVTIPNSKLFTANVVNYSREPGRRVEVKVGVAYDSDLE---KALKILKEVLEELPEVLKIEPEP 241 (316)
T ss_pred EEEEEEEEEEEcCCCCEEEccchhhccCceEeCCCCCcEEEEEEEeeccCCCHH---HHHHHHHHHHHhcccccccCCCc
Confidence 999999999999999999999999999999999999888899999999999987 56666666777777765 7899
Q ss_pred EEEEEEecCCc-eEEEEEEEEeccCcCCcchHHHHHHHHHHHHHHHHHHCCCcccCCcceEEEecCC
Q 004837 653 SVIVKEIAELN-KLKMCLSVQHTINHQNYGERSIRISELILELKKIFENLGIKYHLLPQEIHITQLN 718 (728)
Q Consensus 653 ~V~v~~i~d~~-~l~l~v~v~h~~n~qd~~~~~~rrs~l~~~I~~~l~e~GI~~~~P~q~V~i~~~~ 718 (728)
.+.+.++++.+ .+.+++|+. ....+..++++...++++++++||++|+|++.+.....+
T Consensus 242 ~v~~~~~~~~~~~i~v~~~t~-------~~~~~~~~~~~~~~i~~~~~~~gi~i~~p~~~~~~~~~~ 301 (316)
T COG0668 242 VIGVSELGDSGINIRVRFWTN-------PEDLWSVQRELNLRIKEALEEAGIEIPYPQQSVLLGELE 301 (316)
T ss_pred EEEEeeccCCceEEEEEEEec-------chhHHHHHHHHHHHHHHHHHHcCCCCCCCCeeEECcCCC
Confidence 99999999887 666666664 233789999999999999999999999999999944433
No 9
>cd00052 EH Eps15 homology domain; found in proteins implicated in endocytosis, vesicle transport, and signal transduction. The alignment contains a pair of EF-hand motifs, typically one of them is canonical and binds to Ca2+, while the other may not bind to Ca2+. A hydrophobic binding pocket is formed by residues from both EF-hand motifs. The EH domain binds to proteins containing NPF (class I), [WF]W or SWG (class II), or H[TS]F (class III) sequence motifs.
Probab=90.34 E-value=0.73 Score=37.39 Aligned_cols=56 Identities=21% Similarity=0.394 Sum_probs=45.7
Q ss_pred HHHhhcccCCCcceeeHhHHHhhc-----CHHHHHHHHHHhhhhhcccccchHhHHHHHHHH
Q 004837 420 QRIFKNVAKPGAKFIEEEDLMRFL-----KRVEVHTIFPLFEGALETGRITKSSFRNWVVRA 476 (728)
Q Consensus 420 r~If~~~~~~g~~~I~~eDl~~f~-----~~eea~~af~lfd~~~~~g~Is~~el~~~vv~~ 476 (728)
+++|..+...+...|+.+++..++ +.+++..+|..+|.. .+|.|+.++|...+..+
T Consensus 2 ~~~F~~~D~~~~G~i~~~el~~~l~~~g~~~~~~~~i~~~~d~~-~~g~i~~~ef~~~~~~~ 62 (67)
T cd00052 2 DQIFRSLDPDGDGLISGDEARPFLGKSGLPRSVLAQIWDLADTD-KDGKLDKEEFAIAMHLI 62 (67)
T ss_pred hHHHHHhCCCCCCcCcHHHHHHHHHHcCCCHHHHHHHHHHhcCC-CCCcCCHHHHHHHHHHH
Confidence 457788877788899999998876 467899999999966 88999999988766544
No 10
>KOG0044 consensus Ca2+ sensor (EF-Hand superfamily) [Signal transduction mechanisms]
Probab=90.10 E-value=0.62 Score=47.47 Aligned_cols=87 Identities=22% Similarity=0.252 Sum_probs=64.9
Q ss_pred HHHHHHHHHHhhcccCCCcceeeHhHHHhhc----C---HHHHHHHHHHhhhhhcccccchHhHHHHHHHHHHHhhhhhh
Q 004837 413 WEARNSAQRIFKNVAKPGAKFIEEEDLMRFL----K---RVEVHTIFPLFEGALETGRITKSSFRNWVVRAYFERKSLAH 485 (728)
Q Consensus 413 ~~A~~lAr~If~~~~~~g~~~I~~eDl~~f~----~---~eea~~af~lfd~~~~~g~Is~~el~~~vv~~~~eRk~L~~ 485 (728)
..+...|+++|..+...+..+|+.+++..-+ + ++...-+|.++|.+ ++|.|++.||.+-+..+|.--.....
T Consensus 60 gd~~~y~~~vF~~fD~~~dg~i~F~Efi~als~~~rGt~eekl~w~F~lyD~d-gdG~It~~Eml~iv~~i~~m~~~~~~ 138 (193)
T KOG0044|consen 60 GDASKYAELVFRTFDKNKDGTIDFLEFICALSLTSRGTLEEKLKWAFRLYDLD-GDGYITKEEMLKIVQAIYQMTGSKAL 138 (193)
T ss_pred CCHHHHHHHHHHHhcccCCCCcCHHHHHHHHHHHcCCcHHHHhhhhheeecCC-CCceEcHHHHHHHHHHHHHHcccccC
Confidence 3478899999999999899999999976543 2 45678889999987 99999999999988888776655333
Q ss_pred cccchhhHHHHHHHHH
Q 004837 486 SLNDTKTAVQQLHKLA 501 (728)
Q Consensus 486 sL~D~~s~v~~L~~il 501 (728)
. .+.++.-.....++
T Consensus 139 ~-~~~~~~~~~v~~if 153 (193)
T KOG0044|consen 139 P-EDEETPEERVDKIF 153 (193)
T ss_pred C-cccccHHHHHHHHH
Confidence 3 33444444444443
No 11
>PF13499 EF-hand_7: EF-hand domain pair; PDB: 1TCF_A 2TN4_A 1TN4_A 1A2X_A 2CT9_B 2OTG_B 2OS8_B 1SNL_A 3O4Y_A 3J04_E ....
Probab=89.84 E-value=0.58 Score=38.27 Aligned_cols=53 Identities=34% Similarity=0.569 Sum_probs=43.4
Q ss_pred HHHhhcccCCCcceeeHhHHHhhcC-------H----HHHHHHHHHhhhhhcccccchHhHHHHH
Q 004837 420 QRIFKNVAKPGAKFIEEEDLMRFLK-------R----VEVHTIFPLFEGALETGRITKSSFRNWV 473 (728)
Q Consensus 420 r~If~~~~~~g~~~I~~eDl~~f~~-------~----eea~~af~lfd~~~~~g~Is~~el~~~v 473 (728)
+++|..+...+..+|+.++|..++. + +.+..+|..+|.+ .+|.|+.+||...+
T Consensus 3 ~~~F~~~D~d~~G~i~~~el~~~~~~~~~~~~~~~~~~~~~~~~~~~D~d-~dG~i~~~Ef~~~~ 66 (66)
T PF13499_consen 3 KEAFKKFDKDGDGYISKEELRRALKHLGRDMSDEESDEMIDQIFREFDTD-GDGRISFDEFLNFM 66 (66)
T ss_dssp HHHHHHHSTTSSSEEEHHHHHHHHHHTTSHSTHHHHHHHHHHHHHHHTTT-SSSSEEHHHHHHHH
T ss_pred HHHHHHHcCCccCCCCHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCCC-CcCCCcHHHHhccC
Confidence 6788888888999999999988652 2 3466669999977 99999999998753
No 12
>cd05026 S-100Z S-100Z: S-100Z domain found in proteins similar to S100Z. S100Z is a member of the S100 domain family within the EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100Z group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately.S100 proteins exhibit unique patterns of tissue- and cell type-specific expression and have been implicated in the Ca2+-dependent regulation of diverse physiological processes, including cell cycle regulation, differentiation, growth, and metabolic control. S100Z is normally expressed in various tissues, with its highest level of expression being in spleen and leukocytes. The function of S100Z remains unclear. Preliminary structural data suggests that S100Z is homodimer, however a heterodimer with S100P has been reported. S100Z is capable of binding calcium ions. When calcium binds to S110Z, the protein experiences a conformational change, which exposes hydrophobic surfac
Probab=89.68 E-value=1 Score=40.22 Aligned_cols=62 Identities=19% Similarity=0.282 Sum_probs=50.2
Q ss_pred HHHHHHHHHHhhcccC-CCcc-eeeHhHHHhhcC------------HHHHHHHHHHhhhhhcccccchHhHHHHHHH
Q 004837 413 WEARNSAQRIFKNVAK-PGAK-FIEEEDLMRFLK------------RVEVHTIFPLFEGALETGRITKSSFRNWVVR 475 (728)
Q Consensus 413 ~~A~~lAr~If~~~~~-~g~~-~I~~eDl~~f~~------------~eea~~af~lfd~~~~~g~Is~~el~~~vv~ 475 (728)
..|..-++++|..++. .|.. +|+.++|...+. ++++.+++.-+|.+ ++|.|+.+||...+..
T Consensus 6 e~a~~~~~~~F~~~dd~dgdg~~Is~~EL~~ll~~~~~~~~~~~~~~~~v~~i~~elD~n-~dG~Idf~EF~~l~~~ 81 (93)
T cd05026 6 EGAMDTLIRIFHNYSGKEGDRYKLSKGELKELLQRELTDFLSSQKDPMLVDKIMNDLDSN-KDNEVDFNEFVVLVAA 81 (93)
T ss_pred HHHHHHHHHHHHHHHccCCCCCEECHHHHHHHHHHHhHHhcccccCHHHHHHHHHHhCCC-CCCCCCHHHHHHHHHH
Confidence 4578888999999984 4665 699999998772 24689999999976 9999999998776644
No 13
>cd05022 S-100A13 S-100A13: S-100A13 domain found in proteins similar to S100A13. S100A13 is a calcium-binding protein belonging to a large S100 vertebrate-specific protein family within the EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100A13 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100A13 is involved in the cellular export of interleukin-1 (IL-1) and of fibroblast growth factor-1 (FGF-1), which plays an important role in angiogenesis and tissue regeneration. Export is based on the CuII-dependent formation of multiprotein complexes containing the S100A13 protein. Assembly of these complexes occurs near the inner surface of the plasma membrane. Binding of two Ca(II) ions per monomer triggers key conformational changes leading to the creation of two identical and symmetrical Cu(II)-binding sites on the surface of the protein, close to the interface between the two monomers. These Cu
Probab=89.60 E-value=1.2 Score=39.73 Aligned_cols=63 Identities=8% Similarity=0.132 Sum_probs=52.3
Q ss_pred HHHHHHHHHHhhcccC-CCcceeeHhHHHhhcC--------H-HHHHHHHHHhhhhhcccccchHhHHHHHHHH
Q 004837 413 WEARNSAQRIFKNVAK-PGAKFIEEEDLMRFLK--------R-VEVHTIFPLFEGALETGRITKSSFRNWVVRA 476 (728)
Q Consensus 413 ~~A~~lAr~If~~~~~-~g~~~I~~eDl~~f~~--------~-eea~~af~lfd~~~~~g~Is~~el~~~vv~~ 476 (728)
.+|....+.+|+.+.+ .|..+|+.++|...+. . +++.+.+.-+|.+ ++|.|+.+||...+...
T Consensus 4 E~ai~~l~~~F~~fd~~~~~g~i~~~ELk~ll~~elg~~ls~~~~v~~mi~~~D~d-~DG~I~F~EF~~l~~~l 76 (89)
T cd05022 4 EKAIETLVSNFHKASVKGGKESLTASEFQELLTQQLPHLLKDVEGLEEKMKNLDVN-QDSKLSFEEFWELIGEL 76 (89)
T ss_pred HHHHHHHHHHHHHHhCCCCCCeECHHHHHHHHHHHhhhhccCHHHHHHHHHHhCCC-CCCCCcHHHHHHHHHHH
Confidence 3567778899999988 8899999999987653 3 6789999999976 99999999998777554
No 14
>COG5126 FRQ1 Ca2+-binding protein (EF-Hand superfamily) [Signal transduction mechanisms / Cytoskeleton / Cell division and chromosome partitioning / General function prediction only]
Probab=89.58 E-value=0.56 Score=46.40 Aligned_cols=57 Identities=16% Similarity=0.412 Sum_probs=49.1
Q ss_pred HHHHHHHhhcccCCCcceeeHhHHHhhcC--------HHHHHHHHHHhhhhhcccccchHhHHHHHH
Q 004837 416 RNSAQRIFKNVAKPGAKFIEEEDLMRFLK--------RVEVHTIFPLFEGALETGRITKSSFRNWVV 474 (728)
Q Consensus 416 ~~lAr~If~~~~~~g~~~I~~eDl~~f~~--------~eea~~af~lfd~~~~~g~Is~~el~~~vv 474 (728)
.+.+.+++..+.. |..+|++++|..+++ +|+...||.+||.+ .+|.|+..+|+.++-
T Consensus 55 ~~ei~~l~~~~d~-~~~~idf~~Fl~~ms~~~~~~~~~Eel~~aF~~fD~d-~dG~Is~~eL~~vl~ 119 (160)
T COG5126 55 EAEINKLFEEIDA-GNETVDFPEFLTVMSVKLKRGDKEEELREAFKLFDKD-HDGYISIGELRRVLK 119 (160)
T ss_pred HHHHHHHHHhccC-CCCccCHHHHHHHHHHHhccCCcHHHHHHHHHHhCCC-CCceecHHHHHHHHH
Confidence 4567889988866 889999999998773 57899999999976 999999999998775
No 15
>smart00027 EH Eps15 homology domain. Pair of EF hand motifs that recognise proteins containing Asn-Pro-Phe (NPF) sequences.
Probab=88.65 E-value=1.4 Score=39.26 Aligned_cols=64 Identities=16% Similarity=0.221 Sum_probs=52.5
Q ss_pred HHHHHHHhhcccCCCcceeeHhHHHhhc-----CHHHHHHHHHHhhhhhcccccchHhHHHHHHHHHHHh
Q 004837 416 RNSAQRIFKNVAKPGAKFIEEEDLMRFL-----KRVEVHTIFPLFEGALETGRITKSSFRNWVVRAYFER 480 (728)
Q Consensus 416 ~~lAr~If~~~~~~g~~~I~~eDl~~f~-----~~eea~~af~lfd~~~~~g~Is~~el~~~vv~~~~eR 480 (728)
..-.+.+|..+...+..+|+.+++..+| +++++.++|..+|.. .+|.|+.++|...+...++-.
T Consensus 9 ~~~l~~~F~~~D~d~~G~Is~~el~~~l~~~~~~~~ev~~i~~~~d~~-~~g~I~~~eF~~~~~~~~~~~ 77 (96)
T smart00027 9 KAKYEQIFRSLDKNQDGTVTGAQAKPILLKSGLPQTLLAKIWNLADID-NDGELDKDEFALAMHLIYRKL 77 (96)
T ss_pred HHHHHHHHHHhCCCCCCeEeHHHHHHHHHHcCCCHHHHHHHHHHhcCC-CCCCcCHHHHHHHHHHHHHHH
Confidence 4567888999888888999999999876 367899999999976 899999999988776654443
No 16
>PF00036 EF-hand_1: EF hand; InterPro: IPR018248 Many calcium-binding proteins belong to the same evolutionary family and share a type of calcium-binding domain known as the EF-hand. This type of domain consists of a twelve residue loop flanked on both sides by a twelve residue alpha-helical domain. In an EF-hand loop the calcium ion is coordinated in a pentagonal bipyramidal configuration. The six residues involved in the binding are in positions 1, 3, 5, 7, 9 and 12; these residues are denoted by X, Y, Z, -Y, -X and -Z. The invariant Glu or Asp at position 12 provides two oxygens for liganding Ca (bidentate ligand).; PDB: 1BJF_A 1XFW_R 1XFV_O 2K0J_A 2F3Z_A 3BYA_A 1XFU_Q 2R28_B 1ZOT_B 3G43_D ....
Probab=87.77 E-value=0.66 Score=32.64 Aligned_cols=27 Identities=22% Similarity=0.443 Sum_probs=23.4
Q ss_pred HHHHHHHHhhhhhcccccchHhHHHHHH
Q 004837 447 EVHTIFPLFEGALETGRITKSSFRNWVV 474 (728)
Q Consensus 447 ea~~af~lfd~~~~~g~Is~~el~~~vv 474 (728)
|+.++|..||.+ ++|.|+.+||...+.
T Consensus 1 E~~~~F~~~D~d-~dG~I~~~Ef~~~~~ 27 (29)
T PF00036_consen 1 ELKEAFREFDKD-GDGKIDFEEFKEMMK 27 (29)
T ss_dssp HHHHHHHHHSTT-SSSEEEHHHHHHHHH
T ss_pred CHHHHHHHHCCC-CCCcCCHHHHHHHHH
Confidence 567899999987 999999999988664
No 17
>cd05023 S-100A11 S-100A11: S-100A11 domain found in proteins similar to S100A11. S100A11 is a member of the S-100 domain family within EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100A11 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins exhibit unique patterns of tissue- and cell type-specific expression and have been implicated in the Ca2+-dependent regulation of diverse physiological processes, including cell cycle regulation, differentiation, growth, and metabolic control . S100 proteins have also been associated with a variety of pathological events, including neoplastic transformation and neurodegenerative diseases such as Alzheimer's, usually via over expression of the protein. S100A11 is expressed in smooth muscle and other tissues and involves in calcium-dependent membrane aggregation, which is important for cell vesiculation . As is the case for many other S100 proteins, S
Probab=87.65 E-value=1.4 Score=39.15 Aligned_cols=62 Identities=13% Similarity=0.275 Sum_probs=49.4
Q ss_pred HHHHHHHHHhhc-ccCCCcc-eeeHhHHHhhcCH------------HHHHHHHHHhhhhhcccccchHhHHHHHHHH
Q 004837 414 EARNSAQRIFKN-VAKPGAK-FIEEEDLMRFLKR------------VEVHTIFPLFEGALETGRITKSSFRNWVVRA 476 (728)
Q Consensus 414 ~A~~lAr~If~~-~~~~g~~-~I~~eDl~~f~~~------------eea~~af~lfd~~~~~g~Is~~el~~~vv~~ 476 (728)
.|...-..+|+. ..+.|.. +|+.++|..++.. +++.+++.-+|.+ .+|.|+.++|...+...
T Consensus 6 ~~i~~l~~~F~~y~~~dg~~~~Ls~~Elk~ll~~e~~~~~~~~~~~~~~~~ll~~~D~d-~DG~I~f~EF~~l~~~l 81 (89)
T cd05023 6 RCIESLIAVFQKYAGKDGDSYQLSKTEFLSFMNTELASFTKNQKDPGVLDRMMKKLDLN-SDGQLDFQEFLNLIGGL 81 (89)
T ss_pred HHHHHHHHHHHHHhccCCCcCeECHHHHHHHHHHhhhHhhcCCCCHHHHHHHHHHcCCC-CCCcCcHHHHHHHHHHH
Confidence 455666788988 5455654 9999999998843 4689999999976 99999999999877665
No 18
>cd00213 S-100 S-100: S-100 domain, which represents the largest family within the superfamily of proteins carrying the Ca-binding EF-hand motif. Note that this S-100 hierarchy contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins are expressed exclusively in vertebrates, and are implicated in intracellular and extracellular regulatory activities. Intracellularly, S100 proteins act as Ca-signaling or Ca-buffering proteins. The most unusual characteristic of certain S100 proteins is their occurrence in extracellular space, where they act in a cytokine-like manner through RAGE, the receptor for advanced glycation products. Structural data suggest that many S100 members exist within cells as homo- or heterodimers and even oligomers; oligomerization contributes to their functional diversification. Upon binding calcium, most S100 proteins change conformation to a more open structure exposing a hydrophobic cleft. This hydrophobic surface represents th
Probab=86.31 E-value=2 Score=37.44 Aligned_cols=62 Identities=13% Similarity=0.232 Sum_probs=50.7
Q ss_pred HHHHHHHHHhhcccC--CCcceeeHhHHHhhcC------------HHHHHHHHHHhhhhhcccccchHhHHHHHHHH
Q 004837 414 EARNSAQRIFKNVAK--PGAKFIEEEDLMRFLK------------RVEVHTIFPLFEGALETGRITKSSFRNWVVRA 476 (728)
Q Consensus 414 ~A~~lAr~If~~~~~--~g~~~I~~eDl~~f~~------------~eea~~af~lfd~~~~~g~Is~~el~~~vv~~ 476 (728)
+...-.+.+|..+.+ .|..+|+.++|..++. .+++..++..||.. .+|.|+.++|...+...
T Consensus 5 ~~~~~l~~~F~~~D~~~~~~G~Is~~el~~~l~~~~g~~~~~~~~~~ei~~i~~~~d~~-~~g~I~f~eF~~~~~~~ 80 (88)
T cd00213 5 KAIETIIDVFHKYSGKEGDKDTLSKKELKELLETELPNFLKNQKDPEAVDKIMKDLDVN-KDGKVDFQEFLVLIGKL 80 (88)
T ss_pred HHHHHHHHHHHHHhhccCCCCcCcHHHHHHHHHHHhhhhccCCCCHHHHHHHHHHhccC-CCCcCcHHHHHHHHHHH
Confidence 445567889999988 6888999999988652 56799999999976 89999999998877655
No 19
>cd05025 S-100A1 S-100A1: S-100A1 domain found in proteins similar to S100A1. S100A1 is a calcium-binding protein belonging to a large S100 vertebrate-specific protein family within the EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100A1 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. As is the case with many other members of S100 protein family, S100A1 is implicated in intracellular and extracellular regulatory activities, including interaction with myosin-associated twitchin kinase, actin-capping protein CapZ, sinapsin I, and tubulin. Structural data suggests that S100A1 proteins exist within cells as antiparallel homodimers, while heterodimers with S100A4 and S100B also has been reported. Upon binding calcium S100A1 changes conformation to expose a hydrophobic cleft which is the interaction site of S100A1 with its more that 20 known target proteins.
Probab=85.83 E-value=2.4 Score=37.48 Aligned_cols=61 Identities=20% Similarity=0.297 Sum_probs=49.1
Q ss_pred HHHHHHHHHhhccc-CCCcc-eeeHhHHHhhcC------------HHHHHHHHHHhhhhhcccccchHhHHHHHHH
Q 004837 414 EARNSAQRIFKNVA-KPGAK-FIEEEDLMRFLK------------RVEVHTIFPLFEGALETGRITKSSFRNWVVR 475 (728)
Q Consensus 414 ~A~~lAr~If~~~~-~~g~~-~I~~eDl~~f~~------------~eea~~af~lfd~~~~~g~Is~~el~~~vv~ 475 (728)
.|..-.+++|..+. +.|.. .|+.++|...+. .+++.++|..+|.+ .+|.|+.++|...+..
T Consensus 6 ~~~~~l~~~F~~fDd~dg~G~~Is~~El~~~l~~~lg~~~~~~~s~~~v~~i~~~~D~d-~~G~I~f~eF~~l~~~ 80 (92)
T cd05025 6 TAMETLINVFHAHSGKEGDKYKLSKKELKDLLQTELSDFLDAQKDADAVDKIMKELDEN-GDGEVDFQEFVVLVAA 80 (92)
T ss_pred HHHHHHHHHHHHHhcccCCCCeECHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHCCC-CCCcCcHHHHHHHHHH
Confidence 46667888999996 77888 599999987653 46789999999976 8999999998775544
No 20
>cd05029 S-100A6 S-100A6: S-100A6 domain found in proteins similar to S100A6. S100A6 is a member of the S100 domain family within EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100A6 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins exhibit unique patterns of tissue- and cell type-specific expression and have been implicated in the Ca2+-dependent regulation of diverse physiological processes, including cell cycle regulation, differentiation, growth, and metabolic control . S100A6 is normally expressed in the G1 phase of the cell cycle in neuronal cells. The function of S100A6 remains unclear, but evidence suggests that it is involved in cell cycle regulation and exocytosis. S100A6 may also be involved in tumorigenesis; the protein is overexpressed in several tumors. Ca2+ binding to S100A6 leads to a conformational change in the protein, which exposes a hydrophobic surface for interact
Probab=85.59 E-value=1.6 Score=38.75 Aligned_cols=62 Identities=10% Similarity=0.238 Sum_probs=48.3
Q ss_pred HHHHHHHHHhhcccC-CC-cceeeHhHHHhhc----------CHHHHHHHHHHhhhhhcccccchHhHHHHHHHH
Q 004837 414 EARNSAQRIFKNVAK-PG-AKFIEEEDLMRFL----------KRVEVHTIFPLFEGALETGRITKSSFRNWVVRA 476 (728)
Q Consensus 414 ~A~~lAr~If~~~~~-~g-~~~I~~eDl~~f~----------~~eea~~af~lfd~~~~~g~Is~~el~~~vv~~ 476 (728)
+|...-=.+|..++. .| ..+|+.++|..++ +++++.+.+.-+|.+ .+|.|+.++|...+...
T Consensus 7 ~~~~~~i~~F~~y~~~~~~~g~Is~~EL~~~l~~~~~lg~k~t~~ev~~m~~~~D~d-~dG~Idf~EFv~lm~~l 80 (88)
T cd05029 7 QAIGLLVAIFHKYSGREGDKNTLSKKELKELIQKELTIGSKLQDAEIAKLMEDLDRN-KDQEVNFQEYVTFLGAL 80 (88)
T ss_pred HHHHHHHHHHHHHHccCCCCCEECHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhcCC-CCCCCcHHHHHHHHHHH
Confidence 344455578888876 56 6799999998866 357899999999976 99999999998766553
No 21
>cd05030 calgranulins Calgranulins: S-100 domain found in proteins belonging to the Calgranulin subgroup of the S100 family of EF-hand calcium-modulated proteins, including S100A8, S100A9, and S100A12 . Note that the S-100 hierarchy, to which this Calgranulin group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. These proteins are expressed mainly in granulocytes, and are involved in inflammation, allergy, and neuritogenesis, as well as in host-parasite response. Calgranulins are modulated not only by calcium, but also by other metals such as zinc and copper. Structural data suggested that calgranulins may exist in multiple structural forms, homodimers, as well as hetero-oligomers. For example, the S100A8/S100A9 complex called calprotectin plays important roles in the regulation of inflammatory processes, wound repair, and regulating zinc-dependent enzymes as well as microbial growth.
Probab=83.49 E-value=2.9 Score=36.89 Aligned_cols=63 Identities=11% Similarity=0.272 Sum_probs=50.1
Q ss_pred HHHHHHHHHHhhcccCCC--cceeeHhHHHhhcC------------HHHHHHHHHHhhhhhcccccchHhHHHHHHHH
Q 004837 413 WEARNSAQRIFKNVAKPG--AKFIEEEDLMRFLK------------RVEVHTIFPLFEGALETGRITKSSFRNWVVRA 476 (728)
Q Consensus 413 ~~A~~lAr~If~~~~~~g--~~~I~~eDl~~f~~------------~eea~~af~lfd~~~~~g~Is~~el~~~vv~~ 476 (728)
.+|..-.-.+|+..+..+ ..+|+.++|..+|. ++++..+|..+|.+ .+|.|+.++|...+...
T Consensus 4 e~~i~~~~~~f~~y~~~~~~~~~Is~~El~~ll~~~~g~~~t~~~~~~~v~~i~~~~D~d-~dG~I~f~eF~~~~~~~ 80 (88)
T cd05030 4 EKAIETIINVFHQYSVRKGHPDTLYKKEFKQLVEKELPNFLKKEKNQKAIDKIFEDLDTN-QDGQLSFEEFLVLVIKV 80 (88)
T ss_pred HHHHHHHHHHHHHHhccCCCcccCCHHHHHHHHHHHhhHhhccCCCHHHHHHHHHHcCCC-CCCcCcHHHHHHHHHHH
Confidence 356667778899887653 56899999988763 56799999999976 89999999998766544
No 22
>KOG0027 consensus Calmodulin and related proteins (EF-Hand superfamily) [Signal transduction mechanisms]
Probab=80.44 E-value=3.5 Score=39.79 Aligned_cols=60 Identities=17% Similarity=0.315 Sum_probs=47.2
Q ss_pred HHHHhhcccCCCcceeeHhHHHhhcC------------HHHHHHHHHHhhhhhcccccchHhHHHHHHHHHHH
Q 004837 419 AQRIFKNVAKPGAKFIEEEDLMRFLK------------RVEVHTIFPLFEGALETGRITKSSFRNWVVRAYFE 479 (728)
Q Consensus 419 Ar~If~~~~~~g~~~I~~eDl~~f~~------------~eea~~af~lfd~~~~~g~Is~~el~~~vv~~~~e 479 (728)
.+.++..+...|...|.+++|...+. .++..+||.+||.+ ++|.|+..+|+..+.+...+
T Consensus 46 l~~~~~~~D~dg~g~I~~~eF~~l~~~~~~~~~~~~~~~~el~eaF~~fD~d-~~G~Is~~el~~~l~~lg~~ 117 (151)
T KOG0027|consen 46 LRDLIKEIDLDGDGTIDFEEFLDLMEKLGEEKTDEEASSEELKEAFRVFDKD-GDGFISASELKKVLTSLGEK 117 (151)
T ss_pred HHHHHHHhCCCCCCeEcHHHHHHHHHhhhcccccccccHHHHHHHHHHHccC-CCCcCcHHHHHHHHHHhCCc
Confidence 45666667667888899999987663 23889999999987 99999999999977665433
No 23
>cd05031 S-100A10_like S-100A10_like: S-100A10 domain found in proteins similar to S100A10. S100A10 is a member of the S100 family of EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100A1_like group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins are expressed exclusively in vertebrates, and are implicated in intracellular and extracellular regulatory activities. A unique feature of S100A10 is that it contains mutation in both of the calcium binding sites, making it calcium insensitive. S100A10 has been detected in brain, heart, gastrointestinal tract, kidney, liver, lung, spleen, testes, epidermis, aorta, and thymus. Structural data supports the homo- and hetero-dimeric as well as hetero-tetrameric nature of the protein. S100A10 has multiple binding partners in its calcium free state and is therefore involved in many diverse biological functions.
Probab=80.41 E-value=4.8 Score=35.73 Aligned_cols=60 Identities=18% Similarity=0.315 Sum_probs=47.0
Q ss_pred HHHHHHHHHhhcccC-CC-cceeeHhHHHhhc------------CHHHHHHHHHHhhhhhcccccchHhHHHHHH
Q 004837 414 EARNSAQRIFKNVAK-PG-AKFIEEEDLMRFL------------KRVEVHTIFPLFEGALETGRITKSSFRNWVV 474 (728)
Q Consensus 414 ~A~~lAr~If~~~~~-~g-~~~I~~eDl~~f~------------~~eea~~af~lfd~~~~~g~Is~~el~~~vv 474 (728)
.|....+.+|..+.. .| ..+|+.++|...+ +.+++..++..+|.+ ++|.|+.++|...+.
T Consensus 5 ~~~~~l~~~F~~~D~~dg~dG~Is~~El~~~l~~~~g~~lg~~~s~~ei~~~~~~~D~~-~dg~I~f~eF~~l~~ 78 (94)
T cd05031 5 HAMESLILTFHRYAGKDGDKNTLSRKELKKLMEKELSEFLKNQKDPMAVDKIMKDLDQN-RDGKVNFEEFVSLVA 78 (94)
T ss_pred HHHHHHHHHHHHHhccCCCCCeECHHHHHHHHHHHhHHHhhccccHHHHHHHHHHhCCC-CCCcCcHHHHHHHHH
Confidence 456667788888876 65 5899999998754 246788999999976 899999999876553
No 24
>PF13833 EF-hand_8: EF-hand domain pair; PDB: 3KF9_A 1TTX_A 1WLZ_A 1ALV_A 1NX3_A 1ALW_A 1NX2_A 1NX1_A 1NX0_A 1DF0_A ....
Probab=80.07 E-value=4.6 Score=31.67 Aligned_cols=43 Identities=28% Similarity=0.383 Sum_probs=34.2
Q ss_pred ceeeHhHHHhh--------cCHHHHHHHHHHhhhhhcccccchHhHHHHHHH
Q 004837 432 KFIEEEDLMRF--------LKRVEVHTIFPLFEGALETGRITKSSFRNWVVR 475 (728)
Q Consensus 432 ~~I~~eDl~~f--------~~~eea~~af~lfd~~~~~g~Is~~el~~~vv~ 475 (728)
..|+.++|..+ ++++++..+|..||.+ .+|.|+.+||...+.+
T Consensus 3 G~i~~~~~~~~l~~~g~~~~s~~e~~~l~~~~D~~-~~G~I~~~EF~~~~~~ 53 (54)
T PF13833_consen 3 GKITREEFRRALSKLGIKDLSEEEVDRLFREFDTD-GDGYISFDEFISMMQR 53 (54)
T ss_dssp SEEEHHHHHHHHHHTTSSSSCHHHHHHHHHHHTTS-SSSSEEHHHHHHHHHH
T ss_pred CEECHHHHHHHHHHhCCCCCCHHHHHHHHHhcccC-CCCCCCHHHHHHHHHh
Confidence 35777777663 4467899999999976 9999999999886643
No 25
>PRK12309 transaldolase/EF-hand domain-containing protein; Provisional
Probab=79.02 E-value=3 Score=47.13 Aligned_cols=63 Identities=22% Similarity=0.303 Sum_probs=53.9
Q ss_pred cccHHHHHHHHHHHhhcccCCCcceeeHhHHHhhcCHHHHHHHHHHhhhhhcccccchHhHHHHHHHHHH
Q 004837 409 ITSEWEARNSAQRIFKNVAKPGAKFIEEEDLMRFLKRVEVHTIFPLFEGALETGRITKSSFRNWVVRAYF 478 (728)
Q Consensus 409 i~s~~~A~~lAr~If~~~~~~g~~~I~~eDl~~f~~~eea~~af~lfd~~~~~g~Is~~el~~~vv~~~~ 478 (728)
|.+-...+..++.+|..+...|..+|+.+++.. +...|..||.+ ++|.|+.+||...+-..|+
T Consensus 326 ~~~~~~~~~~l~~aF~~~D~dgdG~Is~~E~~~------~~~~F~~~D~d-~DG~Is~eEf~~~~~~~~~ 388 (391)
T PRK12309 326 LEGGEAFTHAAQEIFRLYDLDGDGFITREEWLG------SDAVFDALDLN-HDGKITPEEMRAGLGAALR 388 (391)
T ss_pred hhccChhhHHHHHHHHHhCCCCCCcCcHHHHHH------HHHHHHHhCCC-CCCCCcHHHHHHHHHHHHH
Confidence 555566788899999999999999999999852 67899999976 9999999999998877765
No 26
>cd05027 S-100B S-100B: S-100B domain found in proteins similar to S100B. S100B is a calcium-binding protein belonging to a large S100 vertebrate-specific protein family within the EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100B group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100B is most abundant in glial cells of the central nervous system, predominately in astrocytes. S100B is involved in signal transduction via the inhibition of protein phoshorylation, regulation of enzyme activity and by affecting the calcium homeostasis. Upon calcium binding the S100B homodimer changes conformation to expose a hydrophobic cleft, which represents the interaction site of S100B with its more than 20 known target proteins. These target proteins include several cellular architecture proteins such as tubulin and GFAP; S100B can inhibit polymerization of these oligomeric molecules. Furthermore, S100B i
Probab=77.61 E-value=6.8 Score=34.74 Aligned_cols=62 Identities=15% Similarity=0.302 Sum_probs=49.2
Q ss_pred HHHHHHHHHhhccc-CCCcc-eeeHhHHHhhcC------------HHHHHHHHHHhhhhhcccccchHhHHHHHHHH
Q 004837 414 EARNSAQRIFKNVA-KPGAK-FIEEEDLMRFLK------------RVEVHTIFPLFEGALETGRITKSSFRNWVVRA 476 (728)
Q Consensus 414 ~A~~lAr~If~~~~-~~g~~-~I~~eDl~~f~~------------~eea~~af~lfd~~~~~g~Is~~el~~~vv~~ 476 (728)
.|..--+.+|..+. +.|.. +|+.++|...+. ++++.+.+.-+|++ ++|.|+.++|...+...
T Consensus 5 ~~~~~l~~aF~~fD~~dgdG~~I~~~eL~~ll~~~~~~~lg~~~~~~~v~~~i~~~D~n-~dG~v~f~eF~~li~~~ 80 (88)
T cd05027 5 KAMVALIDVFHQYSGREGDKHKLKKSELKELINNELSHFLEEIKEQEVVDKVMETLDSD-GDGECDFQEFMAFVAMV 80 (88)
T ss_pred HHHHHHHHHHHHhcccCCCcCEECHHHHHHHHHHHhHHHhcCCCCHHHHHHHHHHhCCC-CCCcCcHHHHHHHHHHH
Confidence 46677788999997 57777 699999976553 35699999999977 99999999988766543
No 27
>PTZ00183 centrin; Provisional
Probab=77.03 E-value=5.1 Score=37.99 Aligned_cols=56 Identities=14% Similarity=0.211 Sum_probs=45.7
Q ss_pred HHHHHHhhcccCCCcceeeHhHHHhhc-------CHHHHHHHHHHhhhhhcccccchHhHHHHH
Q 004837 417 NSAQRIFKNVAKPGAKFIEEEDLMRFL-------KRVEVHTIFPLFEGALETGRITKSSFRNWV 473 (728)
Q Consensus 417 ~lAr~If~~~~~~g~~~I~~eDl~~f~-------~~eea~~af~lfd~~~~~g~Is~~el~~~v 473 (728)
...+.+|..+...+..+|+.+++..++ ..+++..+|..||.+ .+|.|+.++|...+
T Consensus 90 ~~l~~~F~~~D~~~~G~i~~~e~~~~l~~~~~~l~~~~~~~~~~~~d~~-~~g~i~~~ef~~~~ 152 (158)
T PTZ00183 90 EEILKAFRLFDDDKTGKISLKNLKRVAKELGETITDEELQEMIDEADRN-GDGEISEEEFYRIM 152 (158)
T ss_pred HHHHHHHHHhCCCCCCcCcHHHHHHHHHHhCCCCCHHHHHHHHHHhCCC-CCCcCcHHHHHHHH
Confidence 345788998888888899999998764 467899999999966 88999999887654
No 28
>cd00051 EFh EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to the activation or inactivation of target proteins. EF-hands tend to occur in pairs or higher copy numbers.
Probab=76.19 E-value=4.6 Score=30.91 Aligned_cols=52 Identities=19% Similarity=0.308 Sum_probs=39.9
Q ss_pred HHHhhcccCCCcceeeHhHHHhhc-------CHHHHHHHHHHhhhhhcccccchHhHHHH
Q 004837 420 QRIFKNVAKPGAKFIEEEDLMRFL-------KRVEVHTIFPLFEGALETGRITKSSFRNW 472 (728)
Q Consensus 420 r~If~~~~~~g~~~I~~eDl~~f~-------~~eea~~af~lfd~~~~~g~Is~~el~~~ 472 (728)
+.+|..+...+...|+.+++...+ ..+++..+|..++.. .+|.|+.++|...
T Consensus 3 ~~~f~~~d~~~~g~l~~~e~~~~l~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~ef~~~ 61 (63)
T cd00051 3 REAFRLFDKDGDGTISADELKAALKSLGEGLSEEEIDEMIREVDKD-GDGKIDFEEFLEL 61 (63)
T ss_pred HHHHHHhCCCCCCcCcHHHHHHHHHHhCCCCCHHHHHHHHHHhCCC-CCCeEeHHHHHHH
Confidence 456777766667789999988655 246788899999866 8899999888654
No 29
>PTZ00184 calmodulin; Provisional
Probab=75.42 E-value=6.5 Score=36.63 Aligned_cols=57 Identities=19% Similarity=0.329 Sum_probs=45.4
Q ss_pred HHHHHHhhcccCCCcceeeHhHHHhhc-------CHHHHHHHHHHhhhhhcccccchHhHHHHHH
Q 004837 417 NSAQRIFKNVAKPGAKFIEEEDLMRFL-------KRVEVHTIFPLFEGALETGRITKSSFRNWVV 474 (728)
Q Consensus 417 ~lAr~If~~~~~~g~~~I~~eDl~~f~-------~~eea~~af~lfd~~~~~g~Is~~el~~~vv 474 (728)
..++.+|..+...|..+|+.+++..++ +.+++..+|..+|.. ++|.|+.++|...+.
T Consensus 84 ~~~~~~F~~~D~~~~g~i~~~e~~~~l~~~~~~~~~~~~~~~~~~~d~~-~~g~i~~~ef~~~~~ 147 (149)
T PTZ00184 84 EEIKEAFKVFDRDGNGFISAAELRHVMTNLGEKLTDEEVDEMIREADVD-GDGQINYEEFVKMMM 147 (149)
T ss_pred HHHHHHHHhhCCCCCCeEeHHHHHHHHHHHCCCCCHHHHHHHHHhcCCC-CCCcCcHHHHHHHHh
Confidence 346788888878888899999998765 467788999999876 889999988876543
No 30
>PLN02964 phosphatidylserine decarboxylase
Probab=69.44 E-value=8.4 Score=46.18 Aligned_cols=59 Identities=14% Similarity=0.144 Sum_probs=49.6
Q ss_pred HHHHHHHhhcccCCCcceeeHhHHHhhc-------CHHHHHHHHHHhhhhhcccccchHhHHHHHHH
Q 004837 416 RNSAQRIFKNVAKPGAKFIEEEDLMRFL-------KRVEVHTIFPLFEGALETGRITKSSFRNWVVR 475 (728)
Q Consensus 416 ~~lAr~If~~~~~~g~~~I~~eDl~~f~-------~~eea~~af~lfd~~~~~g~Is~~el~~~vv~ 475 (728)
...++++|..+...|...|++++|..++ ++++..++|..||.+ .+|.|+.+||+..+..
T Consensus 178 ~~fi~~mf~~~D~DgdG~IdfdEFl~lL~~lg~~~seEEL~eaFk~fDkD-gdG~Is~dEL~~vL~~ 243 (644)
T PLN02964 178 RSFARRILAIVDYDEDGQLSFSEFSDLIKAFGNLVAANKKEELFKAADLN-GDGVVTIDELAALLAL 243 (644)
T ss_pred HHHHHHHHHHhCCCCCCeEcHHHHHHHHHHhccCCCHHHHHHHHHHhCCC-CCCcCCHHHHHHHHHh
Confidence 3458889988878888999999998755 356899999999987 9999999999887655
No 31
>KOG0028 consensus Ca2+-binding protein (centrin/caltractin), EF-Hand superfamily protein [Cytoskeleton; Cell cycle control, cell division, chromosome partitioning]
Probab=69.15 E-value=6.6 Score=38.88 Aligned_cols=54 Identities=26% Similarity=0.517 Sum_probs=43.5
Q ss_pred HHhhcccCCCcceeeHhHHHhhc--------CHHHHHHHHHHhhhhhcccccchHhHHHHHHH
Q 004837 421 RIFKNVAKPGAKFIEEEDLMRFL--------KRVEVHTIFPLFEGALETGRITKSSFRNWVVR 475 (728)
Q Consensus 421 ~If~~~~~~g~~~I~~eDl~~f~--------~~eea~~af~lfd~~~~~g~Is~~el~~~vv~ 475 (728)
++-.-+.+.|...|+.+||.+.+ +.+|+..+|.+||-+ .+|.|+..+|+....+
T Consensus 73 kll~d~dk~~~g~i~fe~f~~~mt~k~~e~dt~eEi~~afrl~D~D-~~Gkis~~~lkrvake 134 (172)
T KOG0028|consen 73 KLLADVDKEGSGKITFEDFRRVMTVKLGERDTKEEIKKAFRLFDDD-KTGKISQRNLKRVAKE 134 (172)
T ss_pred HHHHhhhhccCceechHHHHHHHHHHHhccCcHHHHHHHHHccccc-CCCCcCHHHHHHHHHH
Confidence 45555667888999999999875 367999999999955 9999999888775544
No 32
>TIGR01299 synapt_SV2 synaptic vesicle protein SV2. This model describes a tightly conserved subfamily of the larger family of sugar (and other) transporters described by pfam model pfam00083. Members of this subfamily include closely related forms SV2A and SV2B of synaptic vesicle protein from vertebrates and a more distantly related homolog (below trusted cutoff) from Drosophila melanogaster. Members are predicted to have two sets of six transmembrane helices.
Probab=68.44 E-value=36 Score=41.74 Aligned_cols=14 Identities=29% Similarity=0.202 Sum_probs=9.4
Q ss_pred CCCCCChhhhhhcc
Q 004837 104 STDDNDDEWDKELE 117 (728)
Q Consensus 104 ~~~~~d~~~~~~~~ 117 (728)
|.-|||||+|+-++
T Consensus 85 ~~~~~~~~~~~~~~ 98 (742)
T TIGR01299 85 EGHDEDDEIYEGEY 98 (742)
T ss_pred cCCCccchhhhccc
Confidence 44567777787765
No 33
>PTZ00184 calmodulin; Provisional
Probab=68.11 E-value=10 Score=35.28 Aligned_cols=57 Identities=18% Similarity=0.374 Sum_probs=45.9
Q ss_pred HHHHHhhcccCCCcceeeHhHHHhhcC--------HHHHHHHHHHhhhhhcccccchHhHHHHHHH
Q 004837 418 SAQRIFKNVAKPGAKFIEEEDLMRFLK--------RVEVHTIFPLFEGALETGRITKSSFRNWVVR 475 (728)
Q Consensus 418 lAr~If~~~~~~g~~~I~~eDl~~f~~--------~eea~~af~lfd~~~~~g~Is~~el~~~vv~ 475 (728)
..+++|..+...+...|+.+++..++. .+.+..+|..+|.+ ++|.|+++++...+..
T Consensus 48 ~~~~~~~~~d~~~~g~i~~~ef~~~l~~~~~~~~~~~~~~~~F~~~D~~-~~g~i~~~e~~~~l~~ 112 (149)
T PTZ00184 48 ELQDMINEVDADGNGTIDFPEFLTLMARKMKDTDSEEEIKEAFKVFDRD-GNGFISAAELRHVMTN 112 (149)
T ss_pred HHHHHHHhcCcCCCCcCcHHHHHHHHHHhccCCcHHHHHHHHHHhhCCC-CCCeEeHHHHHHHHHH
Confidence 467788888777788899999987543 24688999999976 8999999999887754
No 34
>KOG0034 consensus Ca2+/calmodulin-dependent protein phosphatase (calcineurin subunit B), EF-Hand superfamily protein [Signal transduction mechanisms]
Probab=67.23 E-value=8.8 Score=39.02 Aligned_cols=62 Identities=19% Similarity=0.309 Sum_probs=48.7
Q ss_pred HHHHHHhhcccCCCcce-eeHhHHHhhcC--------HHHHHHHHHHhhhhhcccccchHhHHHHHHHHHHH
Q 004837 417 NSAQRIFKNVAKPGAKF-IEEEDLMRFLK--------RVEVHTIFPLFEGALETGRITKSSFRNWVVRAYFE 479 (728)
Q Consensus 417 ~lAr~If~~~~~~g~~~-I~~eDl~~f~~--------~eea~~af~lfd~~~~~g~Is~~el~~~vv~~~~e 479 (728)
-++.+|+..+...+.+. |+++++.+.+. .+.+.-||.++|-. .+|.|+++++...+.....+
T Consensus 66 p~~~rI~~~f~~~~~~~~v~F~~Fv~~ls~f~~~~~~~~Kl~faF~vYD~~-~~G~I~reel~~iv~~~~~~ 136 (187)
T KOG0034|consen 66 PLADRIIDRFDTDGNGDPVDFEEFVRLLSVFSPKASKREKLRFAFRVYDLD-GDGFISREELKQILRMMVGE 136 (187)
T ss_pred cHHHHHHHHHhccCCCCccCHHHHHHHHhhhcCCccHHHHHHHHHHHhcCC-CCCcCcHHHHHHHHHHHHcc
Confidence 46788888876655555 99999998653 23688899999966 99999999999888776543
No 35
>PF13405 EF-hand_6: EF-hand domain; PDB: 2AMI_A 3QRX_A 1W7J_B 1OE9_B 1W7I_B 1KFU_S 1KFX_S 2BL0_B 1Y1X_B 3MSE_B ....
Probab=67.16 E-value=6.3 Score=27.61 Aligned_cols=26 Identities=19% Similarity=0.349 Sum_probs=21.1
Q ss_pred HHHHHHHhhhhhcccccchHhHHHHHH
Q 004837 448 VHTIFPLFEGALETGRITKSSFRNWVV 474 (728)
Q Consensus 448 a~~af~lfd~~~~~g~Is~~el~~~vv 474 (728)
..++|..+|.+ .+|.|+.+||...+.
T Consensus 2 l~~~F~~~D~d-~dG~I~~~el~~~l~ 27 (31)
T PF13405_consen 2 LREAFKMFDKD-GDGFIDFEELRAILR 27 (31)
T ss_dssp HHHHHHHH-TT-SSSEEEHHHHHHHHH
T ss_pred HHHHHHHHCCC-CCCcCcHHHHHHHHH
Confidence 45799999977 999999999988765
No 36
>PF14812 PBP1_TM: Transmembrane domain of transglycosylase PBP1 at N-terminal; PDB: 3FWL_A 3VMA_A.
Probab=66.62 E-value=0.61 Score=40.88 Aligned_cols=14 Identities=29% Similarity=0.541 Sum_probs=0.0
Q ss_pred CccchhccccchhH
Q 004837 118 DDAEDEDMGTESKQ 131 (728)
Q Consensus 118 ~~~~~~~~~~~~~~ 131 (728)
|..|+||.+.=|+-
T Consensus 43 D~dDdeeee~m~rK 56 (81)
T PF14812_consen 43 DDDDDEEEEPMPRK 56 (81)
T ss_dssp --------------
T ss_pred cccchhhccccccc
Confidence 44455777744444
No 37
>cd00252 SPARC_EC SPARC_EC; extracellular Ca2+ binding domain (containing 2 EF-hand motifs) of SPARC and related proteins (QR1, SC1/hevin, testican and tsc-36/FRP). SPARC (BM-40) is a multifunctional glycoprotein, a matricellular protein, that functions to regulate cell-matrix interactions; binds to such proteins as collagen and vitronectin and binds to endothelial cells thus inhibiting cellular proliferation. The EC domain interacts with a follistatin-like (FS) domain which appears to stabilize Ca2+ binding. The two EF-hands interact canonically but their conserved disulfide bonds confer a tight association between the EF-hand pair and an acid/amphiphilic N-terminal helix. Proposed active form involves a Ca2+ dependent symmetric homodimerization of EC-FS modules.
Probab=64.59 E-value=15 Score=34.43 Aligned_cols=60 Identities=10% Similarity=0.142 Sum_probs=49.6
Q ss_pred HHHHHHHHHHhhcccCCCcceeeHhHHHhh-cC--HHHHHHHHHHhhhhhcccccchHhHHHHH
Q 004837 413 WEARNSAQRIFKNVAKPGAKFIEEEDLMRF-LK--RVEVHTIFPLFEGALETGRITKSSFRNWV 473 (728)
Q Consensus 413 ~~A~~lAr~If~~~~~~g~~~I~~eDl~~f-~~--~eea~~af~lfd~~~~~g~Is~~el~~~v 473 (728)
...+.-+...|..+...+..+|+.++|..+ +. ...+...|..+|.+ .+|.||.+|+..-+
T Consensus 44 ~~~~~~l~w~F~~lD~d~DG~Ls~~EL~~~~l~~~e~~~~~f~~~~D~n-~Dg~IS~~Ef~~cl 106 (116)
T cd00252 44 PMCKDPVGWMFNQLDGNYDGKLSHHELAPIRLDPNEHCIKPFFESCDLD-KDGSISLDEWCYCF 106 (116)
T ss_pred HHHHHHHHHHHHHHCCCCCCcCCHHHHHHHHccchHHHHHHHHHHHCCC-CCCCCCHHHHHHHH
Confidence 345677889999998889999999999986 33 35678899999966 99999999988766
No 38
>COG5126 FRQ1 Ca2+-binding protein (EF-Hand superfamily) [Signal transduction mechanisms / Cytoskeleton / Cell division and chromosome partitioning / General function prediction only]
Probab=59.74 E-value=13 Score=36.84 Aligned_cols=55 Identities=24% Similarity=0.380 Sum_probs=44.9
Q ss_pred HHHHhhcccCCCcceeeHhHHHhhcC-------HHHHHHHHHHhhhhhcccccchHhHHHHHH
Q 004837 419 AQRIFKNVAKPGAKFIEEEDLMRFLK-------RVEVHTIFPLFEGALETGRITKSSFRNWVV 474 (728)
Q Consensus 419 Ar~If~~~~~~g~~~I~~eDl~~f~~-------~eea~~af~lfd~~~~~g~Is~~el~~~vv 474 (728)
.++.|+-+.+.+..+|..+++.++++ ++++++.+..+|.+ ++|.|+.++|+..+.
T Consensus 94 l~~aF~~fD~d~dG~Is~~eL~~vl~~lge~~~deev~~ll~~~d~d-~dG~i~~~eF~~~~~ 155 (160)
T COG5126 94 LREAFKLFDKDHDGYISIGELRRVLKSLGERLSDEEVEKLLKEYDED-GDGEIDYEEFKKLIK 155 (160)
T ss_pred HHHHHHHhCCCCCceecHHHHHHHHHhhcccCCHHHHHHHHHhcCCC-CCceEeHHHHHHHHh
Confidence 34445555677889999999999873 67899999999976 999999999887654
No 39
>PF13202 EF-hand_5: EF hand; PDB: 3DD4_A 2Q4U_A 2BE4_A 1UHJ_B 1UHI_A 1UHH_B 1EJ3_B 1UHK_A 2ZFD_A 1UHN_A ....
Probab=59.10 E-value=10 Score=25.65 Aligned_cols=23 Identities=22% Similarity=0.472 Sum_probs=19.4
Q ss_pred HHHHHHhhhhhcccccchHhHHHH
Q 004837 449 HTIFPLFEGALETGRITKSSFRNW 472 (728)
Q Consensus 449 ~~af~lfd~~~~~g~Is~~el~~~ 472 (728)
.++|..+|.+ ++|.|+.+|+...
T Consensus 2 ~~~F~~~D~d-~DG~is~~E~~~~ 24 (25)
T PF13202_consen 2 KDAFQQFDTD-GDGKISFEEFQRL 24 (25)
T ss_dssp HHHHHHHTTT-SSSEEEHHHHHHH
T ss_pred HHHHHHHcCC-CCCcCCHHHHHHH
Confidence 4689999976 9999999998763
No 40
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=58.85 E-value=15 Score=24.74 Aligned_cols=21 Identities=29% Similarity=0.495 Sum_probs=17.0
Q ss_pred CccCCCEEEE-----CCeEEEEEEEe
Q 004837 558 PFDIGDRCVI-----DGVQMVVEEMN 578 (728)
Q Consensus 558 PFdVGDrI~I-----dg~~G~VeeI~ 578 (728)
+|.+||.|.| .|..|.|.++.
T Consensus 1 ~~~~G~~V~I~~G~~~g~~g~i~~i~ 26 (28)
T smart00739 1 KFEVGDTVRVIAGPFKGKVGKVLEVD 26 (28)
T ss_pred CCCCCCEEEEeECCCCCcEEEEEEEc
Confidence 5789999999 35788888875
No 41
>PTZ00183 centrin; Provisional
Probab=58.57 E-value=21 Score=33.63 Aligned_cols=58 Identities=22% Similarity=0.449 Sum_probs=45.8
Q ss_pred HHHHHhhcccCCCcceeeHhHHHhhcC--------HHHHHHHHHHhhhhhcccccchHhHHHHHHHH
Q 004837 418 SAQRIFKNVAKPGAKFIEEEDLMRFLK--------RVEVHTIFPLFEGALETGRITKSSFRNWVVRA 476 (728)
Q Consensus 418 lAr~If~~~~~~g~~~I~~eDl~~f~~--------~eea~~af~lfd~~~~~g~Is~~el~~~vv~~ 476 (728)
.+..+|..+...+...|+.+++...+. .++...+|..+|.+ ++|.|+..+|...+...
T Consensus 54 ~~~~l~~~~d~~~~g~i~~~eF~~~~~~~~~~~~~~~~l~~~F~~~D~~-~~G~i~~~e~~~~l~~~ 119 (158)
T PTZ00183 54 EIKQMIADVDKDGSGKIDFEEFLDIMTKKLGERDPREEILKAFRLFDDD-KTGKISLKNLKRVAKEL 119 (158)
T ss_pred HHHHHHHHhCCCCCCcEeHHHHHHHHHHHhcCCCcHHHHHHHHHHhCCC-CCCcCcHHHHHHHHHHh
Confidence 366777777777788899999976542 35688999999976 99999999999887643
No 42
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=57.88 E-value=44 Score=31.12 Aligned_cols=38 Identities=16% Similarity=0.057 Sum_probs=26.7
Q ss_pred CccCCCEEEE-CCeEEEEEEEeeEEEEEEEeCCeEEEEe
Q 004837 558 PFDIGDRCVI-DGVQMVVEEMNILTTVFLRYDMEKIYYP 595 (728)
Q Consensus 558 PFdVGDrI~I-dg~~G~VeeI~LlsT~f~t~Dg~~V~IP 595 (728)
-.++||+|.. +|..|+|.+|+=-+.++...+|..+.+-
T Consensus 38 ~Lk~GD~VvT~gGi~G~V~~I~d~~v~leia~gv~i~~~ 76 (109)
T PRK05886 38 SLQPGDRVHTTSGLQATIVGITDDTVDLEIAPGVVTTWM 76 (109)
T ss_pred hcCCCCEEEECCCeEEEEEEEeCCEEEEEECCCeEEEEE
Confidence 4589999976 7899999999854444444456555543
No 43
>PF09279 EF-hand_like: Phosphoinositide-specific phospholipase C, efhand-like; InterPro: IPR015359 This domain is predominantly found in the enzyme phosphoinositol-specific phospholipase C. It adopts a structure consisting of a core of four alpha helices, in an EF like fold, and is required for functioning of the enzyme []. ; PDB: 3OHM_B 3QR0_A 2ZKM_X 2FJU_B 3QR1_D 1DJW_B 1DJI_B 1DJG_B 1QAS_B 2ISD_B ....
Probab=53.44 E-value=29 Score=29.80 Aligned_cols=53 Identities=21% Similarity=0.526 Sum_probs=38.7
Q ss_pred HHHhhcccCCCcceeeHhHHHhhcC---------HHHHHHHHHHhhhhh---cccccchHhHHHHH
Q 004837 420 QRIFKNVAKPGAKFIEEEDLMRFLK---------RVEVHTIFPLFEGAL---ETGRITKSSFRNWV 473 (728)
Q Consensus 420 r~If~~~~~~g~~~I~~eDl~~f~~---------~eea~~af~lfd~~~---~~g~Is~~el~~~v 473 (728)
+.||.+.+. ++.+++.++|..|+. .+++.+++.-|.... ..+.++.+.|.+.+
T Consensus 3 ~~if~~ys~-~~~~mt~~~f~~FL~~eQ~~~~~~~~~~~~li~~~~~~~~~~~~~~lt~~gF~~fL 67 (83)
T PF09279_consen 3 EEIFRKYSS-DKEYMTAEEFRRFLREEQGEPRLTDEQAKELIEKFEPDERNRQKGQLTLEGFTRFL 67 (83)
T ss_dssp HHHHHHHCT-TSSSEEHHHHHHHHHHTSS-TTSSHHHHHHHHHHHHHHHHHHCTTEEEHHHHHHHH
T ss_pred HHHHHHHhC-CCCcCCHHHHHHHHHHHhccccCcHHHHHHHHHHHccchhhcccCCcCHHHHHHHH
Confidence 578999966 889999999999994 345667776665432 35677777776655
No 44
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=51.66 E-value=34 Score=31.61 Aligned_cols=38 Identities=18% Similarity=0.130 Sum_probs=27.6
Q ss_pred CccCCCEEE-ECCeEEEEEEEeeEEEEEEEeCCeEEEEe
Q 004837 558 PFDIGDRCV-IDGVQMVVEEMNILTTVFLRYDMEKIYYP 595 (728)
Q Consensus 558 PFdVGDrI~-Idg~~G~VeeI~LlsT~f~t~Dg~~V~IP 595 (728)
-.++||+|. ++|..|+|.+++=-+.++...+|..+.+=
T Consensus 52 ~Lk~Gd~VvT~gGi~G~Vv~i~~~~v~lei~~g~~i~~~ 90 (106)
T PRK05585 52 SLAKGDEVVTNGGIIGKVTKVSEDFVIIELNDDTEIKIQ 90 (106)
T ss_pred hcCCCCEEEECCCeEEEEEEEeCCEEEEEECCCeEEEEE
Confidence 458999995 58999999999864444555567655543
No 45
>PF12763 EF-hand_4: Cytoskeletal-regulatory complex EF hand; PDB: 2QPT_A 2KSP_A 2KFG_A 2JQ6_A 2KFH_A 2KFF_A 1IQ3_A 3FIA_A 2KHN_A 2KGR_A ....
Probab=51.36 E-value=53 Score=30.22 Aligned_cols=60 Identities=17% Similarity=0.228 Sum_probs=47.5
Q ss_pred HHHHHHhhcccCCCcceeeHhHHHhhc-----CHHHHHHHHHHhhhhhcccccchHhHHHHHHHHHH
Q 004837 417 NSAQRIFKNVAKPGAKFIEEEDLMRFL-----KRVEVHTIFPLFEGALETGRITKSSFRNWVVRAYF 478 (728)
Q Consensus 417 ~lAr~If~~~~~~g~~~I~~eDl~~f~-----~~eea~~af~lfd~~~~~g~Is~~el~~~vv~~~~ 478 (728)
+--+.+|..+ .++...|+-++...|| +.+....++.+-|.+ .+|.++++||.-++-=++.
T Consensus 10 ~~y~~~F~~l-~~~~g~isg~~a~~~f~~S~L~~~~L~~IW~LaD~~-~dG~L~~~EF~iAm~Li~~ 74 (104)
T PF12763_consen 10 QKYDQIFQSL-DPQDGKISGDQAREFFMKSGLPRDVLAQIWNLADID-NDGKLDFEEFAIAMHLINR 74 (104)
T ss_dssp HHHHHHHHCT-SSSTTEEEHHHHHHHHHHTTSSHHHHHHHHHHH-SS-SSSEEEHHHHHHHHHHHHH
T ss_pred HHHHHHHHhc-CCCCCeEeHHHHHHHHHHcCCCHHHHHHHHhhhcCC-CCCcCCHHHHHHHHHHHHH
Confidence 3456889888 4677899999999987 367889999999976 9999999999876654443
No 46
>KOG0027 consensus Calmodulin and related proteins (EF-Hand superfamily) [Signal transduction mechanisms]
Probab=51.06 E-value=22 Score=34.20 Aligned_cols=56 Identities=18% Similarity=0.335 Sum_probs=45.8
Q ss_pred HHHHHHhhcccCCCcceeeHhHHHhhcC-------HHHHHHHHHHhhhhhcccccchHhHHHHH
Q 004837 417 NSAQRIFKNVAKPGAKFIEEEDLMRFLK-------RVEVHTIFPLFEGALETGRITKSSFRNWV 473 (728)
Q Consensus 417 ~lAr~If~~~~~~g~~~I~~eDl~~f~~-------~eea~~af~lfd~~~~~g~Is~~el~~~v 473 (728)
.-.+.+|+-+...|..+|+.++|..++. .++....+.-+|.+ ++|.|+.++|...+
T Consensus 85 ~el~eaF~~fD~d~~G~Is~~el~~~l~~lg~~~~~~e~~~mi~~~d~d-~dg~i~f~ef~~~m 147 (151)
T KOG0027|consen 85 EELKEAFRVFDKDGDGFISASELKKVLTSLGEKLTDEECKEMIREVDVD-GDGKVNFEEFVKMM 147 (151)
T ss_pred HHHHHHHHHHccCCCCcCcHHHHHHHHHHhCCcCCHHHHHHHHHhcCCC-CCCeEeHHHHHHHH
Confidence 3466777777788999999999999873 56899999999976 99999887776644
No 47
>TIGR00739 yajC preprotein translocase, YajC subunit. While this protein is part of the preprotein translocase in Escherichia coli, it is not essential for viability or protein secretion. The N-terminus region contains a predicted membrane-spanning region followed by a region consisting almost entirely of residues with charged (acidic, basic, or zwitterionic) side chains. This small protein is about 100 residues in length, and is restricted to bacteria; however, this protein is absent from some lineages, including spirochetes and Mycoplasmas.
Probab=45.40 E-value=64 Score=28.55 Aligned_cols=37 Identities=22% Similarity=0.291 Sum_probs=26.5
Q ss_pred CccCCCEEEE-CCeEEEEEEEeeEEEEEEEeCCeEEEE
Q 004837 558 PFDIGDRCVI-DGVQMVVEEMNILTTVFLRYDMEKIYY 594 (728)
Q Consensus 558 PFdVGDrI~I-dg~~G~VeeI~LlsT~f~t~Dg~~V~I 594 (728)
-..+||+|.. +|..|+|.+++=-+-++...+|..+.+
T Consensus 37 ~L~~Gd~VvT~gGi~G~V~~i~d~~v~vei~~g~~i~~ 74 (84)
T TIGR00739 37 SLKKGDKVLTIGGIIGTVTKIAENTIVIELNDNTEITF 74 (84)
T ss_pred hCCCCCEEEECCCeEEEEEEEeCCEEEEEECCCeEEEE
Confidence 4589999977 689999999985444555555555544
No 48
>COG1862 YajC Preprotein translocase subunit YajC [Intracellular trafficking and secretion]
Probab=39.61 E-value=1.2e+02 Score=27.79 Aligned_cols=37 Identities=24% Similarity=0.198 Sum_probs=26.7
Q ss_pred ccCCCEEEE-CCeEEEEEEEeeEEEEEEEeCCeEEEEe
Q 004837 559 FDIGDRCVI-DGVQMVVEEMNILTTVFLRYDMEKIYYP 595 (728)
Q Consensus 559 FdVGDrI~I-dg~~G~VeeI~LlsT~f~t~Dg~~V~IP 595 (728)
...||.|.. +|..|+|.+|+=-+-++.-.||..+.+-
T Consensus 44 L~kGD~VvT~gGi~G~V~~v~d~~v~I~l~~~~~i~~~ 81 (97)
T COG1862 44 LKKGDEVVTIGGIVGTVTKVGDDTVEIELGDGTKIKFE 81 (97)
T ss_pred ccCCCEEEEcCCeEEEEEEEecCcEEEEECCCeEEEEE
Confidence 579999976 6799999999865544444466665543
No 49
>PF09926 DUF2158: Uncharacterized small protein (DUF2158); InterPro: IPR019226 This entry represents a family of predominantly prokaryotic proteins with no known function.
Probab=39.36 E-value=27 Score=28.27 Aligned_cols=20 Identities=40% Similarity=0.695 Sum_probs=17.6
Q ss_pred ccCCCEEEE--CCeEEEEEEEe
Q 004837 559 FDIGDRCVI--DGVQMVVEEMN 578 (728)
Q Consensus 559 FdVGDrI~I--dg~~G~VeeI~ 578 (728)
|.+||.|.. +|-.|+|.+++
T Consensus 1 f~~GDvV~LKSGGp~MTV~~v~ 22 (53)
T PF09926_consen 1 FKIGDVVQLKSGGPRMTVTEVG 22 (53)
T ss_pred CCCCCEEEEccCCCCeEEEEcc
Confidence 789999999 68999999874
No 50
>smart00054 EFh EF-hand, calcium binding motif. EF-hands are calcium-binding motifs that occur at least in pairs. Links between disease states and genes encoding EF-hands, particularly the S100 subclass, are emerging. Each motif consists of a 12 residue loop flanked on either side by a 12 residue alpha-helix. EF-hands undergo a conformational change unpon binding calcium ions.
Probab=38.05 E-value=31 Score=21.66 Aligned_cols=26 Identities=23% Similarity=0.524 Sum_probs=18.8
Q ss_pred HHHHHHHhhhhhcccccchHhHHHHHH
Q 004837 448 VHTIFPLFEGALETGRITKSSFRNWVV 474 (728)
Q Consensus 448 a~~af~lfd~~~~~g~Is~~el~~~vv 474 (728)
...+|..+|.. .+|.|+..++...+.
T Consensus 2 ~~~~f~~~d~~-~~g~i~~~e~~~~~~ 27 (29)
T smart00054 2 LKEAFRLFDKD-GDGKIDFEEFKDLLK 27 (29)
T ss_pred HHHHHHHHCCC-CCCcEeHHHHHHHHH
Confidence 34678888865 778888888776653
No 51
>PF10003 DUF2244: Integral membrane protein (DUF2244); InterPro: IPR019253 This entry consists of various bacterial putative membrane proteins with no known function.
Probab=37.43 E-value=1.9e+02 Score=27.87 Aligned_cols=58 Identities=10% Similarity=0.222 Sum_probs=35.9
Q ss_pred HHHHHHHhhcccchhHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCCccCCCEEEECCeEEEEEEEe
Q 004837 508 VIIVVSLLVMELATTKVVFFVLTQLVLVGFMFQNTCKMVFESIVFIFVMHPFDIGDRCVIDGVQMVVEEMN 578 (728)
Q Consensus 508 I~iii~L~ilgv~~t~lla~~gs~~LalgFafq~tl~nvf~SgIfLfv~hPFdVGDrI~Idg~~G~VeeI~ 578 (728)
+.+++.+..+......++.++|.-.++++++|.-.... -+..+.|.+++....|.+.+
T Consensus 22 ~~~~~a~~f~~~GaW~Vl~F~glev~~l~~a~~~~~r~-------------~~~~E~I~l~~~~~~~~~~~ 79 (140)
T PF10003_consen 22 VSLIIAIAFLLMGAWPVLPFAGLEVLALWYAFRRNYRH-------------ARDYERITLSPDDLLVVRVD 79 (140)
T ss_pred HHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHhh-------------CcCcEEEEEeCCeeEEEEEc
Confidence 33333344444444666777777777777666554443 45678899988777777765
No 52
>PF13499 EF-hand_7: EF-hand domain pair; PDB: 1TCF_A 2TN4_A 1TN4_A 1A2X_A 2CT9_B 2OTG_B 2OS8_B 1SNL_A 3O4Y_A 3J04_E ....
Probab=37.37 E-value=34 Score=27.63 Aligned_cols=31 Identities=19% Similarity=0.277 Sum_probs=25.9
Q ss_pred HHHHHHHhhhhhcccccchHhHHHHHHHHHHH
Q 004837 448 VHTIFPLFEGALETGRITKSSFRNWVVRAYFE 479 (728)
Q Consensus 448 a~~af~lfd~~~~~g~Is~~el~~~vv~~~~e 479 (728)
..++|..+|.+ .+|.|+.++|..++......
T Consensus 2 l~~~F~~~D~d-~~G~i~~~el~~~~~~~~~~ 32 (66)
T PF13499_consen 2 LKEAFKKFDKD-GDGYISKEELRRALKHLGRD 32 (66)
T ss_dssp HHHHHHHHSTT-SSSEEEHHHHHHHHHHTTSH
T ss_pred HHHHHHHHcCC-ccCCCCHHHHHHHHHHhccc
Confidence 35799999977 99999999999988776543
No 53
>COG5346 Predicted membrane protein [Function unknown]
Probab=35.99 E-value=1.8e+02 Score=27.74 Aligned_cols=14 Identities=7% Similarity=-0.047 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHhh
Q 004837 527 FVLTQLVLVGFMFQ 540 (728)
Q Consensus 527 ~~gs~~LalgFafq 540 (728)
+.++..+|++|.++
T Consensus 115 ~Gtv~alAlaFv~~ 128 (136)
T COG5346 115 GGTVFALALAFVIG 128 (136)
T ss_pred cchHHHHHHHHHHh
Confidence 33444555555554
No 54
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=35.48 E-value=41 Score=42.66 Aligned_cols=6 Identities=50% Similarity=0.534 Sum_probs=2.9
Q ss_pred HHHHhh
Q 004837 301 YILETL 306 (728)
Q Consensus 301 ~~L~~L 306 (728)
..|+.|
T Consensus 1895 raleal 1900 (3015)
T KOG0943|consen 1895 RALEAL 1900 (3015)
T ss_pred HHHHHH
Confidence 345555
No 55
>cd04466 S1_YloQ_GTPase S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of three domains: an N-terminal S1 domain, a central GTPase domain, and a C-terminal zinc finger domain. This N-terminal S1 domain binds ssRNA. The central GTPase domain contains nucleotide-binding signature motifs: G1 (walker A), G3 (walker B) and G4 motifs. Experiments show that the bacterial YloQ and YjeQ proteins have low intrinsic GTPase activity. The C-terminal zinc-finger domain has structural similarity to a portion of the DNA-repair protein Rad51. This suggests a possible role for this GTPase as a regulator of translation, perhaps as a translation initiation factor. This family is classified based on the N-terminal S1 domain.
Probab=34.23 E-value=52 Score=26.91 Aligned_cols=29 Identities=24% Similarity=0.417 Sum_probs=21.4
Q ss_pred CCccCCCEEEEC---CeEEEEEEEeeEEEEEE
Q 004837 557 HPFDIGDRCVID---GVQMVVEEMNILTTVFL 585 (728)
Q Consensus 557 hPFdVGDrI~Id---g~~G~VeeI~LlsT~f~ 585 (728)
.+.-|||||.++ +..+.|+++--+.|.|.
T Consensus 36 ~~~~VGD~V~~~~~~~~~~~I~~vl~R~s~l~ 67 (68)
T cd04466 36 NPPAVGDRVEFEPEDDGEGVIEEILPRKNLLI 67 (68)
T ss_pred CCCCCCcEEEEEECCCCcEEEEEEeccceEEE
Confidence 446899999874 45678888877777664
No 56
>PF00467 KOW: KOW motif; InterPro: IPR005824 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The KOW (Kyprides, Ouzounis, Woese) motif is found in a variety of ribosomal proteins and the bacterial transcription antitermination proteins NusG []. ; PDB: 3BBO_W 2HGJ_X 2HGQ_X 2HGU_X 1NPP_B 1M1G_D 1NPR_A 2XHC_A 2KVQ_G 2JVV_A ....
Probab=34.07 E-value=66 Score=22.92 Aligned_cols=18 Identities=22% Similarity=0.434 Sum_probs=15.8
Q ss_pred CCCEEEE-----CCeEEEEEEEe
Q 004837 561 IGDRCVI-----DGVQMVVEEMN 578 (728)
Q Consensus 561 VGDrI~I-----dg~~G~VeeI~ 578 (728)
+||+|.| .|..|.|.+|.
T Consensus 1 ~Gd~V~V~~G~~~G~~G~I~~i~ 23 (32)
T PF00467_consen 1 VGDTVKVISGPFKGKIGKIVEID 23 (32)
T ss_dssp TTSEEEESSSTTTTEEEEEEEEE
T ss_pred CCCEEEEeEcCCCCceEEEEEEE
Confidence 6999999 57999999986
No 57
>PF14801 GCD14_N: tRNA methyltransferase complex GCD14 subunit N-term; PDB: 1I9G_A.
Probab=33.76 E-value=22 Score=28.91 Aligned_cols=18 Identities=28% Similarity=0.409 Sum_probs=9.4
Q ss_pred cCCccCCCEEEECCeEEE
Q 004837 556 MHPFDIGDRCVIDGVQMV 573 (728)
Q Consensus 556 ~hPFdVGDrI~Idg~~G~ 573 (728)
..||+.||||++-+..|.
T Consensus 3 ~Gpf~~GdrVQlTD~Kgr 20 (54)
T PF14801_consen 3 RGPFRAGDRVQLTDPKGR 20 (54)
T ss_dssp --S--TT-EEEEEETT--
T ss_pred cCCCCCCCEEEEccCCCC
Confidence 369999999999765554
No 58
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=33.71 E-value=1.4e+02 Score=29.70 Aligned_cols=8 Identities=25% Similarity=0.326 Sum_probs=3.1
Q ss_pred HHHHHHHH
Q 004837 529 LTQLVLVG 536 (728)
Q Consensus 529 gs~~Lalg 536 (728)
|.+++|+|
T Consensus 42 g~~~lAlg 49 (191)
T PF04156_consen 42 GIALLALG 49 (191)
T ss_pred HHHHHHHH
Confidence 33334433
No 59
>PF09953 DUF2187: Uncharacterized protein conserved in bacteria (DUF2187); InterPro: IPR018690 This family consists of various hypothetical bacterial proteins with known function. It includes the uncharacterised YkvS protein from Bacillus subtilis.
Probab=32.18 E-value=54 Score=27.09 Aligned_cols=20 Identities=30% Similarity=0.461 Sum_probs=17.0
Q ss_pred ccCCCEEEE-CCeEEEEEEEe
Q 004837 559 FDIGDRCVI-DGVQMVVEEMN 578 (728)
Q Consensus 559 FdVGDrI~I-dg~~G~VeeI~ 578 (728)
-+|||.|++ +|.+|.|+.+.
T Consensus 4 a~vGdiIefk~g~~G~V~kv~ 24 (57)
T PF09953_consen 4 AKVGDIIEFKDGFTGIVEKVY 24 (57)
T ss_pred cccCcEEEEcCCcEEEEEEEe
Confidence 479999999 67899998876
No 60
>KOG3817 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.57 E-value=52 Score=36.60 Aligned_cols=118 Identities=18% Similarity=0.240 Sum_probs=69.6
Q ss_pred cceechhhHHHHHHHH---HHHHhcchhh---------hhhheeeeeEEeecccee-----eeeeEE---------eeee
Q 004837 168 IERKWGLEIWKWCLMV---MVTFCGRLVS---------AWVMGFAVFLIERNFMLR-----EKVLYF---------VYGL 221 (728)
Q Consensus 168 ~~~~w~l~lwkW~~~~---~v~~~Grlvs---------~w~v~~~v~~ie~nfllr-----k~vlYf---------v~gl 221 (728)
-..+|.+.+|+..+++ +..||||.+| |.+++++.+++--.|+.+ |...|- +|-+
T Consensus 129 ~i~i~r~d~krflvfv~gi~Lff~ar~Lsrn~vFYYssG~v~GilaSLl~Viflv~rf~PKkt~~~~iliGgWs~slY~i 208 (452)
T KOG3817|consen 129 IINIIRLDLKRFLVFVVGILLFFSARRLSRNSVFYYSSGIVIGILASLLVVIFLVARFFPKKTMMYGILIGGWSISLYVI 208 (452)
T ss_pred EEEEEeccHHHHHHHHHHHHHHHHHHHhccCceEEEecccHHHHHHHHHHHHHHHHHhcccccceEEEEEccchhHHHHH
Confidence 3568999999977765 4678999885 666666655544444433 333332 2444
Q ss_pred chhhHHHHHHH-------------HHHHHhHHHhhccc---cchhHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHhh
Q 004837 222 RNSIRNCMWLG-------------LVLLAWTCIFNEKL---HKKNKILEKVFQALVAVLLGATIWLIKIV---LVKVLAS 282 (728)
Q Consensus 222 rk~v~~~~W~~-------------~~l~~w~~l~~~~~---~~~~~~l~~v~kvl~~~~~~~~~~l~k~~---lvk~ia~ 282 (728)
+....|.=|+- .-++++..-..+++ +|+...+-++.+.++.+|+-+.++..+.. +|+++..
T Consensus 209 ~ql~~nLq~Iwieyr~yvLgYvlivgliSfaVCYK~GPp~d~RS~~ilmWtLqli~lvl~Yfsvq~p~~a~A~iI~~lc~ 288 (452)
T KOG3817|consen 209 KQLADNLQLIWIEYRDYVLGYVLIVGLISFAVCYKIGPPKDPRSQTILMWTLQLIGLVLAYFSVQHPSAAIAAIIMVLCF 288 (452)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCCcchhhHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence 44443333321 11222332222333 35556888889999988888877766643 5677766
Q ss_pred ccc
Q 004837 283 SFH 285 (728)
Q Consensus 283 sfH 285 (728)
.+|
T Consensus 289 ~~l 291 (452)
T KOG3817|consen 289 VAL 291 (452)
T ss_pred HHH
Confidence 555
No 61
>COG4873 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.18 E-value=44 Score=28.30 Aligned_cols=41 Identities=24% Similarity=0.283 Sum_probs=27.6
Q ss_pred HHhhhhHHHHHHHHHHhhhcCCccCCCEEEE-CCeEEEEEEEeeEE
Q 004837 537 FMFQNTCKMVFESIVFIFVMHPFDIGDRCVI-DGVQMVVEEMNILT 581 (728)
Q Consensus 537 Fafq~tl~nvf~SgIfLfv~hPFdVGDrI~I-dg~~G~VeeI~Lls 581 (728)
|.+++..-. +...+ .+.--.|||.|+. ||..|.|++++=-+
T Consensus 6 ~~~~~a~~~-~~~~~---~m~~a~vgniief~dgl~g~vek~nens 47 (81)
T COG4873 6 KYFQKALLC-LKERK---LMKIAKVGNIIEFKDGLTGVVEKVNENS 47 (81)
T ss_pred HHHHhhhhh-hceee---EeeeeeccceEEEcccceeeeeeecCCc
Confidence 455554444 33322 3445679999998 79999999987544
No 62
>PF08566 Pam17: Mitochondrial import protein Pam17; InterPro: IPR013875 The presequence translocase-associated motor (PAM) drives the completion of preprotein translocation into the mitochondrial matrix. The Pam17 subunit is required for formation of a stable complex between cochaperones Pam16 and Pam18 and promotes the association of Pam16-Pam18 with the presequence translocase []. Mitochondria lacking Pam17 are selectively impaired in the import of matrix proteins [].
Probab=30.08 E-value=1.6e+02 Score=29.73 Aligned_cols=32 Identities=13% Similarity=0.060 Sum_probs=26.5
Q ss_pred hcccchhHHHHHHHHHHHHHHHHhhhhHHHHH
Q 004837 516 VMELATTKVVFFVLTQLVLVGFMFQNTCKMVF 547 (728)
Q Consensus 516 ilgv~~t~lla~~gs~~LalgFafq~tl~nvf 547 (728)
++|++.--++..++.+..++||.+|.++.|.+
T Consensus 71 I~GlDP~~~~g~~t~a~g~lG~L~GP~~G~~v 102 (173)
T PF08566_consen 71 IMGLDPFMVYGLATLACGALGWLVGPSLGNQV 102 (173)
T ss_pred ccCcCHHHHHHHHHHHHHHHHHHhcchHHHHH
Confidence 56888877777888888999999999988843
No 63
>PF09026 CENP-B_dimeris: Centromere protein B dimerisation domain; InterPro: IPR015115 Centromere protein B (CENP-B) interacts with centromeric heterochromatin in chromosomes and binds to a specific subset of alphoid satellite DNA, called the CENP-B box. CENP-B may organise arrays of centromere satellite DNA into a higher order structure, which then directs centromere formation and kinetochore assembly in mammalian chromosomes. The CENP-B dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation []. ; GO: 0003677 DNA binding, 0003682 chromatin binding, 0006355 regulation of transcription, DNA-dependent, 0000775 chromosome, centromeric region, 0005634 nucleus; PDB: 1UFI_A.
Probab=29.96 E-value=18 Score=32.77 Aligned_cols=10 Identities=0% Similarity=-0.300 Sum_probs=1.9
Q ss_pred cccchhHHHH
Q 004837 125 MGTESKQQRK 134 (728)
Q Consensus 125 ~~~~~~~~~~ 134 (728)
..-.|+|-..
T Consensus 40 e~p~p~fgea 49 (101)
T PF09026_consen 40 EVPVPEFGEA 49 (101)
T ss_dssp ------HHHH
T ss_pred cccchhHHHH
Confidence 3335666443
No 64
>PRK11281 hypothetical protein; Provisional
Probab=27.76 E-value=58 Score=41.77 Aligned_cols=76 Identities=9% Similarity=0.151 Sum_probs=43.9
Q ss_pred ecccccceechh-------------hHHHHHHHHHHHHhcchhhhhhheeeeeEEeeccceeeeeeEEeeeechhhHHHH
Q 004837 163 IKSIKIERKWGL-------------EIWKWCLMVMVTFCGRLVSAWVMGFAVFLIERNFMLREKVLYFVYGLRNSIRNCM 229 (728)
Q Consensus 163 i~~~~~~~~w~l-------------~lwkW~~~~~v~~~Grlvs~w~v~~~v~~ie~nfllrk~vlYfv~glrk~v~~~~ 229 (728)
++-+++.++|+. .+++-...+++++.|.+++.++-+++-.++..+..+.....|+ +++-+...+
T Consensus 810 ~~~l~~i~l~~~~~~~~~~~~~~~itl~~Ll~allIl~i~~~l~r~l~~ll~~~~~~rl~l~~~~~~~---i~~li~y~I 886 (1113)
T PRK11281 810 FSYLDSITLWHYTTTTAGGAVVESITLGNLLFALIILVVTYVLVRNLPGLLEVLVLSRLNLRQGTSYA---ITTLLTYII 886 (1113)
T ss_pred HHHhcCcchhhhccccccccceeeeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCchHHHH---HHHHHHHHH
Confidence 344667777763 4566666666777777666665544322222233333333333 456666778
Q ss_pred HHHHHHHHhHHH
Q 004837 230 WLGLVLLAWTCI 241 (728)
Q Consensus 230 W~~~~l~~w~~l 241 (728)
|+..+++++..+
T Consensus 887 ~~i~iliaL~~l 898 (1113)
T PRK11281 887 IAVGAVTAFSTL 898 (1113)
T ss_pred HHHHHHHHHHHc
Confidence 888777777655
No 65
>PRK12585 putative monovalent cation/H+ antiporter subunit G; Reviewed
Probab=26.57 E-value=1.7e+02 Score=29.96 Aligned_cols=12 Identities=33% Similarity=0.880 Sum_probs=8.7
Q ss_pred HHHHHHhhhcCC
Q 004837 547 FESIVFIFVMHP 558 (728)
Q Consensus 547 f~SgIfLfv~hP 558 (728)
+..++|++++-|
T Consensus 71 LLiIvFllLTaP 82 (197)
T PRK12585 71 LLAVLFIFLTTP 82 (197)
T ss_pred HHHHHHHHHHHH
Confidence 556778888776
No 66
>PRK10929 putative mechanosensitive channel protein; Provisional
Probab=26.47 E-value=62 Score=41.49 Aligned_cols=74 Identities=9% Similarity=0.098 Sum_probs=42.7
Q ss_pred ccccceech-------------hhHHHHHHHHHHHHhcchhhhhhheeeeeEEeeccceeeeeeEEeeeechhhHHHHHH
Q 004837 165 SIKIERKWG-------------LEIWKWCLMVMVTFCGRLVSAWVMGFAVFLIERNFMLREKVLYFVYGLRNSIRNCMWL 231 (728)
Q Consensus 165 ~~~~~~~w~-------------l~lwkW~~~~~v~~~Grlvs~w~v~~~v~~ie~nfllrk~vlYfv~glrk~v~~~~W~ 231 (728)
-|.+.++|. +.++.-.+.+++++.|+.++.|+-+++-..+.+...+....-|| +.+-+...+|+
T Consensus 809 ~Ld~i~LW~~t~~~~g~~~~~~itl~~ll~AllIliv~~~l~r~l~~lle~~l~~~~~l~~~~~~~---i~~l~~y~I~~ 885 (1109)
T PRK10929 809 FLENISLWDVTSTVQGVESLQPITLGSVLIAILVFIITTQLVRNLPALLELALLQHLDLTPGTGYA---ITTITKYLLML 885 (1109)
T ss_pred HhcceeEEeeeceeccccceeeeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCChhHHHH---HHHHHHHHHHH
Confidence 367888885 55678888888888888887777666532221211112222233 33444556666
Q ss_pred HHHHHHhHHH
Q 004837 232 GLVLLAWTCI 241 (728)
Q Consensus 232 ~~~l~~w~~l 241 (728)
+.++++...+
T Consensus 886 ig~l~~L~~l 895 (1109)
T PRK10929 886 IGGLVGFSMI 895 (1109)
T ss_pred HHHHHHHHHc
Confidence 6666655554
No 67
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=26.26 E-value=86 Score=39.80 Aligned_cols=43 Identities=16% Similarity=0.236 Sum_probs=32.2
Q ss_pred CCccCCCEEEE----------CCeEEEEEEEeeEEEEEEEeCCeEEEEeCccc
Q 004837 557 HPFDIGDRCVI----------DGVQMVVEEMNILTTVFLRYDMEKIYYPNAVL 599 (728)
Q Consensus 557 hPFdVGDrI~I----------dg~~G~VeeI~LlsT~f~t~Dg~~V~IPNS~L 599 (728)
+.|.+||+|.. ||..|+|++|+=-.-+++..||+.|.+|...+
T Consensus 599 r~~~vGDrVm~~rNd~~lgV~NGd~GtV~~I~~~~i~V~~d~gr~V~~~~~~~ 651 (988)
T PRK13889 599 RSFASGDRVMFLQNERGLGVKNGTLGTIEQVSAQSMSVRLDDGRSVAFDLKDY 651 (988)
T ss_pred ccccCCCEEEEeecCCcCCEeCCCeEEEEEecCCeEEEEECCCeEEEecHHHc
Confidence 57999999986 67899999997654445555678888876544
No 68
>PRK06531 yajC preprotein translocase subunit YajC; Validated
Probab=26.03 E-value=1.8e+02 Score=27.37 Aligned_cols=41 Identities=27% Similarity=0.373 Sum_probs=27.0
Q ss_pred ccCCCEEE-ECCeEEEEEEEeeE-EEEEEEeCCeEEEEeCccc
Q 004837 559 FDIGDRCV-IDGVQMVVEEMNIL-TTVFLRYDMEKIYYPNAVL 599 (728)
Q Consensus 559 FdVGDrI~-Idg~~G~VeeI~Ll-sT~f~t~Dg~~V~IPNS~L 599 (728)
.++||+|. ++|..|+|.+|+-- .|+....+|..+.+--+.+
T Consensus 37 Lk~GD~VvT~GGi~G~V~~I~~~~~~v~le~~gv~i~v~r~AI 79 (113)
T PRK06531 37 IQKGDEVVTIGGLYGTVDEVDTEAKTIVLDVDGVYLTFELAAI 79 (113)
T ss_pred cCCCCEEEECCCcEEEEEEEecCCCEEEEEECCEEEEEEhhHh
Confidence 57999997 58899999999852 2332223676665544433
No 69
>PRK12281 rplX 50S ribosomal protein L24; Reviewed
Probab=25.70 E-value=82 Score=27.39 Aligned_cols=22 Identities=18% Similarity=0.089 Sum_probs=18.7
Q ss_pred CccCCCEEEE-----CCeEEEEEEEee
Q 004837 558 PFDIGDRCVI-----DGVQMVVEEMNI 579 (728)
Q Consensus 558 PFdVGDrI~I-----dg~~G~VeeI~L 579 (728)
+++.||+|.| -|..|.|.+|..
T Consensus 6 ~I~kGD~V~Vi~G~dKGK~G~V~~V~~ 32 (76)
T PRK12281 6 KVKKGDMVKVIAGDDKGKTGKVLAVLP 32 (76)
T ss_pred cccCCCEEEEeEcCCCCcEEEEEEEEc
Confidence 7899999998 368899999864
No 70
>PF02559 CarD_CdnL_TRCF: CarD-like/TRCF domain; InterPro: IPR003711 The bacterium Myxococcus xanthus responds to blue light by producing carotenoids. It also responds to starvation conditions by developing fruiting bodies, where the cells differentiate into myxospores. Each response entails the transcriptional activation of a separate set of genes. A single gene, carD, is required for the activation of both light- and starvation-inducible genes []. The predicted protein contains four repeats of a DNA-binding domain present in mammalian high mobility group I(Y) proteins and other nuclear proteins from animals and plants. Other peptide stretches on CarD also resemble functional domains typical of eukaryotic transcription factors, including a very acidic region and a leucine zipper. High mobility group yI(Y) proteins are known to bind the minor groove of A+T-rich DNA [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3MLQ_H 2EYQ_A.
Probab=25.62 E-value=1.9e+02 Score=25.72 Aligned_cols=42 Identities=26% Similarity=0.244 Sum_probs=26.3
Q ss_pred ccCCCEEEECC-eEEEEEEEeeEE--------EEEEEeCCeEEEEeCcccc
Q 004837 559 FDIGDRCVIDG-VQMVVEEMNILT--------TVFLRYDMEKIYYPNAVLL 600 (728)
Q Consensus 559 FdVGDrI~Idg-~~G~VeeI~Lls--------T~f~t~Dg~~V~IPNS~L~ 600 (728)
|++||.|.=.+ =-|.|++|.-.. -++.-.+|..+++|=..+.
T Consensus 2 f~~GD~VVh~~~Gv~~i~~i~~~~~~~~~~~yy~L~~~~~~~i~vPv~~~~ 52 (98)
T PF02559_consen 2 FKIGDYVVHPNHGVGRIEGIEEIEFGGEKQEYYVLEYADDDTIYVPVDNAD 52 (98)
T ss_dssp --TTSEEEETTTEEEEEEEEEEEECTTEEEEEEEEEECCCEEEEEECCCGG
T ss_pred CCCCCEEEECCCceEEEEEEEEEeeCCeeEEEEEEEECCCCEEEEEcCChh
Confidence 78999998864 246666555443 3445555668999977644
No 71
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA. This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Probab=25.22 E-value=87 Score=38.51 Aligned_cols=43 Identities=30% Similarity=0.317 Sum_probs=32.1
Q ss_pred CCccCCCEEEE----------CCeEEEEEEEeeEEEEEEEeCCeEEEEeCccc
Q 004837 557 HPFDIGDRCVI----------DGVQMVVEEMNILTTVFLRYDMEKIYYPNAVL 599 (728)
Q Consensus 557 hPFdVGDrI~I----------dg~~G~VeeI~LlsT~f~t~Dg~~V~IPNS~L 599 (728)
..|.+||+|.. ||..|+|.+|+=-..+++-.+|+.+.+|...+
T Consensus 606 ~~~~~GDrV~~~~N~~~~gv~NGd~g~V~~i~~~~i~v~~~~G~~v~~~~~~~ 658 (744)
T TIGR02768 606 RKFAAGDRIVFLENNRDLGVKNGMLGTVEEIEDGRLVVQLDSGELVIIPQAEY 658 (744)
T ss_pred ceecCCCEEEEEecccccCCcCCCEEEEEEecCCeEEEEECCCCEEEECHHHh
Confidence 58999999987 56889999987544445555678888886554
No 72
>KOG0031 consensus Myosin regulatory light chain, EF-Hand protein superfamily [Cytoskeleton]
Probab=25.12 E-value=2e+02 Score=28.68 Aligned_cols=57 Identities=19% Similarity=0.274 Sum_probs=39.7
Q ss_pred HHHHHHHhhcccCCCcceeeHhHHHhhc-------CHHHHHHHHHHhhhhhcccccchHhHHHHH
Q 004837 416 RNSAQRIFKNVAKPGAKFIEEEDLMRFL-------KRVEVHTIFPLFEGALETGRITKSSFRNWV 473 (728)
Q Consensus 416 ~~lAr~If~~~~~~g~~~I~~eDl~~f~-------~~eea~~af~lfd~~~~~g~Is~~el~~~v 473 (728)
+..-...|..|...|+..|..+.|.+.+ .++|++.+|..+-.+ .+|.|..++|...+
T Consensus 100 e~~I~~AF~~FD~~~~G~I~~d~lre~Ltt~gDr~~~eEV~~m~r~~p~d-~~G~~dy~~~~~~i 163 (171)
T KOG0031|consen 100 EEVILNAFKTFDDEGSGKIDEDYLRELLTTMGDRFTDEEVDEMYREAPID-KKGNFDYKAFTYII 163 (171)
T ss_pred HHHHHHHHHhcCccCCCccCHHHHHHHHHHhcccCCHHHHHHHHHhCCcc-cCCceeHHHHHHHH
Confidence 3344455666666777788888887754 367888888877654 78888887776654
No 73
>cd05026 S-100Z S-100Z: S-100Z domain found in proteins similar to S100Z. S100Z is a member of the S100 domain family within the EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100Z group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately.S100 proteins exhibit unique patterns of tissue- and cell type-specific expression and have been implicated in the Ca2+-dependent regulation of diverse physiological processes, including cell cycle regulation, differentiation, growth, and metabolic control. S100Z is normally expressed in various tissues, with its highest level of expression being in spleen and leukocytes. The function of S100Z remains unclear. Preliminary structural data suggests that S100Z is homodimer, however a heterodimer with S100P has been reported. S100Z is capable of binding calcium ions. When calcium binds to S110Z, the protein experiences a conformational change, which exposes hydrophobic surfac
Probab=24.96 E-value=93 Score=27.60 Aligned_cols=31 Identities=16% Similarity=0.334 Sum_probs=23.9
Q ss_pred HHHHHHHHHhhhhhccc-ccchHhHHHHHHHH
Q 004837 446 VEVHTIFPLFEGALETG-RITKSSFRNWVVRA 476 (728)
Q Consensus 446 eea~~af~lfd~~~~~g-~Is~~el~~~vv~~ 476 (728)
.++.++|..||..+++| .|+.+||+..+.+.
T Consensus 10 ~~~~~~F~~~dd~dgdg~~Is~~EL~~ll~~~ 41 (93)
T cd05026 10 DTLIRIFHNYSGKEGDRYKLSKGELKELLQRE 41 (93)
T ss_pred HHHHHHHHHHHccCCCCCEECHHHHHHHHHHH
Confidence 35678899999544887 59999999977654
No 74
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=24.31 E-value=2e+02 Score=28.10 Aligned_cols=43 Identities=9% Similarity=0.030 Sum_probs=28.1
Q ss_pred CCccCCCEEEE-----CCeEEEEEEEeeEE--EEEEEe-CCeE--EEEeCccc
Q 004837 557 HPFDIGDRCVI-----DGVQMVVEEMNILT--TVFLRY-DMEK--IYYPNAVL 599 (728)
Q Consensus 557 hPFdVGDrI~I-----dg~~G~VeeI~Lls--T~f~t~-Dg~~--V~IPNS~L 599 (728)
.+|++||+|+| .|..|.|.+++--. -.+.-. -... |.+|++.|
T Consensus 93 ~~~~~G~~V~I~~Gpf~g~~g~V~~vd~~k~~v~v~ll~~~~~~pv~v~~~~~ 145 (153)
T PRK08559 93 EGIKEGDIVELIAGPFKGEKARVVRVDESKEEVTVELLEAAVPIPVTVRGDQV 145 (153)
T ss_pred cCCCCCCEEEEeccCCCCceEEEEEEcCCCCEEEEEEECCcceeeEEEeccEE
Confidence 56999999999 35789999985321 111112 2333 78888877
No 75
>cd05025 S-100A1 S-100A1: S-100A1 domain found in proteins similar to S100A1. S100A1 is a calcium-binding protein belonging to a large S100 vertebrate-specific protein family within the EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100A1 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. As is the case with many other members of S100 protein family, S100A1 is implicated in intracellular and extracellular regulatory activities, including interaction with myosin-associated twitchin kinase, actin-capping protein CapZ, sinapsin I, and tubulin. Structural data suggests that S100A1 proteins exist within cells as antiparallel homodimers, while heterodimers with S100A4 and S100B also has been reported. Upon binding calcium S100A1 changes conformation to expose a hydrophobic cleft which is the interaction site of S100A1 with its more that 20 known target proteins.
Probab=24.14 E-value=1.1e+02 Score=26.73 Aligned_cols=29 Identities=7% Similarity=0.229 Sum_probs=23.8
Q ss_pred HHHHHHHHHhh-hhhccc-ccchHhHHHHHHH
Q 004837 446 VEVHTIFPLFE-GALETG-RITKSSFRNWVVR 475 (728)
Q Consensus 446 eea~~af~lfd-~~~~~g-~Is~~el~~~vv~ 475 (728)
++..++|.+|| .+ ++| .|+.++|+..+..
T Consensus 9 ~~l~~~F~~fDd~d-g~G~~Is~~El~~~l~~ 39 (92)
T cd05025 9 ETLINVFHAHSGKE-GDKYKLSKKELKDLLQT 39 (92)
T ss_pred HHHHHHHHHHhccc-CCCCeECHHHHHHHHHH
Confidence 56789999997 66 899 5999999987743
No 76
>COG4818 Predicted membrane protein [Function unknown]
Probab=23.82 E-value=1.2e+02 Score=27.70 Aligned_cols=41 Identities=29% Similarity=0.712 Sum_probs=27.9
Q ss_pred hhhhheeeeeEEeeccceeeeeeEEeeeechhhHHH-----HHHHHHHHHhHHHh
Q 004837 193 SAWVMGFAVFLIERNFMLREKVLYFVYGLRNSIRNC-----MWLGLVLLAWTCIF 242 (728)
Q Consensus 193 s~w~v~~~v~~ie~nfllrk~vlYfv~glrk~v~~~-----~W~~~~l~~w~~l~ 242 (728)
-||+.+++..++||.- +..=| |++|-+ +|+..++++|.+-.
T Consensus 13 lgwitGllFlllEre~----~FVrF-----HAmQS~ltF~~l~~l~ill~~iP~I 58 (105)
T COG4818 13 LGWITGLLFLLLERES----KFVRF-----HAMQSFLTFLGLWLLIILLAFIPYI 58 (105)
T ss_pred HHHHHHHHHHHhhccC----cceee-----hhHHHHHHHHHHHHHHHHHHHhhhh
Confidence 3799999999999833 22223 555544 57777788777654
No 77
>PRK11465 putative mechanosensitive channel protein; Provisional
Probab=23.47 E-value=1.5e+02 Score=36.49 Aligned_cols=52 Identities=17% Similarity=0.281 Sum_probs=34.8
Q ss_pred hhHHHHHHHHHHHHhHHHhhcc-c--cchhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004837 224 SIRNCMWLGLVLLAWTCIFNEK-L--HKKNKILEKVFQALVAVLLGATIWLIKIV 275 (728)
Q Consensus 224 ~v~~~~W~~~~l~~w~~l~~~~-~--~~~~~~l~~v~kvl~~~~~~~~~~l~k~~ 275 (728)
++..|+|+..++.+|..+-... . ......++.+.++++.++++.+.|.+-+.
T Consensus 432 ~l~~~~~vl~ll~a~~~l~l~~~~~~~~g~~~i~~l~~i~iil~i~~v~w~l~~~ 486 (741)
T PRK11465 432 ILTVCVAVMLLLNAWGLFDFWNWLQNGAGEKTVDILIRIALILFFSAVGWTVLAS 486 (741)
T ss_pred HHHHHHHHHHHHHHHHhcchHhhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4677788888888898542111 1 11234677888888888888888877553
No 78
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=23.19 E-value=1.1e+02 Score=37.02 Aligned_cols=21 Identities=24% Similarity=0.376 Sum_probs=13.7
Q ss_pred CCCCCCCCCCCChhhhhhccC
Q 004837 98 DSNNISSTDDNDDEWDKELED 118 (728)
Q Consensus 98 ~~~~~~~~~~~d~~~~~~~~~ 118 (728)
..+..++|.|+|-|||+.+|+
T Consensus 158 ~~~~~~ee~eedR~WYdnde~ 178 (1042)
T KOG0924|consen 158 REPTRSEEGEEDREWYDNDEG 178 (1042)
T ss_pred ccccccccCccchhhhhcCCc
Confidence 334444566667899998754
No 79
>COG4709 Predicted membrane protein [Function unknown]
Probab=23.08 E-value=4.6e+02 Score=26.91 Aligned_cols=25 Identities=20% Similarity=0.371 Sum_probs=11.1
Q ss_pred HHHHHHHhhcccCCCcceeeHhHHHhhc
Q 004837 416 RNSAQRIFKNVAKPGAKFIEEEDLMRFL 443 (728)
Q Consensus 416 ~~lAr~If~~~~~~g~~~I~~eDl~~f~ 443 (728)
..=-++-|+.-...|+ +.+++..=+
T Consensus 26 m~dyeehF~~a~~~Gk---sE~EI~~~L 50 (195)
T COG4709 26 MYDYEEHFREAQEAGK---SEEEIAKDL 50 (195)
T ss_pred HHHHHHHHHhhhhcCC---CHHHHHHHh
Confidence 3333445555433333 345555444
No 80
>CHL00141 rpl24 ribosomal protein L24; Validated
Probab=23.01 E-value=98 Score=27.38 Aligned_cols=22 Identities=27% Similarity=0.220 Sum_probs=18.6
Q ss_pred CccCCCEEEE-----CCeEEEEEEEee
Q 004837 558 PFDIGDRCVI-----DGVQMVVEEMNI 579 (728)
Q Consensus 558 PFdVGDrI~I-----dg~~G~VeeI~L 579 (728)
++..||+|.| -|..|.|.+|.-
T Consensus 8 ~I~~GD~V~Vi~G~dKGK~G~V~~V~~ 34 (83)
T CHL00141 8 HVKIGDTVKIISGSDKGKIGEVLKIIK 34 (83)
T ss_pred cccCCCEEEEeEcCCCCcEEEEEEEEc
Confidence 6889999998 368999999864
No 81
>PF03526 Microcin: Colicin E1 (microcin) immunity protein; InterPro: IPR003061 The structural and functional relationships among independently cloned segments of the plasmid ColE1 region that regulates and codes for colicin E1 (cea), immunity (imm) and the mitomycin C-induced lethality function (lys) have been analysed []. A model for the structure and expression of the colicin E1 operon has been proposed in which the cea and lys genes are expressed from a single inducible promoter that is controlled by the lexA repressor in response to the SOS system of Escherichia coli []. The imm gene lies between the cea and lys genes and is expressed by transcription in the opposite direction from a promoter located within the lys gene []. This arrangement indicates that the transcriptional units for all three genes overlap. It is proposed that the formation of anti-sense RNA may be an important element in the coordinate regulation of gene expression in this system []. Hydropathy analysis of the imm gene products suggests that they have hydrophobic domains characteristic of membrane-associated proteins []. The microcin E1 immunity protein is able to protect a cell that harbours the plasmid ColE1 encoding colicin E1 against colicin E1; it is thus essential both for autonomous replication and colicin E1 immunity []. ; GO: 0015643 toxin binding, 0030153 bacteriocin immunity
Probab=22.62 E-value=1e+02 Score=25.18 Aligned_cols=35 Identities=9% Similarity=0.309 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccccccHHHH
Q 004837 258 QALVAVLLGATIWLIKIVLVKVLASSFHVTTYFDR 292 (728)
Q Consensus 258 kvl~~~~~~~~~~l~k~~lvk~ia~sfH~~~y~dR 292 (728)
+.|.++++++++.=.-|-.|+-+|..|-.+-|+++
T Consensus 8 ~~l~~~iiStIl~PfSk~aIE~ialkft~keFw~~ 42 (55)
T PF03526_consen 8 KMLYLAIISTILFPFSKWAIEKIALKFTKKEFWNK 42 (55)
T ss_pred chhHHHHHHHhhhhhHHHHHHHHHHHhccHHHHhc
Confidence 45777888888888888888888888888888765
No 82
>PF06107 DUF951: Bacterial protein of unknown function (DUF951); InterPro: IPR009296 This family consists of several short hypothetical bacterial proteins of unknown function.
Probab=22.31 E-value=1.6e+02 Score=24.34 Aligned_cols=41 Identities=10% Similarity=0.135 Sum_probs=29.4
Q ss_pred ccCCCEEEE------CCeEEEEEEEeeEEEEEEEeCCeEEEEeCccc
Q 004837 559 FDIGDRCVI------DGVQMVVEEMNILTTVFLRYDMEKIYYPNAVL 599 (728)
Q Consensus 559 FdVGDrI~I------dg~~G~VeeI~LlsT~f~t~Dg~~V~IPNS~L 599 (728)
|++||.|+. ++....|.++|.=.-.=-.--|+.|.+|-+.+
T Consensus 2 ~~vgDiV~mKK~HPCG~~~Wei~R~GaDikikC~gCg~~imlpR~~f 48 (57)
T PF06107_consen 2 YEVGDIVEMKKPHPCGSNEWEIIRIGADIKIKCLGCGRQIMLPRSKF 48 (57)
T ss_pred ccCCCEEEEcCCCCCCCCEEEEEEccCcEEEEECCCCCEEEEeHHHH
Confidence 789999998 56788898887544332333477888886654
No 83
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=21.70 E-value=2.5e+02 Score=34.88 Aligned_cols=44 Identities=14% Similarity=0.076 Sum_probs=34.5
Q ss_pred CCccCCCEEEECC--eEEEEEEEeeEEEEEEEeCCeEEEEeCcccc
Q 004837 557 HPFDIGDRCVIDG--VQMVVEEMNILTTVFLRYDMEKIYYPNAVLL 600 (728)
Q Consensus 557 hPFdVGDrI~Idg--~~G~VeeI~LlsT~f~t~Dg~~V~IPNS~L~ 600 (728)
+++++||+|.|.+ ..|+|.+|.=-.......+|-++.+|=+.|.
T Consensus 635 ~~~~~Gd~V~v~~~~~~g~v~~i~~~~~~~V~~g~~k~~v~~~~l~ 680 (782)
T PRK00409 635 EELKVGDEVKYLSLGQKGEVLSIPDDKEAIVQAGIMKMKVPLSDLE 680 (782)
T ss_pred cCCCCCCEEEEccCCceEEEEEEcCCCeEEEEECCEEEEEeHHHce
Confidence 6799999999964 8999999951124456678889999988884
No 84
>KOG0034 consensus Ca2+/calmodulin-dependent protein phosphatase (calcineurin subunit B), EF-Hand superfamily protein [Signal transduction mechanisms]
Probab=20.72 E-value=1.2e+02 Score=31.00 Aligned_cols=61 Identities=15% Similarity=0.287 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHhhcccCC-CcceeeHhHHHhhcC---HHHHHHHHHHhhhhhcccc-cchHhHHHHHH
Q 004837 412 EWEARNSAQRIFKNVAKP-GAKFIEEEDLMRFLK---RVEVHTIFPLFEGALETGR-ITKSSFRNWVV 474 (728)
Q Consensus 412 ~~~A~~lAr~If~~~~~~-g~~~I~~eDl~~f~~---~eea~~af~lfd~~~~~g~-Is~~el~~~vv 474 (728)
..|..+ ....|+.+.++ ++.+++.+++..... .--+..++..|+.. .+|. |+.++|.+.+.
T Consensus 29 ~~EI~~-L~~rF~kl~~~~~~g~lt~eef~~i~~~~~Np~~~rI~~~f~~~-~~~~~v~F~~Fv~~ls 94 (187)
T KOG0034|consen 29 ANEIER-LYERFKKLDRNNGDGYLTKEEFLSIPELALNPLADRIIDRFDTD-GNGDPVDFEEFVRLLS 94 (187)
T ss_pred HHHHHH-HHHHHHHhccccccCccCHHHHHHHHHHhcCcHHHHHHHHHhcc-CCCCccCHHHHHHHHh
Confidence 344444 45678888888 889999999997653 33588999999976 8888 99999998653
No 85
>PRK05609 nusG transcription antitermination protein NusG; Validated
Probab=20.26 E-value=2.3e+02 Score=27.98 Aligned_cols=43 Identities=14% Similarity=0.131 Sum_probs=30.0
Q ss_pred cCCccCCCEEEEC-----CeEEEEEEEe---eEEEEEEEeCCeE--EEEeCcc
Q 004837 556 MHPFDIGDRCVID-----GVQMVVEEMN---ILTTVFLRYDMEK--IYYPNAV 598 (728)
Q Consensus 556 ~hPFdVGDrI~Id-----g~~G~VeeI~---LlsT~f~t~Dg~~--V~IPNS~ 598 (728)
..+|.+||+|.|. |..|.|.+++ =+.++..+.=|+. |-++...
T Consensus 124 ~~~~~~Gd~VrI~~GPf~G~~g~v~~i~~~~~r~~v~l~~~G~~~~v~l~~~~ 176 (181)
T PRK05609 124 KVDFEVGEMVRVIDGPFADFNGTVEEVDYEKSKLKVLVSIFGRETPVELEFSQ 176 (181)
T ss_pred ccCCCCCCEEEEeccCCCCCEEEEEEEeCCCCEEEEEEEECCCceEEEEchHH
Confidence 3679999999993 5899999986 3566666666654 4444433
No 86
>PF00575 S1: S1 RNA binding domain; InterPro: IPR003029 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The S1 domain was originally identified in ribosomal protein S1 but is found in a large number of RNA-associated proteins. The structure of the S1 RNA-binding domain from the Escherichia coli polynucleotide phosphorylase has been determined using NMR methods and consists of a five-stranded antiparallel beta barrel. Conserved residues on one face of the barrel and adjacent loops form the putative RNA-binding site []. The structure of the S1 domain is very similar to that of cold shock proteins. This suggests that they may both be derived from an ancient nucleic acid-binding protein []. More information about these proteins can be found at Protein of the Month: RNA Exosomes []. This entry does not include translation initiation factor IF-1 S1 domains.; GO: 0003723 RNA binding; PDB: 3L7Z_F 2JE6_I 2JEA_I 2JEB_I 1E3P_A 2Y0S_E 1WI5_A 2BH8_A 2CQO_A 2EQS_A ....
Probab=20.08 E-value=2.8e+02 Score=22.78 Aligned_cols=46 Identities=17% Similarity=0.125 Sum_probs=32.2
Q ss_pred ccCCCEEEECCeEEEEEEEeeEEEEEEEeC-CeEEEEeCccccCCcEEeccCC
Q 004837 559 FDIGDRCVIDGVQMVVEEMNILTTVFLRYD-MEKIYYPNAVLLTKPISNFYRS 610 (728)
Q Consensus 559 FdVGDrI~Idg~~G~VeeI~LlsT~f~t~D-g~~V~IPNS~L~t~~I~N~sRS 610 (728)
+++||.+ .|+|.++.= +-.|...+ |..-.+|.+.+....+.+....
T Consensus 2 ~~~G~iv-----~g~V~~v~~-~g~~V~l~~~~~g~ip~~~l~~~~~~~~~~~ 48 (74)
T PF00575_consen 2 LKEGDIV-----EGKVTSVED-FGVFVDLGNGIEGFIPISELSDDRIDDPSEV 48 (74)
T ss_dssp SSTTSEE-----EEEEEEEET-TEEEEEESTSSEEEEEGGGSSSSEESSSHGT
T ss_pred CCCCCEE-----EEEEEEEEC-CEEEEEECCcEEEEEEeehhcCccccccccc
Confidence 3566655 688998887 44444444 8889999999998755555443
Done!