Query 002923
Match_columns 865
No_of_seqs 325 out of 850
Neff 3.5
Searched_HMMs 46136
Date Thu Mar 28 13:30:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002923.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002923hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1881 Anion exchanger adapto 100.0 4.9E-43 1.1E-47 395.8 9.4 244 2-292 191-484 (793)
2 COG1875 NYN ribonuclease and A 99.9 1.7E-26 3.8E-31 249.3 11.2 147 623-795 1-151 (436)
3 PF13638 PIN_4: PIN domain; PD 99.9 1.4E-25 2.9E-30 206.8 4.7 131 627-788 1-133 (133)
4 KOG1882 Transcriptional regula 99.6 1.9E-16 4.1E-21 163.9 3.4 66 2-91 209-285 (293)
5 PF00498 FHA: FHA domain; Int 99.3 3.5E-12 7.5E-17 106.1 5.7 56 2-82 13-68 (68)
6 KOG4689 Predicted RNase [RNA p 99.2 5.1E-12 1.1E-16 137.6 3.7 237 533-821 71-314 (479)
7 PRK13764 ATPase; Provisional 99.0 3.8E-10 8.1E-15 130.6 9.1 125 626-788 2-128 (602)
8 PLN02927 antheraxanthin epoxid 98.8 9.5E-09 2.1E-13 120.5 7.0 65 1-91 575-645 (668)
9 KOG1880 Nuclear inhibitor of p 98.7 1E-08 2.2E-13 109.8 3.3 68 1-92 52-119 (337)
10 cd00060 FHA Forkhead associate 98.7 9.8E-08 2.1E-12 83.0 8.8 64 2-90 37-100 (102)
11 COG1716 FOG: FHA domain [Signa 98.5 1.9E-07 4.1E-12 91.0 7.4 58 1-86 102-159 (191)
12 TIGR03354 VI_FHA type VI secre 98.5 1.7E-07 3.6E-12 104.3 6.8 64 1-91 37-104 (396)
13 smart00670 PINc Large family o 98.5 1.1E-07 2.3E-12 84.6 4.0 38 627-669 1-42 (111)
14 COG1412 Uncharacterized protei 98.2 1.3E-06 2.8E-11 85.2 4.7 115 620-788 6-124 (136)
15 smart00240 FHA Forkhead associ 98.1 2.4E-06 5.3E-11 67.4 4.1 40 1-65 13-52 (52)
16 COG3456 Predicted component of 97.6 0.00017 3.7E-09 81.0 7.7 72 5-108 45-118 (430)
17 COG4956 Integral membrane prot 96.7 0.0044 9.5E-08 68.1 8.0 159 619-822 155-320 (356)
18 TIGR00305 probable toxin-antit 96.1 0.018 3.8E-07 53.2 7.0 42 627-668 2-48 (114)
19 KOG1881 Anion exchanger adapto 95.9 0.0043 9.3E-08 73.8 2.6 96 1-128 73-168 (793)
20 PF13470 PIN_3: PIN domain 94.9 0.12 2.5E-06 47.3 7.8 45 627-671 2-51 (119)
21 PRK04358 hypothetical protein; 94.8 0.083 1.8E-06 55.7 7.5 160 623-793 2-205 (217)
22 PRK12496 hypothetical protein; 94.7 0.027 5.9E-07 56.6 3.5 112 626-788 3-116 (164)
23 COG1855 ATPase (PilT family) [ 94.6 0.13 2.7E-06 59.7 8.7 123 624-785 4-129 (604)
24 KOG4689 Predicted RNase [RNA p 93.3 0.011 2.4E-07 66.3 -2.5 49 622-670 128-177 (479)
25 PF04900 Fcf1: Fcf1; InterPro 90.9 0.48 1E-05 43.5 5.5 38 743-786 52-90 (101)
26 KOG0245 Kinesin-like protein [ 81.3 4 8.7E-05 51.5 7.6 63 1-91 493-555 (1221)
27 KOG0615 Serine/threonine prote 80.9 1.5 3.3E-05 50.6 3.8 38 54-91 118-156 (475)
28 COG1439 Predicted nucleic acid 78.0 4 8.6E-05 42.4 5.4 65 743-821 85-150 (177)
29 COG5573 Predicted nucleic-acid 76.9 2.2 4.8E-05 42.6 3.0 43 627-669 6-55 (142)
30 PF05991 NYN_YacP: YacP-like N 75.6 3.6 7.8E-05 41.4 4.3 52 742-795 77-128 (166)
31 PF14367 DUF4411: Domain of un 73.4 1.3 2.8E-05 44.2 0.5 46 742-794 103-158 (162)
32 PF08745 UPF0278: UPF0278 fami 72.7 1.7 3.8E-05 45.8 1.3 152 627-794 2-199 (205)
33 TIGR01663 PNK-3'Pase polynucle 72.6 6.5 0.00014 46.6 6.0 66 3-93 45-110 (526)
34 PF01850 PIN: PIN domain; Int 69.5 2.6 5.7E-05 37.5 1.5 42 627-670 1-47 (121)
35 TIGR00028 Mtu_PIN_fam Mycobact 64.5 5.6 0.00012 36.8 2.7 40 627-667 2-49 (142)
36 COG1569 Predicted nucleic acid 63.7 17 0.00037 36.8 6.0 49 741-795 89-138 (142)
37 COG1848 Predicted nucleic acid 62.1 2.9 6.4E-05 39.7 0.4 46 627-672 2-55 (140)
38 PF02626 AHS2: Allophanate hyd 57.4 9.8 0.00021 41.5 3.4 36 56-91 55-93 (271)
39 COG1487 VapC Predicted nucleic 56.8 4.2 9.1E-05 38.6 0.4 44 626-669 3-47 (133)
40 PRK13725 plasmid maintenance p 56.3 4.4 9.5E-05 39.0 0.5 40 627-667 4-46 (132)
41 KOG1892 Actin filament-binding 46.6 15 0.00033 46.5 3.0 28 56-85 422-449 (1629)
42 KOG3165 Predicted nucleic-acid 43.9 11 0.00025 39.1 1.2 48 621-669 60-112 (195)
43 smart00797 AHS2 Allophanate hy 43.6 25 0.00055 38.7 3.9 34 58-91 57-93 (280)
44 TIGR02500 type_III_yscD type I 41.4 44 0.00095 38.3 5.4 24 1-26 34-57 (410)
45 KOG2293 Daxx-interacting prote 37.0 66 0.0014 38.6 6.0 60 6-91 473-532 (547)
46 TIGR03875 RNA_lig_partner RNA 36.6 42 0.00092 35.9 4.0 154 627-794 2-202 (206)
47 TIGR00724 urea_amlyse_rel biot 36.5 34 0.00074 38.3 3.6 36 56-91 77-116 (314)
48 PF01479 S4: S4 domain; Inter 35.6 28 0.00061 27.6 2.0 23 55-79 25-48 (48)
49 TIGR02988 YaaA_near_RecF S4 do 33.7 45 0.00097 28.0 3.0 26 55-81 33-58 (59)
50 COG1188 Ribosome-associated he 32.7 57 0.0012 31.5 3.9 33 57-91 35-69 (100)
51 TIGR03875 RNA_lig_partner RNA 32.0 52 0.0011 35.2 3.8 20 764-783 154-173 (206)
52 PRK11507 ribosome-associated p 31.9 60 0.0013 29.5 3.7 30 55-85 36-65 (70)
53 COG1984 DUR1 Allophanate hydro 27.8 69 0.0015 36.2 4.1 34 58-91 78-114 (314)
54 PRK01777 hypothetical protein; 27.4 1.5E+02 0.0033 28.0 5.7 56 22-81 17-73 (95)
55 PF10130 PIN_2: PIN domain; I 25.3 14 0.0003 36.5 -1.6 42 628-669 1-44 (133)
56 smart00363 S4 S4 RNA-binding d 23.6 1E+02 0.0022 23.7 3.3 27 55-83 25-52 (60)
57 cd00165 S4 S4/Hsp/ tRNA synthe 22.9 97 0.0021 24.5 3.1 28 55-84 25-53 (70)
58 PF02739 5_3_exonuc_N: 5'-3' e 22.6 1.7E+02 0.0038 29.7 5.6 61 743-826 109-169 (169)
59 TIGR02712 urea_carbox urea car 21.6 84 0.0018 41.1 3.8 35 57-91 527-565 (1201)
60 KOG2162 Nonsense-mediated mRNA 20.7 67 0.0014 40.7 2.5 98 745-855 702-809 (862)
No 1
>KOG1881 consensus Anion exchanger adaptor protein Kanadaptin, contains FHA domain [General function prediction only]
Probab=100.00 E-value=4.9e-43 Score=395.77 Aligned_cols=244 Identities=25% Similarity=0.337 Sum_probs=201.5
Q ss_pred CCCCCCCccceEEEEcCCCCc---------eEEEeCCCCCcccccceeccccccCCCCccccccceEEcCeecCCCCcee
Q 002923 2 LTHPSISRFHLQIQSNPSSLK---------LSVIDLSSGNCLIFAFVTTFLSSYGSFPVGMVLHGTWVSEKKIEPGVPVE 72 (865)
Q Consensus 2 L~hPsiSR~Ha~i~~~~~~~~---------~~v~DL~S~~~~~~~~~~~~~~~~~~~~~~~~~nGT~vN~~rI~~~~~~e 72 (865)
|.||||||+||++||.+++.. |+|+||+| |||||+|..|++|.+|++
T Consensus 191 ~eHpsISr~h~vlQy~~~~~~~p~~s~~~g~~i~dlgs------------------------Thgt~~NK~rvppk~yir 246 (793)
T KOG1881|consen 191 LEHPSISRFHAVLQYKASGPDDPCASNGEGWYIYDLGS------------------------THGTFLNKDRVPPKVYIR 246 (793)
T ss_pred cccCcccccceeeeccCCCCCccccCCCCceEEeeccc------------------------cccceeccccCCCcchhh
Confidence 789999999999999987555 99999999 999999999999999999
Q ss_pred cCCCCEEEEcCceeeEEEEeecccccccCCCCCCCCCChhhhhc-cCHHHHHHHHHH--HhHHH-----------HHHHh
Q 002923 73 MDEGDTLKIGGSTRVYRLHWVPFSQAYDMNNPFVSPMDLEEVEN-QGLEERNEMRLQ--QDSLL-----------IETEQ 138 (865)
Q Consensus 73 L~~gD~ikfG~str~y~l~~~p~~~~~d~~~p~~gP~~~~E~Es-~~~~e~ke~r~~--q~~~~-----------~e~e~ 138 (865)
+++|++++||+|||+|+++ ||.++.|+|+ ++++|++++|++ +++.. ++++.
T Consensus 247 ~~Vg~v~~fggsTrl~i~Q---------------gp~eD~Epe~dls~te~~e~r~~~~E~~e~~~~~~~e~r~le~~q~ 311 (793)
T KOG1881|consen 247 DRVGHVARFGGSTRLYIFQ---------------GPEEDEEPESDLSVTELKECREKKKELSDAEVEAAAEERILEAAQA 311 (793)
T ss_pred hhHHHHHHhcCceEEEEee---------------CCCcCCCchhhcCHHHHHHHHHHHHhhhHhhhhhhHHHhhHHHHhh
Confidence 9999999999999999999 9999999999 999999999885 33322 11122
Q ss_pred hhhcc-CccCCCCcccccc----cchhhhcccccccchhhhcc----cccccccCCCCcccccccCCCCeeEEEEecccc
Q 002923 139 IEQQG-SMVEGEKIRNCQD----EISAAIQDKSIHSLDFILDG----ICSLFSDETSELIPKREIPSSGIESVDLSLPVE 209 (865)
Q Consensus 139 ~e~~G-sWGmgeDa~ee~d----e~~~a~~~~e~~~~~~y~~D----L~~~FerEg~eley~~ee~~~g~~~crieLPv~ 209 (865)
...+| +|||||||+++++ .++.+..++| ++|++| |++||+|||++|+|+|+++++|.|+|+|+||++
T Consensus 312 ~~~~g~swGmgeDa~ed~~~e~et~~~~~~e~E----~~y~qdPkk~l~~ffereg~~l~~~~deq~~~~w~c~v~lp~~ 387 (793)
T KOG1881|consen 312 DDEEGCSWGMGEDADEDDADEVETDAEAMEERE----ATYIQDPKKALLGFFEREGEDLEYEFDEQGHGKWVCRVELPVD 387 (793)
T ss_pred hhhcCCcccCCcccccccccccccccccccccc----cccccCHHHHHHHHHHhhhhhhhhhhhhcCCceEEeeeeeecc
Confidence 34677 9999999998875 4677888888 999999 999999999999999999999999999999999
Q ss_pred cCCCchhh--hhcCCCCCCCcchhhhh---hhhcccCCCCccccccCC-----CCcccccccCcch---hhhhhhhHhhh
Q 002923 210 DNFSVSEE--QQLGKENQIPWHDSVKD---YISKIENPDGLLRVSKEN-----PNVVVDLFASNSD---ARKGKILEKEN 276 (865)
Q Consensus 210 d~~~~~~~--~~~~~~~~~~~~~~~~~---~~~~~~~~~~~lr~s~~~-----~~~~~d~~sS~~d---~~~~~i~~~~~ 276 (865)
+.-|.... .-|-|. ..+.+-+ .+|||+|.+|+||++.++ ++.+.|||+||+| ||||.+..|+.
T Consensus 388 ~~~~~~~v~~~~~~g~----kke~~iqc~ldaCrild~~~llrk~~~erk~~k~~Ed~dfl~sded~fldrtg~vekk~~ 463 (793)
T KOG1881|consen 388 DSGGARAVAEAAHSGE----KKEAFIQCALDACRILDTAGLLRKENHERKKGKNLEDEDFLDSDEDDFLDRTGLVEKKRA 463 (793)
T ss_pred cccchhHHHHHhhhch----hHHHHHHHHHhhhhhccccchhhhhhHHHhhhcccccccccccccchhhcchhhhhhhhc
Confidence 98766542 222221 1122222 789999999999999877 7899999999987 99998875544
Q ss_pred c---Cccc--ccccccCChhh
Q 002923 277 Q---RPLQ--KENELKDNPEV 292 (865)
Q Consensus 277 ~---~~~~--k~~~~~d~~E~ 292 (865)
. .+.. ...+..+++|.
T Consensus 464 ~kk~~~~sv~~~~e~~~~~es 484 (793)
T KOG1881|consen 464 KKKFAEESVGAIDEDPDKFES 484 (793)
T ss_pred chhhhhccccccccCcccccc
Confidence 4 2322 34455778887
No 2
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=99.93 E-value=1.7e-26 Score=249.35 Aligned_cols=147 Identities=22% Similarity=0.276 Sum_probs=113.7
Q ss_pred ccEEEEEccceeccCCCchhHHHhhcccCceEEEehhHHHHHhccccCCcccchhhHHHHHHHHHHHHHhc---ccccee
Q 002923 623 RGWTVVVDTSTLLDKESRKSLQLLQGLKGTQLVIPRMVTRELDCLKQRGNLFRRKSQVSSLLEWIEECMVK---TKWWIH 699 (865)
Q Consensus 623 rkk~fVLDTNVLLhdeslk~L~lL~~fke~~VVIPiiVLEELDgLKKg~~l~rra~~ARrALrwLee~l~k---~~~~Ih 699 (865)
++|+||||||||||| |.+|+.|++|+||||++||+|||.+|++++..+ ++||+|+|.|++.+.. ...+|+
T Consensus 1 ~~ktyVLDTnVLi~D-----P~Alf~F~eh~VvIP~~VlEELd~~Kr~~~evg--rnAR~a~r~ld~L~~~~~~l~~giP 73 (436)
T COG1875 1 MKKTYVLDTNVLIHD-----PTALFRFEEHDVVIPMVVIEELDATKRGHSEIG--RNARQASRLLDELRNEHGRLKAGIP 73 (436)
T ss_pred CceEEEEecceeeeC-----cHHHhcccccceEeeehHHHHHHhhcccchhhH--HHHHHHHHHHHHHHhhcCCccCCcc
Confidence 578999999999999 999999999999999999999999999999875 5899999999988733 334455
Q ss_pred ccCcccCCcccCCCCCCCCCccccCCCcccccCCCCcc-cCCCCCCChHHHHHHHHHHHhcCCCcEEEEECChhhhhhhh
Q 002923 700 IQSSVEEGRPIAPTPPASPQSQFSIGSGRFHCGSPTLT-EIVSPTSEDHILDCALLFRKMKNDRCLVLLSNDVTMKIKAM 778 (865)
Q Consensus 700 VQSs~e~G~~Ia~tppasp~~~~~eg~~~f~~gt~~l~-dl~s~tNDDrILdCAL~lq~~~~~~~VVLVTkDiNLRIKA~ 778 (865)
+++.+. ..+|...+. ....++ .+....||++||+|++.++++.++++|||||||+||||||.
T Consensus 74 l~~~G~-~l~iel~~~----------------~~~~~~~~~~~~~~DnrIL~~~~~L~~~~~~~~VvLVSKDi~~RvkA~ 136 (436)
T COG1875 74 LGNKGG-TLHVELNHQ----------------NSTKLPNGFREGVNDNRILAVVLNLQEEEPGRRVVLVSKDINLRVKAS 136 (436)
T ss_pred cCCCCC-eEEEEEecc----------------CccccccccccccchHHHHHHHHHHHhcCCCCcEEEEECCccceeehh
Confidence 544110 111111100 000112 23456899999999999999988889999999999999999
Q ss_pred cCCccccchhhHHHhhc
Q 002923 779 AEGLICETAQEFRESLV 795 (865)
Q Consensus 779 AeGI~AEd~eeF~dsLv 795 (865)
|.||+++||+. |.++
T Consensus 137 a~Gl~AeDY~~--dr~i 151 (436)
T COG1875 137 ALGLAAEDYEN--DRVL 151 (436)
T ss_pred hcCccHHHhhh--hhhh
Confidence 99999987763 4444
No 3
>PF13638 PIN_4: PIN domain; PDB: 2HWW_C 2HWX_A 2DOK_B 2HWY_B 2WP8_J.
Probab=99.91 E-value=1.4e-25 Score=206.78 Aligned_cols=131 Identities=31% Similarity=0.465 Sum_probs=99.0
Q ss_pred EEEccceeccCCCchhHHHhhcccCceEEEehhHHHHHhccccCCcc--cchhhHHHHHHHHHHHHHhccccceeccCcc
Q 002923 627 VVVDTSTLLDKESRKSLQLLQGLKGTQLVIPRMVTRELDCLKQRGNL--FRRKSQVSSLLEWIEECMVKTKWWIHIQSSV 704 (865)
Q Consensus 627 fVLDTNVLLhdeslk~L~lL~~fke~~VVIPiiVLEELDgLKKg~~l--~rra~~ARrALrwLee~l~k~~~~IhVQSs~ 704 (865)
||+|||+|||+ +..|+.+..+.|+||++|++|||+||+.... ...+..||++++||...+.....++++|...
T Consensus 1 ~V~DTnvll~~-----~~~l~~~~~~~ivIP~~Vl~ELd~lk~~~~~~~~~~~~~ar~~~~~l~~~~~~~~~~i~~q~~~ 75 (133)
T PF13638_consen 1 YVLDTNVLLHH-----PDLLEKLEQNKIVIPLTVLEELDRLKKSSRDRDRELRKRAREAIRWLEKLLKRGSRSIRVQTSD 75 (133)
T ss_dssp EEE-HHHHHHH-----HHHHHHHSSSEEEEEHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHCT-TTEEECTTT
T ss_pred CEeehhHHhCC-----hHHHhccccCEEEechHHHHHHHHHhccccchhHHHHHHHHHHHHHHHHHHhcCCCeEecchhh
Confidence 79999999999 8888888999999999999999999998762 1234679999999999988777888888654
Q ss_pred cCCcccCCCCCCCCCccccCCCcccccCCCCcccCCCCCCChHHHHHHHHHHHhcCCCcEEEEECChhhhhhhhcCCccc
Q 002923 705 EEGRPIAPTPPASPQSQFSIGSGRFHCGSPTLTEIVSPTSEDHILDCALLFRKMKNDRCLVLLSNDVTMKIKAMAEGLIC 784 (865)
Q Consensus 705 e~G~~Ia~tppasp~~~~~eg~~~f~~gt~~l~dl~s~tNDDrILdCAL~lq~~~~~~~VVLVTkDiNLRIKA~AeGI~A 784 (865)
+.-... .......+||+||+||+++++..++.+|||||+|+|||+||.++||+|
T Consensus 76 ~~~~~~--------------------------~~~~~~~~D~~Il~~a~~~~~~~~~~~vvLvT~D~~l~~~A~~~gi~~ 129 (133)
T PF13638_consen 76 EEIDED--------------------------LNLDAQRNDDRILNCALYLQEENPGRKVVLVTNDKNLRLKARAEGIPA 129 (133)
T ss_dssp S-EES----------------------------S----HHHHHHHHHHHHHHHHCGCEEEEEEE--HHHHHHHHHTT--E
T ss_pred hhcchh--------------------------hhccccccHHHHHHHHHHHHHhcCCCeEEEEeCCHHHHHHHhhccccc
Confidence 211100 001134789999999999999877889999999999999999999999
Q ss_pred cchh
Q 002923 785 ETAQ 788 (865)
Q Consensus 785 Ed~e 788 (865)
++++
T Consensus 130 ~~~~ 133 (133)
T PF13638_consen 130 VSYE 133 (133)
T ss_dssp E---
T ss_pred ccCC
Confidence 9864
No 4
>KOG1882 consensus Transcriptional regulator SNIP1, contains FHA domain [Signal transduction mechanisms]
Probab=99.61 E-value=1.9e-16 Score=163.88 Aligned_cols=66 Identities=42% Similarity=0.525 Sum_probs=61.0
Q ss_pred CCCCCCCccceEEEEcCC-----------CCceEEEeCCCCCcccccceeccccccCCCCccccccceEEcCeecCCCCc
Q 002923 2 LTHPSISRFHLQIQSNPS-----------SLKLSVIDLSSGNCLIFAFVTTFLSSYGSFPVGMVLHGTWVSEKKIEPGVP 70 (865)
Q Consensus 2 L~hPsiSR~Ha~i~~~~~-----------~~~~~v~DL~S~~~~~~~~~~~~~~~~~~~~~~~~~nGT~vN~~rI~~~~~ 70 (865)
++|||||+|||+|||+.- -.+.||+||+| +||||||.++|+|++|
T Consensus 209 idhpScSKQHaviQyR~v~~~r~dGt~grrvkpYiiDLgS------------------------~NgTfLNnk~IepqRY 264 (293)
T KOG1882|consen 209 IDHPSCSKQHAVIQYRLVEFTRADGTVGRRVKPYIIDLGS------------------------GNGTFLNNKVIEPQRY 264 (293)
T ss_pred CCCccccccceeeeeeecccccCCCccceeeeeEEEecCC------------------------CCcceecCcccCchhe
Confidence 589999999999999852 24689999999 8999999999999999
Q ss_pred eecCCCCEEEEcCceeeEEEE
Q 002923 71 VEMDEGDTLKIGGSTRVYRLH 91 (865)
Q Consensus 71 ~eL~~gD~ikfG~str~y~l~ 91 (865)
|||.+|||||||.|+|+|+|.
T Consensus 265 yEL~ekDvlkfgfs~rEyvll 285 (293)
T KOG1882|consen 265 YELREKDVLKFGFSSREYVLL 285 (293)
T ss_pred eeeecCceeeeccchHHHHHH
Confidence 999999999999999999987
No 5
>PF00498 FHA: FHA domain; InterPro: IPR000253 The forkhead-associated (FHA) domain [] is a phosphopeptide recognition domain found in many regulatory proteins. It displays specificity for phosphothreonine-containing epitopes but will also recognise phosphotyrosine with relatively high affinity. It spans approximately 80-100 amino acid residues folded into an 11-stranded beta sandwich, which sometimes contain small helical insertions between the loops connecting the strands []. To date, genes encoding FHA-containing proteins have been identified in eubacterial and eukaryotic but not archaeal genomes. The domain is present in a diverse range of proteins, such as kinases, phosphatases, kinesins, transcription factors, RNA-binding proteins and metabolic enzymes which partake in many different cellular processes - DNA repair, signal transduction, vesicular transport and protein degradation are just a few examples.; GO: 0005515 protein binding; PDB: 1LGQ_B 1LGP_A 2CSW_A 2PIE_A 3FM8_A 3MDB_B 3GQS_B 1UHT_A 1WLN_A 3POA_A ....
Probab=99.29 E-value=3.5e-12 Score=106.13 Aligned_cols=56 Identities=38% Similarity=0.688 Sum_probs=51.2
Q ss_pred CCCCCCCccceEEEEcCCCCceEEEeCCCCCcccccceeccccccCCCCccccccceEEcCeecCCCCceecCCCCEEEE
Q 002923 2 LTHPSISRFHLQIQSNPSSLKLSVIDLSSGNCLIFAFVTTFLSSYGSFPVGMVLHGTWVSEKKIEPGVPVEMDEGDTLKI 81 (865)
Q Consensus 2 L~hPsiSR~Ha~i~~~~~~~~~~v~DL~S~~~~~~~~~~~~~~~~~~~~~~~~~nGT~vN~~rI~~~~~~eL~~gD~ikf 81 (865)
|.+|+|||+||.|.+... ..|+|.|++| +|||||||+++.++.+++|..||+|+|
T Consensus 13 l~~~~iSr~Ha~i~~~~~-~~~~i~d~~s------------------------~ngt~vng~~l~~~~~~~L~~gd~i~~ 67 (68)
T PF00498_consen 13 LPDPSISRRHARISFDDD-GQFYIEDLGS------------------------TNGTFVNGQRLGPGEPVPLKDGDIIRF 67 (68)
T ss_dssp ETSTTSSTTSEEEEEETT-EEEEEEESSS------------------------SS-EEETTEEESSTSEEEE-TTEEEEE
T ss_pred ECCHheeeeeeEEEEece-eeEEEEeCCC------------------------CCcEEECCEEcCCCCEEECCCCCEEEc
Confidence 679999999999999984 5999999999 899999999999999999999999999
Q ss_pred c
Q 002923 82 G 82 (865)
Q Consensus 82 G 82 (865)
|
T Consensus 68 G 68 (68)
T PF00498_consen 68 G 68 (68)
T ss_dssp T
T ss_pred C
Confidence 8
No 6
>KOG4689 consensus Predicted RNase [RNA processing and modification]
Probab=99.22 E-value=5.1e-12 Score=137.59 Aligned_cols=237 Identities=19% Similarity=0.277 Sum_probs=144.0
Q ss_pred cccccccCCCccCcChhhHHHHHhhcccccccchhhhHHHHhhhhhccccCCCcccCCCCCCccccccCCcccccccccc
Q 002923 533 PAEDLTLTSDKENQTFKVHREQKLMRGFYSNQVKLEQEWVLMKARAGERVPFQPLVNFPGKRRSEARSINSFSFSQTTEI 612 (865)
Q Consensus 533 ~~e~~~~~sdkeN~Tp~~~~~~k~~~~~~~n~~~~e~E~~~~k~r~~~R~Pfq~L~ns~~~~~s~~~~~~s~~~~q~~~~ 612 (865)
+...++.--.-||+|..+...+-+.+ .+-.++-++||++.++.+..|+ |.|.--|+..++++-+... +.
T Consensus 71 ~~g~~n~d~~~~n~~ls~eS~c~~vs--e~l~~~~~~e~q~V~~l~~~~~--~~l~~L~~e~~st~~~l~~-------~~ 139 (479)
T KOG4689|consen 71 DHGESNDDHSRENLTLSFESPCCSVS--EELIQDADQEMQIVEELHAARV--GKLVDLPGELMSTEIDLED-------DV 139 (479)
T ss_pred CccccccccccccccccchhhHHHHH--HHHHhhhhhhhHHHHHhcHHhh--ccccCCCcchhceeeehhh-------hh
Confidence 34443333337899999999998775 5566777889999999988884 5665556666765322210 11
Q ss_pred ccCCcccCCCccEEEEEccceeccCCCchhHHHhhccc---CceEEEehhHHHHHhccccCCcccchhhHHHHHHHHHHH
Q 002923 613 TNSSSVGEGRRGWTVVVDTSTLLDKESRKSLQLLQGLK---GTQLVIPRMVTRELDCLKQRGNLFRRKSQVSSLLEWIEE 689 (865)
Q Consensus 613 ~~~~~~~e~~rkk~fVLDTNVLLhdeslk~L~lL~~fk---e~~VVIPiiVLEELDgLKKg~~l~rra~~ARrALrwLee 689 (865)
+.+...--..++-+.+.|||.||.+ +|..+.+.+.+ +..+.|||+|.+|-|++-+- +.|.+-.|..|.-++.+
T Consensus 140 ~~sh~n~l~~~Rslis~~~~~~~~~--~kvv~~l~~tek~dd~vld~~~~~~qE~dr~~~l--L~r~~n~~I~a~~~~~d 215 (479)
T KOG4689|consen 140 HSSHANNLSDRRSLISIDTNILMNH--LKVVRILKTTEKPDDLVLDIPWVVMQEVDRMGKL--LKRAQNKAIPAVHFIND 215 (479)
T ss_pred HHhhhhHHHHHHHHHHHhhhhhhcc--hhHHHhhhccCCCcceeeecchHHHHHHHHHHHH--HhhhccchHHHHHHhhh
Confidence 1233334455566788888888888 44455555444 45677888888888887221 11111123333333333
Q ss_pred HHhccccceeccCcccCCcccCCCCCCCCCccccCCCcccccCCCCcccCCCCCCChHHHHHHHHHHHhcCCCcEEEEEC
Q 002923 690 CMVKTKWWIHIQSSVEEGRPIAPTPPASPQSQFSIGSGRFHCGSPTLTEIVSPTSEDHILDCALLFRKMKNDRCLVLLSN 769 (865)
Q Consensus 690 ~l~k~~~~IhVQSs~e~G~~Ia~tppasp~~~~~eg~~~f~~gt~~l~dl~s~tNDDrILdCAL~lq~~~~~~~VVLVTk 769 (865)
-+... +|+.++. ..+ +-.++..+||.||+||+++++-.+ +-|||+|+
T Consensus 216 Sl~~~-----------~Gl~~q~---------~~Q------------~~~p~~~~ddsvl~ccl~~~eI~~-cfvillt~ 262 (479)
T KOG4689|consen 216 SLKNQ-----------DGLSIQL---------ASQ------------KHYPDENNDDSVLKCCLQHQEIFP-CFVILLTD 262 (479)
T ss_pred hhccc-----------cchHHHH---------HHh------------hcCCcccccchHHHHHHHHHHhhh-heeeeecc
Confidence 32221 1221110 000 012455789999999999999754 69999999
Q ss_pred Chhhhhhh-hcCCccccchh--hHH-HhhcCcccccccccCCCCCccccccCchhH
Q 002923 770 DVTMKIKA-MAEGLICETAQ--EFR-ESLVNPFSERFLWADSSPRGRTWSYLDDVV 821 (865)
Q Consensus 770 DiNLRIKA-~AeGI~AEd~e--eF~-dsLvnp~S~RF~w~~s~Prg~tws~~d~~~ 821 (865)
|+|||.|| ...||+....+ +.. ..+-.-+.-||.-. +..|-+.+|..+
T Consensus 263 d~Nlrnkga~i~~V~~~~thd~~I~A~r~y~~~~~~~~~~----~d~t~~~~d~~~ 314 (479)
T KOG4689|consen 263 DRNLRNKGALISGVKSLSTHDEEISAERLYLSLNTDVCHQ----PDITKQQLDAET 314 (479)
T ss_pred cchhhhcccceecccccccchHHHHHHHHHHhcCcccccC----CCchhhhhccCc
Confidence 99999999 88999876533 222 44444444567655 444445555544
No 7
>PRK13764 ATPase; Provisional
Probab=99.05 E-value=3.8e-10 Score=130.62 Aligned_cols=125 Identities=22% Similarity=0.223 Sum_probs=88.8
Q ss_pred EEEEccceeccCCCchhHHHhh--cccCceEEEehhHHHHHhccccCCcccchhhHHHHHHHHHHHHHhccccceeccCc
Q 002923 626 TVVVDTSTLLDKESRKSLQLLQ--GLKGTQLVIPRMVTRELDCLKQRGNLFRRKSQVSSLLEWIEECMVKTKWWIHIQSS 703 (865)
Q Consensus 626 ~fVLDTNVLLhdeslk~L~lL~--~fke~~VVIPiiVLEELDgLKKg~~l~rra~~ARrALrwLee~l~k~~~~IhVQSs 703 (865)
.||+||||+||. + ..+++. .|.+..|+||.+||+||+.+|+..+..+ +.|++.+++|.+.-.. ..|.++-.
T Consensus 2 ~yVlDTSVIIDG--r-i~~~i~~g~~~~~~IiIP~~Vl~ELe~~A~~~r~~G--~~gLeeL~~L~~l~~~--g~i~ie~~ 74 (602)
T PRK13764 2 KIVPDTSVVIDG--R-VSELIEKGEYIGGTIIIPEAVVAELEAQANQGREIG--FSGLEELKKLRELAEE--GLIELEFV 74 (602)
T ss_pred eEEccceEEEec--h-HHHHHHcCCccCCEEEeehHHHHHHHHHhhccchhh--HHHHHHHHHHHHhhcc--CceEEEEe
Confidence 699999999999 1 115563 3469999999999999999999987554 5689999988875221 22333321
Q ss_pred ccCCcccCCCCCCCCCccccCCCcccccCCCCcccCCCCCCChHHHHHHHHHHHhcCCCcEEEEECChhhhhhhhcCCcc
Q 002923 704 VEEGRPIAPTPPASPQSQFSIGSGRFHCGSPTLTEIVSPTSEDHILDCALLFRKMKNDRCLVLLSNDVTMKIKAMAEGLI 783 (865)
Q Consensus 704 ~e~G~~Ia~tppasp~~~~~eg~~~f~~gt~~l~dl~s~tNDDrILdCAL~lq~~~~~~~VVLVTkDiNLRIKA~AeGI~ 783 (865)
.. + |.... ........+|+.|+++|.. ..++|||+|.|||.+|.+.||+
T Consensus 75 ~~--~------p~~~~----------------~~~~~~gevD~~I~~~A~~-------~~~~lvT~D~~l~~~A~~~GI~ 123 (602)
T PRK13764 75 GE--R------PTLEQ----------------IKLAKGGEIDALIREVAKE-------LGATLVTSDRVQAEVARAKGID 123 (602)
T ss_pred cc--c------cchhh----------------cccccCCCHHHHHHHHHHH-------cCCEEEeCCHHHHHHHHHcCCE
Confidence 10 0 00000 0111234689999999982 2699999999999999999999
Q ss_pred ccchh
Q 002923 784 CETAQ 788 (865)
Q Consensus 784 AEd~e 788 (865)
+....
T Consensus 124 V~~l~ 128 (602)
T PRK13764 124 VIYLK 128 (602)
T ss_pred EEEeC
Confidence 98655
No 8
>PLN02927 antheraxanthin epoxidase/zeaxanthin epoxidase
Probab=98.76 E-value=9.5e-09 Score=120.46 Aligned_cols=65 Identities=22% Similarity=0.537 Sum_probs=58.5
Q ss_pred CCCCCCCCccceEEEEcCCCCceEEEeCCCCCcccccceeccccccCCCCccccccceEEcCee-----cCCCCceecCC
Q 002923 1 MLTHPSISRFHLQIQSNPSSLKLSVIDLSSGNCLIFAFVTTFLSSYGSFPVGMVLHGTWVSEKK-----IEPGVPVEMDE 75 (865)
Q Consensus 1 ~L~hPsiSR~Ha~i~~~~~~~~~~v~DL~S~~~~~~~~~~~~~~~~~~~~~~~~~nGT~vN~~r-----I~~~~~~eL~~ 75 (865)
+|.+|.||++||.|.+.. +.|+|.||+| ||||||||.+ ..|+.+++|++
T Consensus 575 ~i~~~~vS~~Ha~i~~~~--~~~~~~Dl~S------------------------~nGT~v~~~~~~r~~~~p~~~~~l~~ 628 (668)
T PLN02927 575 VIPSSQVSKMHARVIYKD--GAFFLMDLRS------------------------EHGTYVTDNEGRRYRATPNFPARFRS 628 (668)
T ss_pred EecCCccChhHeEEEEEC--CEEEEEECCC------------------------CCccEEeCCCCceEecCCCCceEeCC
Confidence 477899999999999997 6999999999 9999998877 66899999999
Q ss_pred CCEEEEcCcee-eEEEE
Q 002923 76 GDTLKIGGSTR-VYRLH 91 (865)
Q Consensus 76 gD~ikfG~str-~y~l~ 91 (865)
||+|+||.... .|++.
T Consensus 629 ~d~I~~g~~~~~~fr~~ 645 (668)
T PLN02927 629 SDIIEFGSDKKAAFRVK 645 (668)
T ss_pred CCEEEeCCCcceeEEEE
Confidence 99999999753 58877
No 9
>KOG1880 consensus Nuclear inhibitor of phosphatase-1 [General function prediction only]
Probab=98.67 E-value=1e-08 Score=109.83 Aligned_cols=68 Identities=35% Similarity=0.629 Sum_probs=63.8
Q ss_pred CCCCCCCCccceEEEEcCCCCceEEEeCCCCCcccccceeccccccCCCCccccccceEEcCeecCCCCceecCCCCEEE
Q 002923 1 MLTHPSISRFHLQIQSNPSSLKLSVIDLSSGNCLIFAFVTTFLSSYGSFPVGMVLHGTWVSEKKIEPGVPVEMDEGDTLK 80 (865)
Q Consensus 1 ~L~hPsiSR~Ha~i~~~~~~~~~~v~DL~S~~~~~~~~~~~~~~~~~~~~~~~~~nGT~vN~~rI~~~~~~eL~~gD~ik 80 (865)
+++|.||||+||.+.|.....+++|+||+| +|||||...||++..+++|..|-++.
T Consensus 52 ~idh~scSrvhaa~vyhkhl~~~~lidl~s------------------------~hgtf~g~~rL~~~~p~~l~i~~~~~ 107 (337)
T KOG1880|consen 52 VIDHASCSRVHAALVYHKHLSRIFLIDLGS------------------------THGTFLGNERLEPHKPVQLEIGSTFH 107 (337)
T ss_pred EeecchhhhhHhhhhhhhccceEEEEEccC------------------------CcceeeeeeeeccCCCccccCCceEE
Confidence 478999999999888888756799999999 99999999999999999999999999
Q ss_pred EcCceeeEEEEe
Q 002923 81 IGGSTRVYRLHW 92 (865)
Q Consensus 81 fG~str~y~l~~ 92 (865)
||.|||.|.|..
T Consensus 108 fgasTr~y~lr~ 119 (337)
T KOG1880|consen 108 FGASTRIYLLRE 119 (337)
T ss_pred Eeccceeeeeec
Confidence 999999999983
No 10
>cd00060 FHA Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins localize to the nucleus, where they participate in establishing or maintaining cell cycle checkpoints, DNA repair, or transcriptional regulation. Members of the FHA family include: Dun1, Rad53, Cds1, Mek1, KAPP(kinase-associated protein phosphatase),and Ki-67 (a human nuclear protein related to cell proliferation).
Probab=98.67 E-value=9.8e-08 Score=82.98 Aligned_cols=64 Identities=34% Similarity=0.687 Sum_probs=56.5
Q ss_pred CCCCCCCccceEEEEcCCCCceEEEeCCCCCcccccceeccccccCCCCccccccceEEcCeecCCCCceecCCCCEEEE
Q 002923 2 LTHPSISRFHLQIQSNPSSLKLSVIDLSSGNCLIFAFVTTFLSSYGSFPVGMVLHGTWVSEKKIEPGVPVEMDEGDTLKI 81 (865)
Q Consensus 2 L~hPsiSR~Ha~i~~~~~~~~~~v~DL~S~~~~~~~~~~~~~~~~~~~~~~~~~nGT~vN~~rI~~~~~~eL~~gD~ikf 81 (865)
+.+++|||.||+|.+... .++++.|+.| .|||||||+++..+..+.|..||.|+|
T Consensus 37 l~~~~iS~~H~~i~~~~~-~~~~~~~~~s------------------------~~g~~vn~~~~~~~~~~~l~~gd~i~i 91 (102)
T cd00060 37 LDDPSVSRRHAVIRYDGD-GGVVLIDLGS------------------------TNGTFVNGQRVSPGEPVRLRDGDVIRL 91 (102)
T ss_pred cCCCCeeCcceEEEEcCC-CCEEEEECCC------------------------CCCeEECCEECCCCCcEECCCCCEEEE
Confidence 568999999999999985 6899999999 899999999999988999999999999
Q ss_pred cCceeeEEE
Q 002923 82 GGSTRVYRL 90 (865)
Q Consensus 82 G~str~y~l 90 (865)
|...-.|.+
T Consensus 92 g~~~~~~~~ 100 (102)
T cd00060 92 GNTSISFRF 100 (102)
T ss_pred CCeEEEEEE
Confidence 984444443
No 11
>COG1716 FOG: FHA domain [Signal transduction mechanisms]
Probab=98.53 E-value=1.9e-07 Score=91.03 Aligned_cols=58 Identities=28% Similarity=0.548 Sum_probs=53.2
Q ss_pred CCCCCCCCccceEEEEcCCCCceEEEeCCCCCcccccceeccccccCCCCccccccceEEcCeecCCCCceecCCCCEEE
Q 002923 1 MLTHPSISRFHLQIQSNPSSLKLSVIDLSSGNCLIFAFVTTFLSSYGSFPVGMVLHGTWVSEKKIEPGVPVEMDEGDTLK 80 (865)
Q Consensus 1 ~L~hPsiSR~Ha~i~~~~~~~~~~v~DL~S~~~~~~~~~~~~~~~~~~~~~~~~~nGT~vN~~rI~~~~~~eL~~gD~ik 80 (865)
++.++.|||+||.|.+.++ .+++.|++| +|||||||.++.. .+.+..||+|+
T Consensus 102 ~~~~~~vSR~Ha~l~~~~~--~~~~~d~~S------------------------~nGt~vn~~~v~~--~~~l~~gd~i~ 153 (191)
T COG1716 102 VLDDDVVSRRHAELRREGN--EVFLEDLGS------------------------TNGTYVNGEKVRQ--RVLLQDGDVIR 153 (191)
T ss_pred EcCCCccccceEEEEEeCC--ceEEEECCC------------------------CcceEECCeEccC--cEEcCCCCEEE
Confidence 4678999999999999984 899999999 8999999999986 46899999999
Q ss_pred EcCcee
Q 002923 81 IGGSTR 86 (865)
Q Consensus 81 fG~str 86 (865)
||....
T Consensus 154 i~~~~~ 159 (191)
T COG1716 154 LGGTLA 159 (191)
T ss_pred ECccce
Confidence 999988
No 12
>TIGR03354 VI_FHA type VI secretion system FHA domain protein. Members of this protein family are FHA (forkhead-associated) domain-containing proteins that are part of type VI secretion loci in a considerable number of bacteria, most of which are known pathogens. Species include Pseudomonas aeruginosa PAO1, Aeromonas hydrophila, Yersinia pestis, Burkholderia mallei, etc.
Probab=98.50 E-value=1.7e-07 Score=104.32 Aligned_cols=64 Identities=27% Similarity=0.457 Sum_probs=56.9
Q ss_pred CCCCCC--CCccceEEEEcCCCCceEEEeCCCCCcccccceeccccccCCCCccccccceEEc--CeecCCCCceecCCC
Q 002923 1 MLTHPS--ISRFHLQIQSNPSSLKLSVIDLSSGNCLIFAFVTTFLSSYGSFPVGMVLHGTWVS--EKKIEPGVPVEMDEG 76 (865)
Q Consensus 1 ~L~hPs--iSR~Ha~i~~~~~~~~~~v~DL~S~~~~~~~~~~~~~~~~~~~~~~~~~nGT~vN--~~rI~~~~~~eL~~g 76 (865)
+|.+|. |||.||+|.+.. +.|+|.|+ | +|||||| |.+|.++.++.|..|
T Consensus 37 ~l~d~~~~VS~~Ha~I~~~~--g~~~l~Dl-S------------------------tNGT~VN~sg~~l~~~~~~~L~~G 89 (396)
T TIGR03354 37 VLPDPERHVSGRHARIRYRD--GAYLLTDL-S------------------------TNGVFLNGSGSPLGRGNPVRLEQG 89 (396)
T ss_pred EeCCCCCCcchhhcEEEEEC--CEEEEEEC-C------------------------CCCeEECCCCCCCCCCCceEcCCC
Confidence 367888 999999999986 69999999 7 7999999 999999999999999
Q ss_pred CEEEEcCceeeEEEE
Q 002923 77 DTLKIGGSTRVYRLH 91 (865)
Q Consensus 77 D~ikfG~str~y~l~ 91 (865)
|+|+||..+..+.+.
T Consensus 90 D~I~iG~~~lrv~~~ 104 (396)
T TIGR03354 90 DRLRLGDYEIRVSLG 104 (396)
T ss_pred CEEEECCEEEEEEeC
Confidence 999999976655554
No 13
>smart00670 PINc Large family of predicted nucleotide-binding domains. From similarities to 5'-exonucleases, these domains are predicted to be RNases. PINc domains in nematode SMG-5 and yeast NMD4p are predicted to be involved in RNAi.
Probab=98.48 E-value=1.1e-07 Score=84.58 Aligned_cols=38 Identities=39% Similarity=0.546 Sum_probs=30.3
Q ss_pred EEEccceeccCCCchhHH--Hhhccc--CceEEEehhHHHHHhcccc
Q 002923 627 VVVDTSTLLDKESRKSLQ--LLQGLK--GTQLVIPRMVTRELDCLKQ 669 (865)
Q Consensus 627 fVLDTNVLLhdeslk~L~--lL~~fk--e~~VVIPiiVLEELDgLKK 669 (865)
+|+|||+||+. +. ++..+. ...++||.+|+.||..+.+
T Consensus 1 ~vlDTnvli~~-----~~~~~~~~~~~~~~~~~i~~~v~~El~~~~~ 42 (111)
T smart00670 1 VVLDTNVLIDG-----LIGKALEKLLEKKGEVYIPPTVLEELEYLAK 42 (111)
T ss_pred CEeeHHHHHHH-----HHHHHHHHHHcCCCcEEECHHHHHHHHHHHH
Confidence 58999999999 43 444443 3789999999999998754
No 14
>COG1412 Uncharacterized proteins of PilT N-term./Vapc superfamily [General function prediction only]
Probab=98.21 E-value=1.3e-06 Score=85.18 Aligned_cols=115 Identities=25% Similarity=0.287 Sum_probs=76.8
Q ss_pred CCCccEEEEEccceeccCC-C-chhHHHhhcccC--ceEEEehhHHHHHhccccCCcccchhhHHHHHHHHHHHHHhccc
Q 002923 620 EGRRGWTVVVDTSTLLDKE-S-RKSLQLLQGLKG--TQLVIPRMVTRELDCLKQRGNLFRRKSQVSSLLEWIEECMVKTK 695 (865)
Q Consensus 620 e~~rkk~fVLDTNVLLhde-s-lk~L~lL~~fke--~~VVIPiiVLEELDgLKKg~~l~rra~~ARrALrwLee~l~k~~ 695 (865)
..++++.+|+|||+|+.-. . ......|..+.+ +.++||-.|++||++|++..+...+ .+-|+.+++.+ .
T Consensus 6 ~~~~~~~VlvDTNfl~~~~q~~vdi~~~l~r~l~~~~~~~Ip~~Vi~EL~~l~~~~~~~~r---~~ia~~~~er~-~--- 78 (136)
T COG1412 6 GFRKPYQVLVDTNFLLYPYQFKVDIFEELERLLGAKYKPAIPSCVIRELEKLKRKHRGKAR---IAIALKYAERL-E--- 78 (136)
T ss_pred ccCCceEEEecchHHHHHHHccCCHHHHHHHHhcccccccchHHHHHHHHHHHHhcCchHH---HHHHHHHhhcc-C---
Confidence 3457789999999998762 1 112234444443 5999999999999999998664321 11222222111 0
Q ss_pred cceeccCcccCCcccCCCCCCCCCccccCCCcccccCCCCcccCCCCCCChHHHHHHHHHHHhcCCCcEEEEECChhhhh
Q 002923 696 WWIHIQSSVEEGRPIAPTPPASPQSQFSIGSGRFHCGSPTLTEIVSPTSEDHILDCALLFRKMKNDRCLVLLSNDVTMKI 775 (865)
Q Consensus 696 ~~IhVQSs~e~G~~Ia~tppasp~~~~~eg~~~f~~gt~~l~dl~s~tNDDrILdCAL~lq~~~~~~~VVLVTkDiNLRI 775 (865)
+.. ...-+|+.|++.|+.. ..+++.|||+.||=
T Consensus 79 --------------------------~~~---------------~~~~aDe~i~~~a~~~------~~~iVaTnD~eLk~ 111 (136)
T COG1412 79 --------------------------CIH---------------KGRYADECLLEAALKH------GRYIVATNDKELKR 111 (136)
T ss_pred --------------------------ccc---------------cCCChHHHHHHHHHHc------CCEEEEeCCHHHHH
Confidence 000 0112499999999832 37999999999999
Q ss_pred hhhcCCccccchh
Q 002923 776 KAMAEGLICETAQ 788 (865)
Q Consensus 776 KA~AeGI~AEd~e 788 (865)
+++..|||+....
T Consensus 112 rlr~~GIPvi~lr 124 (136)
T COG1412 112 RLRENGIPVITLR 124 (136)
T ss_pred HHHHcCCCEEEEe
Confidence 9999999998654
No 15
>smart00240 FHA Forkhead associated domain. Found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain.
Probab=98.14 E-value=2.4e-06 Score=67.41 Aligned_cols=40 Identities=43% Similarity=0.574 Sum_probs=35.8
Q ss_pred CCCCCCCCccceEEEEcCCCCceEEEeCCCCCcccccceeccccccCCCCccccccceEEcCeec
Q 002923 1 MLTHPSISRFHLQIQSNPSSLKLSVIDLSSGNCLIFAFVTTFLSSYGSFPVGMVLHGTWVSEKKI 65 (865)
Q Consensus 1 ~L~hPsiSR~Ha~i~~~~~~~~~~v~DL~S~~~~~~~~~~~~~~~~~~~~~~~~~nGT~vN~~rI 65 (865)
++.+|.|||.||.|.+.+. ..|+|.|++| +|||||||++|
T Consensus 13 ~~~~~~vs~~H~~i~~~~~-~~~~i~d~~s------------------------~~gt~vng~~v 52 (52)
T smart00240 13 QLPGPSISRRHAEIVYDGG-GRFYLIDLGS------------------------TNGTFVNGKRI 52 (52)
T ss_pred EeCCCCcchhHcEEEECCC-CeEEEEECCC------------------------CCCeeECCEEC
Confidence 3689999999999999885 3599999999 89999999986
No 16
>COG3456 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]
Probab=97.55 E-value=0.00017 Score=81.04 Aligned_cols=72 Identities=24% Similarity=0.342 Sum_probs=58.5
Q ss_pred CCCCccceEEEEcCCCCceEEEeCCCCCcccccceeccccccCCCCccccccceEEcCeecCCCCc-eecCCCCEEEEcC
Q 002923 5 PSISRFHLQIQSNPSSLKLSVIDLSSGNCLIFAFVTTFLSSYGSFPVGMVLHGTWVSEKKIEPGVP-VEMDEGDTLKIGG 83 (865)
Q Consensus 5 PsiSR~Ha~i~~~~~~~~~~v~DL~S~~~~~~~~~~~~~~~~~~~~~~~~~nGT~vN~~rI~~~~~-~eL~~gD~ikfG~ 83 (865)
-.||++||.|.++. +.|+|.|.++ +||||||-....|.. .+|+.||+|.||.
T Consensus 45 ~~VS~~Hc~I~~~d--g~f~L~DtS~-------------------------g~l~VNgs~~~~g~~~~RLqqGd~i~iG~ 97 (430)
T COG3456 45 RFVSKQHCTISYRD--GGFCLTDTSN-------------------------GGLLVNGSDLPLGEGSARLQQGDEILIGR 97 (430)
T ss_pred cccchhheEEEecC--CeEEEEecCC-------------------------CceeecccccCCCCCccccccCCEEeecc
Confidence 47999999999998 6999999987 899999999999998 9999999999998
Q ss_pred ceeeEEEEeecccc-cccCCCCCCCC
Q 002923 84 STRVYRLHWVPFSQ-AYDMNNPFVSP 108 (865)
Q Consensus 84 str~y~l~~~p~~~-~~d~~~p~~gP 108 (865)
|+++ |.++. .-|..+|-.++
T Consensus 98 ----y~i~-V~l~~~~~~~~~p~~g~ 118 (430)
T COG3456 98 ----YIIR-VHLSRAEPDESDPDTGS 118 (430)
T ss_pred ----EEEE-EEeccCCCCCcCcccCC
Confidence 5554 44443 44555554443
No 17
>COG4956 Integral membrane protein (PIN domain superfamily) [General function prediction only]
Probab=96.73 E-value=0.0044 Score=68.07 Aligned_cols=159 Identities=21% Similarity=0.298 Sum_probs=107.0
Q ss_pred cCCCccEEEEEccceeccCCCchhHHHhhcccCceEEEehhHHHHHhccccCCcccchhhHHHHHHHHHHHHHhccccce
Q 002923 619 GEGRRGWTVVVDTSTLLDKESRKSLQLLQGLKGTQLVIPRMVTRELDCLKQRGNLFRRKSQVSSLLEWIEECMVKTKWWI 698 (865)
Q Consensus 619 ~e~~rkk~fVLDTNVLLhdeslk~L~lL~~fke~~VVIPiiVLEELDgLKKg~~l~rra~~ARrALrwLee~l~k~~~~I 698 (865)
.+.+..+.-||||+|+|+- |-.--+=-+|-+-.|+||-.||.||..+...++...| .+-||-++-|++.....+..+
T Consensus 155 ~~~k~~~~KILDTSvIIDG--RI~di~~TGFleG~iiiP~FVL~ELQ~iADssD~lKR-~RGRRGLdILn~iqk~~~~~v 231 (356)
T COG4956 155 GEVKPKKPKILDTSVIIDG--RIADILQTGFLEGTIIIPQFVLLELQHIADSSDDLKR-NRGRRGLDILNEIQKEDPIQV 231 (356)
T ss_pred hcccCCCCeEeeeceEEcc--hHHHHHHhCCccceEeeeHHHHHHHHHHhhccchhhh-hcccchhHHHHHHHhhCCCcE
Confidence 4455556789999999999 3222222378899999999999999999998875433 236888988877643221111
Q ss_pred eccCcccCCcccCCCCCCCCCccccCCCcccccCCCCcccCCC-CCCChHHHHHHHHHHHhcCCCcEEEEECChhhhhhh
Q 002923 699 HIQSSVEEGRPIAPTPPASPQSQFSIGSGRFHCGSPTLTEIVS-PTSEDHILDCALLFRKMKNDRCLVLLSNDVTMKIKA 777 (865)
Q Consensus 699 hVQSs~e~G~~Ia~tppasp~~~~~eg~~~f~~gt~~l~dl~s-~tNDDrILdCAL~lq~~~~~~~VVLVTkDiNLRIKA 777 (865)
. |. ..|+.+ +.-|...+..|-.. .-.|||||-||-==|
T Consensus 232 ~----------I~------------------------~~Df~di~eVD~KLvklAk~~-------~g~lvTND~NLnKVa 270 (356)
T COG4956 232 E----------IY------------------------EGDFEDIPEVDSKLVKLAKVT-------GGKLVTNDFNLNKVA 270 (356)
T ss_pred E----------Ec------------------------cCCccchhhHHHHHHHHHHHh-------CCEEEeccCcHHHHH
Confidence 1 10 011211 35688888777522 357999999999999
Q ss_pred hcCCccccchhhHHHhhcCccc------ccccccCCCCCccccccCchhHH
Q 002923 778 MAEGLICETAQEFRESLVNPFS------ERFLWADSSPRGRTWSYLDDVVL 822 (865)
Q Consensus 778 ~AeGI~AEd~eeF~dsLvnp~S------~RF~w~~s~Prg~tws~~d~~~l 822 (865)
.-.|+++-...|...- +.|-- +=-+-.++.-+|+-..++||-.|
T Consensus 271 e~qgV~vLNINDLAnA-VkP~vlpGe~l~v~iiK~GkE~~QGVgYLdDGTM 320 (356)
T COG4956 271 ELQGVQVLNINDLANA-VKPVVLPGEELTVQIIKDGKEPGQGVGYLDDGTM 320 (356)
T ss_pred hhcCCceecHHHHHHH-hCCcccCCCeeEEEEeecCcccCCceEEecCCeE
Confidence 9999999888876522 22211 11256778888888899988554
No 18
>TIGR00305 probable toxin-antitoxin system toxin component, PIN family. This uncharacterized protein family, part of the PIN domain superfamily, is restricted to bacteria and archaea. A comprehensive in silico study of toxin-antitoxin systems by Makarova, et al. (2009) finds evidence this family represents the toxin-like component of one class of type 2 toxin-antitoxin systems.
Probab=96.10 E-value=0.018 Score=53.20 Aligned_cols=42 Identities=17% Similarity=-0.011 Sum_probs=28.1
Q ss_pred EEEccceeccCC-CchhHHHhh---cccCceEEEehhHHHHH-hccc
Q 002923 627 VVVDTSTLLDKE-SRKSLQLLQ---GLKGTQLVIPRMVTREL-DCLK 668 (865)
Q Consensus 627 fVLDTNVLLhde-slk~L~lL~---~fke~~VVIPiiVLEEL-DgLK 668 (865)
+|+||||+|+.+ .+.....|. .-....++|+-..+.|+ ..+.
T Consensus 2 vvlDTNVli~all~~~~~~~l~~~~~~~~~~~~~s~~~l~E~~~~l~ 48 (114)
T TIGR00305 2 VVIDTNVWISALIWKGLPGKLIKLIIDNKIVNCTSVEILQEVEFVLL 48 (114)
T ss_pred EEEEhHHHHHHHhCCCCHHHHHHHHHhCCEEEEECHHHHHHHHHHHh
Confidence 699999999975 222111121 12467899999999999 5553
No 19
>KOG1881 consensus Anion exchanger adaptor protein Kanadaptin, contains FHA domain [General function prediction only]
Probab=95.92 E-value=0.0043 Score=73.77 Aligned_cols=96 Identities=21% Similarity=0.115 Sum_probs=76.8
Q ss_pred CCCCCCCCccceEEEEcCCCCceEEEeCCCCCcccccceeccccccCCCCccccccceEEcCeecCCCCceecCCCCEEE
Q 002923 1 MLTHPSISRFHLQIQSNPSSLKLSVIDLSSGNCLIFAFVTTFLSSYGSFPVGMVLHGTWVSEKKIEPGVPVEMDEGDTLK 80 (865)
Q Consensus 1 ~L~hPsiSR~Ha~i~~~~~~~~~~v~DL~S~~~~~~~~~~~~~~~~~~~~~~~~~nGT~vN~~rI~~~~~~eL~~gD~ik 80 (865)
.++|||+|+.|+-|...+..... ++++-...++|++-..+++++-...-.+++.++
T Consensus 73 l~~hpS~S~~~~~~~S~p~~~~~------------------------~~p~s~e~~~s~v~d~p~P~~Gc~D~~el~e~~ 128 (793)
T KOG1881|consen 73 LLEHPSESDAAADEFSIPAPHPK------------------------PAPDAPEKHRSEVPDEPPPPEGCGDDEELAEAQ 128 (793)
T ss_pred cCCCcccccccccCcCCCcccCC------------------------CCCCchhhcCCCCccCCCCCCCccccccccccc
Confidence 37899999999988777642222 333334589999999999999999999999999
Q ss_pred EcCceeeEEEEeecccccccCCCCCCCCCChhhhhccCHHHHHHHHHH
Q 002923 81 IGGSTRVYRLHWVPFSQAYDMNNPFVSPMDLEEVENQGLEERNEMRLQ 128 (865)
Q Consensus 81 fG~str~y~l~~~p~~~~~d~~~p~~gP~~~~E~Es~~~~e~ke~r~~ 128 (865)
+|.++|.| +|.+.+|+..|||+||.... ..++.||+-++-
T Consensus 129 ~~~t~kis----~pa~~~py~vppw~~P~~~~----~~lEvlKeg~ii 168 (793)
T KOG1881|consen 129 IPKTPKIS----GPAAAAPYEVPPWSGPPAAI----FQLEVLKEGAII 168 (793)
T ss_pred cCCCcccc----ccCCCCcccCCCCCCCcccc----hhhhhhccCcee
Confidence 99999999 89999999999999994422 556667665553
No 20
>PF13470 PIN_3: PIN domain
Probab=94.85 E-value=0.12 Score=47.30 Aligned_cols=45 Identities=27% Similarity=0.290 Sum_probs=31.0
Q ss_pred EEEccceeccCCC-ch-hHHHhhc---ccCceEEEehhHHHHHhccccCC
Q 002923 627 VVVDTSTLLDKES-RK-SLQLLQG---LKGTQLVIPRMVTRELDCLKQRG 671 (865)
Q Consensus 627 fVLDTNVLLhdes-lk-~L~lL~~---fke~~VVIPiiVLEELDgLKKg~ 671 (865)
+||||||||+-+. ++ ....|.. -....+++.-.++.|+...-.+.
T Consensus 2 VvlDTNVli~~ll~~~~~~~~l~~~~~~~~~~~~~s~~~l~E~~~vl~r~ 51 (119)
T PF13470_consen 2 VVLDTNVLISALLSREPAARKLLDLAEDGRIELYISPEILDELERVLSRK 51 (119)
T ss_pred EEEEechhHHHHhCCCchHHHHHHHHHcCCCeEEecHHHHHHHHHHHhcc
Confidence 6999999999852 21 1222222 23678999999999999765443
No 21
>PRK04358 hypothetical protein; Provisional
Probab=94.83 E-value=0.083 Score=55.74 Aligned_cols=160 Identities=18% Similarity=0.178 Sum_probs=93.7
Q ss_pred ccEEEEEccceeccCCCchhH------HHhhcc----------cCceEEEehhHHHHHhccccCCcccc-----------
Q 002923 623 RGWTVVVDTSTLLDKESRKSL------QLLQGL----------KGTQLVIPRMVTRELDCLKQRGNLFR----------- 675 (865)
Q Consensus 623 rkk~fVLDTNVLLhdeslk~L------~lL~~f----------ke~~VVIPiiVLEELDgLKKg~~l~r----------- 675 (865)
++.-|||||.+|.+...++.+ .++..| .+-..+||-.|-.||-+|...+....
T Consensus 2 ~~qrfVLDTS~fT~p~vr~~fg~e~l~ea~~~~l~Lia~arl~l~is~YmPpSVy~El~~f~~~~~~~~e~~~kl~twi~ 81 (217)
T PRK04358 2 LKQRFVLDTSAFTDPDVREQFGVEDLEEAVEKFLDLIARARLKLGISCYMPPSVYKELRGFLERNGCSPEVIAKLDTWIV 81 (217)
T ss_pred CceEEEeeccccCCHHHHHHcCCCCHHHHHHHHHHHHHHhhhccCceEEcCHHHHHHHHHHHHhcCCCHHHHhhheeEEE
Confidence 445799999999987533211 122222 15678999999999999988765310
Q ss_pred ----h----hhHHHHHHHHHHHHHhccccceeccCcc--cCCcccCCCCCCCCCccccCCCcccccCCC------Ccc-c
Q 002923 676 ----R----KSQVSSLLEWIEECMVKTKWWIHIQSSV--EEGRPIAPTPPASPQSQFSIGSGRFHCGSP------TLT-E 738 (865)
Q Consensus 676 ----r----a~~ARrALrwLee~l~k~~~~IhVQSs~--e~G~~Ia~tppasp~~~~~eg~~~f~~gt~------~l~-d 738 (865)
+ .--|.-.-+||++.....+.|.+|--.. +++..... ...... ..+....+. +.+ .+. +
T Consensus 82 ~KsP~ry~v~IPA~i~ye~I~~mR~RInkGLRVAEeavrea~~~~~~--~~~~~~-~~~~v~~~I-~~lRekYReAlr~G 157 (217)
T PRK04358 82 KKSPNRYEIKIPAEIFYEYIEDMRERINKGLRVAEEAVREAALECYD--LSKEEI-EREVVGKII-SKLREKYREALRKG 157 (217)
T ss_pred EcCCCceeeeccHHHHHHHHHHHHHHHhcchHHHHHHHHHHHhhhcc--ccccch-hhhhHHHHH-HHHHHHHHHHHHcC
Confidence 0 0135666678888776666666662110 10000000 000000 000000000 000 011 3
Q ss_pred CCCCCCChHHHHHHHHHHHhcCCCcEEEEECChhhhhhhhcCCccccchhhHHHh
Q 002923 739 IVSPTSEDHILDCALLFRKMKNDRCLVLLSNDVTMKIKAMAEGLICETAQEFRES 793 (865)
Q Consensus 739 l~s~tNDDrILdCAL~lq~~~~~~~VVLVTkDiNLRIKA~AeGI~AEd~eeF~ds 793 (865)
+.....|=.+|.-|+.+ +.+|||+|..++.-|..+||.+.++..|..-
T Consensus 158 ~ldS~~DidvlaLA~EL-------da~lvTdD~giqn~A~~LGI~~~~~~~F~~~ 205 (217)
T PRK04358 158 ILDSAEDLDVLLLAKEL-------DAAVVSADEGIRKWAERLGLRFVDARKFPRM 205 (217)
T ss_pred cccchhhHHHHHHHHHh-------CCEEEeCCHHHHHHHHHcCCeeecHHHHHHH
Confidence 33446688888888866 6899999999999999999999999888733
No 22
>PRK12496 hypothetical protein; Provisional
Probab=94.69 E-value=0.027 Score=56.58 Aligned_cols=112 Identities=15% Similarity=0.156 Sum_probs=69.5
Q ss_pred EEEEccceeccCCCchhHHHhhcccCceEEEehhHHHHHhccccCCcccchhhHHHHHHHHHHHHHhccccceeccCccc
Q 002923 626 TVVVDTSTLLDKESRKSLQLLQGLKGTQLVIPRMVTRELDCLKQRGNLFRRKSQVSSLLEWIEECMVKTKWWIHIQSSVE 705 (865)
Q Consensus 626 ~fVLDTNVLLhdeslk~L~lL~~fke~~VVIPiiVLEELDgLKKg~~l~rra~~ARrALrwLee~l~k~~~~IhVQSs~e 705 (865)
++|+||+.||+- ... ....++||-.|++|+-.-+ ++..+..+ . ...||+++.+..
T Consensus 3 ~~VlDtS~~I~~-----~~~----~~~~i~tp~~V~~Ev~d~~-----------~~~~~~~l----~-~~~~i~v~~p~~ 57 (164)
T PRK12496 3 IKVLDASAFIHG-----YNP----EDGEHYTTPSVVEEVKDKE-----------SRLILESA----I-SAGKLKILEPSP 57 (164)
T ss_pred EEEEEChHHHcc-----chh----hCCCEEecHHHHHHHhCHH-----------HHHHHHHh----c-ccCCeEEECCCH
Confidence 799999999987 222 2456899999999986511 22222211 1 124777765442
Q ss_pred CCc-ccCCCCCCCCCccccCCCcccccCCCCcccCC-CCCCChHHHHHHHHHHHhcCCCcEEEEECChhhhhhhhcCCcc
Q 002923 706 EGR-PIAPTPPASPQSQFSIGSGRFHCGSPTLTEIV-SPTSEDHILDCALLFRKMKNDRCLVLLSNDVTMKIKAMAEGLI 783 (865)
Q Consensus 706 ~G~-~Ia~tppasp~~~~~eg~~~f~~gt~~l~dl~-s~tNDDrILdCAL~lq~~~~~~~VVLVTkDiNLRIKA~AeGI~ 783 (865)
... .+. .+...+ .++. ....|-.++..|+.+ +.+|||+|.++|.=|..+||.
T Consensus 58 ~~i~~v~---------~~a~~t----------gd~~~Ls~~D~~~iaLA~el-------~~~lvtDD~~~~~vA~~lgi~ 111 (164)
T PRK12496 58 ESIEKVE---------EAAIKT----------GDLMRLSNTDIEVLALALEL-------NGTLYTDDYGIQNVAKKLNIK 111 (164)
T ss_pred HHHHHHH---------HHHHhc----------CCccccchhhHHHHHHHHHh-------CCcEECcHHHHHHHHHHcCCe
Confidence 111 000 000000 0111 124688888888755 258999999999999999999
Q ss_pred ccchh
Q 002923 784 CETAQ 788 (865)
Q Consensus 784 AEd~e 788 (865)
..+..
T Consensus 112 v~~~~ 116 (164)
T PRK12496 112 FENIK 116 (164)
T ss_pred Eeccc
Confidence 98765
No 23
>COG1855 ATPase (PilT family) [General function prediction only]
Probab=94.58 E-value=0.13 Score=59.74 Aligned_cols=123 Identities=24% Similarity=0.303 Sum_probs=82.9
Q ss_pred cEEEEEccceeccCCCchhHHHhh--cccCceEEEehhHHHHHhccccCCcccchhhHHHHHHHHHHHHHhccccc-eec
Q 002923 624 GWTVVVDTSTLLDKESRKSLQLLQ--GLKGTQLVIPRMVTRELDCLKQRGNLFRRKSQVSSLLEWIEECMVKTKWW-IHI 700 (865)
Q Consensus 624 kk~fVLDTNVLLhdeslk~L~lL~--~fke~~VVIPiiVLEELDgLKKg~~l~rra~~ARrALrwLee~l~k~~~~-IhV 700 (865)
.+.+|+||+|+++- .....+. .+++-.|+||-.|+.||....++.+..+ ..+-.-++-|.+.- +.+ |.+
T Consensus 4 ~~~~v~DtSvivdG---r~t~~v~~G~~~g~~viipeAvvsele~qAn~Gr~~G--~~gLeEL~kL~~l~---~~g~i~~ 75 (604)
T COG1855 4 GMKYVPDTSVIVDG---RITEYVESGEIEGATVIIPEAVVSELEAQANRGREIG--FAGLEELKKLRDLA---DEGKIEL 75 (604)
T ss_pred ccEEeccceEEEcc---chhhhhhhCcccccEEEeeHHHHHHHHHHhccchhhh--hhHHHHHHHHHHHH---hcCcEEE
Confidence 46799999999998 2245566 5778899999999999999988877553 34555555554442 223 444
Q ss_pred cCcccCCcccCCCCCCCCCccccCCCcccccCCCCcccCCCCCCChHHHHHHHHHHHhcCCCcEEEEECChhhhhhhhcC
Q 002923 701 QSSVEEGRPIAPTPPASPQSQFSIGSGRFHCGSPTLTEIVSPTSEDHILDCALLFRKMKNDRCLVLLSNDVTMKIKAMAE 780 (865)
Q Consensus 701 QSs~e~G~~Ia~tppasp~~~~~eg~~~f~~gt~~l~dl~s~tNDDrILdCAL~lq~~~~~~~VVLVTkDiNLRIKA~Ae 780 (865)
+-.++ ++ ...+ | ......--|..|=.+|+.+ ..+|||.|.-=+-=|.|.
T Consensus 76 ~~~ge--rp------~~~~---------I-------k~ak~GEid~miR~vA~e~-------~a~lVTsD~vQ~~va~a~ 124 (604)
T COG1855 76 EFVGE--RP------TLEE---------I-------KRAKSGEIDAMIREVALEY-------GATLVTSDRVQRDVARAK 124 (604)
T ss_pred EEEec--cC------chhh---------h-------cccccccHHHHHHHHHHHh-------CcEEEechHHHHHHHHhc
Confidence 43221 11 0000 0 0011223488888888733 579999999999999999
Q ss_pred Ccccc
Q 002923 781 GLICE 785 (865)
Q Consensus 781 GI~AE 785 (865)
||.+.
T Consensus 125 Giev~ 129 (604)
T COG1855 125 GIEVE 129 (604)
T ss_pred CceEE
Confidence 99985
No 24
>KOG4689 consensus Predicted RNase [RNA processing and modification]
Probab=93.29 E-value=0.011 Score=66.27 Aligned_cols=49 Identities=10% Similarity=0.023 Sum_probs=34.6
Q ss_pred CccEEEEEccceeccCC-CchhHHHhhcccCceEEEehhHHHHHhccccC
Q 002923 622 RRGWTVVVDTSTLLDKE-SRKSLQLLQGLKGTQLVIPRMVTRELDCLKQR 670 (865)
Q Consensus 622 ~rkk~fVLDTNVLLhde-slk~L~lL~~fke~~VVIPiiVLEELDgLKKg 670 (865)
-+.-.++|||||.+.|. .+.+.+.+-....+.|++|..|+++|++.+++
T Consensus 128 ~~st~~~l~~~~~~sh~n~l~~~Rslis~~~~~~~~~~kvv~~l~~tek~ 177 (479)
T KOG4689|consen 128 LMSTEIDLEDDVHSSHANNLSDRRSLISIDTNILMNHLKVVRILKTTEKP 177 (479)
T ss_pred hhceeeehhhhhHHhhhhHHHHHHHHHHHhhhhhhcchhHHHhhhccCCC
Confidence 34467999999999994 23333333334477888999999999876554
No 25
>PF04900 Fcf1: Fcf1; InterPro: IPR006984 This family is comprises of uncharacterised eukaryotic proteins.
Probab=90.93 E-value=0.48 Score=43.49 Aligned_cols=38 Identities=21% Similarity=0.286 Sum_probs=31.4
Q ss_pred CCChHHHHHHHHHHHhcCCCcEEEEECChhhhhhhh-cCCccccc
Q 002923 743 TSEDHILDCALLFRKMKNDRCLVLLSNDVTMKIKAM-AEGLICET 786 (865)
Q Consensus 743 tNDDrILdCAL~lq~~~~~~~VVLVTkDiNLRIKA~-AeGI~AEd 786 (865)
.+||.|++.|. + +...++.|+|..||=+++ ..|||...
T Consensus 52 ~addci~~~~~---~---~~~~~VaT~D~~Lr~~lr~~~GvPvi~ 90 (101)
T PF04900_consen 52 SADDCILDLAG---K---NNKYIVATQDKELRRRLRKIPGVPVIY 90 (101)
T ss_pred CHHHHHHHHhc---c---CCeEEEEecCHHHHHHHhcCCCCCEEE
Confidence 46999999985 2 122999999999999999 88999864
No 26
>KOG0245 consensus Kinesin-like protein [Cytoskeleton]
Probab=81.26 E-value=4 Score=51.47 Aligned_cols=63 Identities=22% Similarity=0.435 Sum_probs=46.4
Q ss_pred CCCCCCCCccceEEEEcCCCCceEEEeCCCCCcccccceeccccccCCCCccccccceEEcCeecCCCCceecCCCCEEE
Q 002923 1 MLTHPSISRFHLQIQSNPSSLKLSVIDLSSGNCLIFAFVTTFLSSYGSFPVGMVLHGTWVSEKKIEPGVPVEMDEGDTLK 80 (865)
Q Consensus 1 ~L~hPsiSR~Ha~i~~~~~~~~~~v~DL~S~~~~~~~~~~~~~~~~~~~~~~~~~nGT~vN~~rI~~~~~~eL~~gD~ik 80 (865)
+|..+.|--+|+.|...+. ++++.+-..- ---|||||+.|. .+..|+-||.|-
T Consensus 493 ~LsG~~I~~qHC~i~~~~g-~~~vtl~p~e------------------------~aetyVNGk~v~--ep~qL~~GdRii 545 (1221)
T KOG0245|consen 493 VLSGQLIREQHCSIRNEGG-NDVVTLEPCE------------------------DAETYVNGKLVT--EPTQLRSGDRII 545 (1221)
T ss_pred EecchhhhhhceEEEecCC-CceEEeccCC------------------------ccceeEccEEcC--CcceeccCCEEE
Confidence 3667788899999988775 4433333333 467999999996 467899999999
Q ss_pred EcCceeeEEEE
Q 002923 81 IGGSTRVYRLH 91 (865)
Q Consensus 81 fG~str~y~l~ 91 (865)
+|++ .+|++.
T Consensus 546 lG~~-H~frfn 555 (1221)
T KOG0245|consen 546 LGGN-HVFRFN 555 (1221)
T ss_pred EcCc-eeEEec
Confidence 9995 345555
No 27
>KOG0615 consensus Serine/threonine protein kinase Chk2 and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=80.95 E-value=1.5 Score=50.65 Aligned_cols=38 Identities=21% Similarity=0.438 Sum_probs=32.8
Q ss_pred cccceEEcCeecCCCCceecCCCCEEEEcCcee-eEEEE
Q 002923 54 VLHGTWVSEKKIEPGVPVEMDEGDTLKIGGSTR-VYRLH 91 (865)
Q Consensus 54 ~~nGT~vN~~rI~~~~~~eL~~gD~ikfG~str-~y~l~ 91 (865)
|+||||||.+.|-.+..-.|..||.|.+|-++- .|++.
T Consensus 118 S~nGT~VN~e~i~k~~~r~lkN~dei~is~p~~~~~v~~ 156 (475)
T KOG0615|consen 118 SRNGTFVNDEMIGKGLSRILKNGDEISISIPALKIFVFE 156 (475)
T ss_pred ccCcccccHhHhhccccccccCCCEEEeccchhheeeee
Confidence 459999999999999999999999999997743 56665
No 28
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=78.03 E-value=4 Score=42.40 Aligned_cols=65 Identities=17% Similarity=0.152 Sum_probs=46.9
Q ss_pred CCChHHHHHHHHHHHhcCCCcEEEEECChhhhhhhhcCCccccc-hhhHHHhhcCcccccccccCCCCCccccccCchhH
Q 002923 743 TSEDHILDCALLFRKMKNDRCLVLLSNDVTMKIKAMAEGLICET-AQEFRESLVNPFSERFLWADSSPRGRTWSYLDDVV 821 (865)
Q Consensus 743 tNDDrILdCAL~lq~~~~~~~VVLVTkDiNLRIKA~AeGI~AEd-~eeF~dsLvnp~S~RF~w~~s~Prg~tws~~d~~~ 821 (865)
..|=.+|+-||.+... .+|+|+|.|-++..=|+.+||.... ...+ +-...|-| +.+-|.|.--+-
T Consensus 85 ~tDi~VlalAlel~~~---~~v~l~TdDysvQNVa~~Lgi~~~~~~~~~------~I~~v~~w-----~~rC~GC~~~f~ 150 (177)
T COG1439 85 PTDIEVLALALELGEE---VQVALATDDYSVQNVALQLGLNVRSISYKG------KIKKVRKW-----RLRCHGCKRIFP 150 (177)
T ss_pred hhhHHHHHHHHhhccc---cceeEEecchHHHHHHHHhCceEEeeeccC------ccceEeee-----eEEEecCceecC
Confidence 3588899999988774 5699999999999999999999874 1111 12334455 466777765444
No 29
>COG5573 Predicted nucleic-acid-binding protein, contains PIN domain [General function prediction only]
Probab=76.86 E-value=2.2 Score=42.64 Aligned_cols=43 Identities=19% Similarity=0.251 Sum_probs=27.3
Q ss_pred EEEccceeccCCC-------chhHHHhhcccCceEEEehhHHHHHhcccc
Q 002923 627 VVVDTSTLLDKES-------RKSLQLLQGLKGTQLVIPRMVTRELDCLKQ 669 (865)
Q Consensus 627 fVLDTNVLLhdes-------lk~L~lL~~fke~~VVIPiiVLEELDgLKK 669 (865)
.-||||++|.-+. ++...-|..-.++.+|||.-||.|+=.-=+
T Consensus 6 ~flDsNI~iYa~~~~~~~~kr~~a~~L~~a~~~~~VVs~QVl~Et~~vl~ 55 (142)
T COG5573 6 AFLDSNILIYALDNNAGEKKRDAAEVLEQALGHTYVVSVQVLNETCYVLK 55 (142)
T ss_pred hhhccchhhhhhcccchhhHHHHHHHHHHhcCceEEEehHHHHHHHHHHH
Confidence 3589999998752 111222222235569999999999865433
No 30
>PF05991 NYN_YacP: YacP-like NYN domain; InterPro: IPR010298 This family consists of several hypothetical bacterial proteins as well as some uncharacterised sequences from Arabidopsis thaliana. The function of this family is unknown.
Probab=75.56 E-value=3.6 Score=41.41 Aligned_cols=52 Identities=19% Similarity=0.229 Sum_probs=46.3
Q ss_pred CCCChHHHHHHHHHHHhcCCCcEEEEECChhhhhhhhcCCccccchhhHHHhhc
Q 002923 742 PTSEDHILDCALLFRKMKNDRCLVLLSNDVTMKIKAMAEGLICETAQEFRESLV 795 (865)
Q Consensus 742 ~tNDDrILdCAL~lq~~~~~~~VVLVTkDiNLRIKA~AeGI~AEd~eeF~dsLv 795 (865)
.+.|+.|-..+-.+.+. ..+|+.||.|..++-=|.+.|-.+.+.++|.+.+.
T Consensus 77 ~tAD~~Ie~~v~~~~~~--~~~v~VVTSD~~iq~~~~~~GA~~iss~ef~~~l~ 128 (166)
T PF05991_consen 77 ETADDYIERLVRELKNR--PRQVTVVTSDREIQRAARGRGAKRISSEEFLRELK 128 (166)
T ss_pred CCHHHHHHHHHHHhccC--CCeEEEEeCCHHHHHHHhhCCCEEEcHHHHHHHHH
Confidence 58999999999876652 47999999999999999999999999999997775
No 31
>PF14367 DUF4411: Domain of unknown function (DUF4411)
Probab=73.39 E-value=1.3 Score=44.25 Aligned_cols=46 Identities=22% Similarity=0.360 Sum_probs=33.1
Q ss_pred CCCChHHHHHHHHHHHhcCCCcEEEEECChh------hhhh----hhcCCccccchhhHHHhh
Q 002923 742 PTSEDHILDCALLFRKMKNDRCLVLLSNDVT------MKIK----AMAEGLICETAQEFRESL 794 (865)
Q Consensus 742 ~tNDDrILdCAL~lq~~~~~~~VVLVTkDiN------LRIK----A~AeGI~AEd~eeF~dsL 794 (865)
..+|=.|+++|+.. ..++||.-+- .++| |...||+|.+.-+|++.+
T Consensus 103 ~~ADp~LIA~A~~~-------~~~VVT~E~~~~~~~~~~~KIPdvC~~~gV~ci~~~~~lr~~ 158 (162)
T PF14367_consen 103 SVADPWLIAYAKAY-------GATVVTHEVSNPNKKKKKIKIPDVCEHFGVPCINLFEFLREL 158 (162)
T ss_pred ccCCHHHHHHHHhc-------CCEEEccCCCCCCCCccCCCCChhHHhCCCcCCCHHHHHHHh
Confidence 57899999999842 2377886654 1233 456899999999998654
No 32
>PF08745 UPF0278: UPF0278 family; InterPro: IPR022785 This entry contains proteins of the UPF0278 family and proteins containing PIN domains. Members of the UPF0278 family are uncharacterised and about 200 amino acids in length.; PDB: 2LCQ_A.
Probab=72.70 E-value=1.7 Score=45.81 Aligned_cols=152 Identities=22% Similarity=0.263 Sum_probs=22.9
Q ss_pred EEEccceeccCCCchhH------HHhhccc----------CceEEEehhHHHHHhccccCCcc----cc-----------
Q 002923 627 VVVDTSTLLDKESRKSL------QLLQGLK----------GTQLVIPRMVTRELDCLKQRGNL----FR----------- 675 (865)
Q Consensus 627 fVLDTNVLLhdeslk~L------~lL~~fk----------e~~VVIPiiVLEELDgLKKg~~l----~r----------- 675 (865)
|||||.+|.+...++.. .++..|- +-..+||-.|-.||-+|..++.- ..
T Consensus 2 FVLDTS~fTdp~vr~~fG~~~l~ea~~~~l~Lia~arl~l~is~YmPpSVy~El~~fl~~~~~~~e~~~k~~twvv~KsP 81 (205)
T PF08745_consen 2 FVLDTSAFTDPEVREQFGDEDLCEAVEKFLDLIARARLKLGISCYMPPSVYKELKNFLERNGCDEEVISKLDTWVVKKSP 81 (205)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 89999999987533321 1222221 45789999999999999985541 00
Q ss_pred h----hhHHHHHHHHHHHHHhccccceeccCcccCCcccCCCCCCCCCccccCC----CcccccCCC------Ccc-cCC
Q 002923 676 R----KSQVSSLLEWIEECMVKTKWWIHIQSSVEEGRPIAPTPPASPQSQFSIG----SGRFHCGSP------TLT-EIV 740 (865)
Q Consensus 676 r----a~~ARrALrwLee~l~k~~~~IhVQSs~e~G~~Ia~tppasp~~~~~eg----~~~f~~gt~------~l~-dl~ 740 (865)
+ .--|.-.-+||++.....+.|.+|--.. ... +.....-.+. ...+ .+.+ .+. ++.
T Consensus 82 ~ryev~IPA~i~yEyI~emR~RInKGLRVAEea--vre------a~~~~~~~~~~~~~i~~~-I~~lRekYRealr~G~l 152 (205)
T PF08745_consen 82 DRYEVKIPAEIFYEYIEEMRERINKGLRVAEEA--VRE------AAQETYKEEIEREVIGEI-IRKLREKYREALRKGIL 152 (205)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred ccccccccccccccccccccccccccccccccc--ccc------cccccccccccccccccc-ccccccccccccccccC
Confidence 0 0124444467777655555555552111 000 0000000000 0000 0000 011 122
Q ss_pred CCCCChHHHHHHHHHHHhcCCCcEEEEECChhhhhhhhcCCccccchhhHHHhh
Q 002923 741 SPTSEDHILDCALLFRKMKNDRCLVLLSNDVTMKIKAMAEGLICETAQEFRESL 794 (865)
Q Consensus 741 s~tNDDrILdCAL~lq~~~~~~~VVLVTkDiNLRIKA~AeGI~AEd~eeF~dsL 794 (865)
...+|=-+|--|+.+ +-+|||+|.+++-=|..+||...++..|..-|
T Consensus 153 dS~~D~dvl~LA~El-------~a~lvt~D~gi~~~A~~lGi~~i~~~~F~~~L 199 (205)
T PF08745_consen 153 DSREDIDVLLLALEL-------DAVLVTDDYGIQNWAEKLGIRFIDARDFPRML 199 (205)
T ss_dssp --HHHHHHHHHHHHH-------T--EE---HHHHHHHHHTT--EE---------
T ss_pred CChHhHHHHHHHHHc-------CCEEEeCCHhHHHHHHHCCCEEEecccccccc
Confidence 234566666666644 46899999999999999999999999887443
No 33
>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase. Note that the EC number for the kinase function is: 2.7.1.78
Probab=72.62 E-value=6.5 Score=46.61 Aligned_cols=66 Identities=17% Similarity=0.259 Sum_probs=56.2
Q ss_pred CCCCCCccceEEEEcCCCCceEEEeCCCCCcccccceeccccccCCCCccccccceEEcCeecCCCCceecCCCCEEEEc
Q 002923 3 THPSISRFHLQIQSNPSSLKLSVIDLSSGNCLIFAFVTTFLSSYGSFPVGMVLHGTWVSEKKIEPGVPVEMDEGDTLKIG 82 (865)
Q Consensus 3 ~hPsiSR~Ha~i~~~~~~~~~~v~DL~S~~~~~~~~~~~~~~~~~~~~~~~~~nGT~vN~~rI~~~~~~eL~~gD~ikfG 82 (865)
.+..|||+..+++.+-..+.+.|..||. |=|-|||.-+.++.-++|++||++.+=
T Consensus 45 ~d~~cs~~qv~l~a~~~~~~v~~k~lg~-------------------------np~~~~~~~~~~~~~~~l~~g~~l~~v 99 (526)
T TIGR01663 45 RDRKCSKRQIELQADLEKATVALKQLGV-------------------------NPCGTGGLELKPGGEGELGHGDLLEIV 99 (526)
T ss_pred chhhhchhhheeeecccCceEEEEEccC-------------------------CCcccCceEecCCCeeeecCCCEEEEe
Confidence 4677899988888887777888999998 778899999999999999999999997
Q ss_pred CceeeEEEEee
Q 002923 83 GSTRVYRLHWV 93 (865)
Q Consensus 83 ~str~y~l~~~ 93 (865)
+-.--|.+.|-
T Consensus 100 ~~~~~~~~~f~ 110 (526)
T TIGR01663 100 NGLHPLTLQFE 110 (526)
T ss_pred ccccceeEEee
Confidence 66666777753
No 34
>PF01850 PIN: PIN domain; InterPro: IPR002716 The PilT protein, N-terminal domain (PIN) is a compact domain of about 100 amino acids. The domain has two nearly invariant aspartates and forms a coiled-coil with other monomer units to polymerise a pilus fibre []. The function of the PIN domain is unknown but a role in signalling appears likely given the presence of this domain in some bacterial plasmid stability proteins and Dis3 from yeast that is implicated in mitotic control [].; PDB: 3TND_G 2H1O_B 2BSQ_B 2H1C_A 2FE1_A 3ZVK_C 1V8P_F 1V8O_C 3H87_A 1O4W_A ....
Probab=69.52 E-value=2.6 Score=37.50 Aligned_cols=42 Identities=31% Similarity=0.425 Sum_probs=28.3
Q ss_pred EEEccceeccCC-----CchhHHHhhcccCceEEEehhHHHHHhccccC
Q 002923 627 VVVDTSTLLDKE-----SRKSLQLLQGLKGTQLVIPRMVTRELDCLKQR 670 (865)
Q Consensus 627 fVLDTNVLLhde-----slk~L~lL~~fke~~VVIPiiVLEELDgLKKg 670 (865)
+++|||++|.-. ..+..+.+... ..++||..|+-|+-..-.+
T Consensus 1 i~lDTsili~~~~~~~~~~~~~~~~~~~--~~~~is~~~~~E~~~~~~~ 47 (121)
T PF01850_consen 1 ILLDTSILIALLRDEENHEKARELLERA--IEIVISSLVLAELLYVLRR 47 (121)
T ss_dssp EEE-HHHHHHHHSHSCHHHHHHHHHHTH--SEEEEEHHHHHHHHHHHHH
T ss_pred EEEcChhhccccCCChhHHHHHHHHhcC--CCEEEcHHHHHHHHHHhhh
Confidence 689999999553 11222333322 8999999999999886555
No 35
>TIGR00028 Mtu_PIN_fam Mycobacterium tuberculosis PIN domain family. Members of this protein consist almost entirely of a PIN (PilT N terminus) domain (see Pfam pfam01850). This family was originally defined a set of twelve closely related paralogs found in Mycobacterium tuberculosis. Two more are now found in Synechococcus sp. WH8102. The specific function is unknown but may be in signal transduction.
Probab=64.52 E-value=5.6 Score=36.85 Aligned_cols=40 Identities=20% Similarity=0.294 Sum_probs=24.3
Q ss_pred EEEccceeccCCCch------hHHHhhcc-cCc-eEEEehhHHHHHhcc
Q 002923 627 VVVDTSTLLDKESRK------SLQLLQGL-KGT-QLVIPRMVTRELDCL 667 (865)
Q Consensus 627 fVLDTNVLLhdeslk------~L~lL~~f-ke~-~VVIPiiVLEELDgL 667 (865)
++||||+||.-+... +...+... ... .++.| +|+.|+-..
T Consensus 2 i~lDTnvli~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~-~vl~E~~~~ 49 (142)
T TIGR00028 2 LLLDVNVLLAAVNRDHPHHDAARAWLDRFAAGGDWATCP-LTLAGFVRL 49 (142)
T ss_pred ccchhhHHHHhcCCCCcchHHHHHHHHHHhcCCCceech-hhhhhheee
Confidence 689999999765321 22233332 223 45555 999998764
No 36
>COG1569 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]
Probab=63.65 E-value=17 Score=36.77 Aligned_cols=49 Identities=18% Similarity=0.200 Sum_probs=34.6
Q ss_pred CCCCChHHHHHHHHHHHhcCCCcEEEEECChhhhhhhhcCC-ccccchhhHHHhhc
Q 002923 741 SPTSEDHILDCALLFRKMKNDRCLVLLSNDVTMKIKAMAEG-LICETAQEFRESLV 795 (865)
Q Consensus 741 s~tNDDrILdCAL~lq~~~~~~~VVLVTkDiNLRIKA~AeG-I~AEd~eeF~dsLv 795 (865)
.+..|+..|+.|+.=+. =+|||.|.-|=+==--++ +..-++++|++..+
T Consensus 89 RDp~Dn~~L~~A~~~kA------~~lvTgD~dLL~lr~~n~~~~Iltp~eF~~~~~ 138 (142)
T COG1569 89 RDPKDNKLLALAYESKA------DYLVTGDQDLLVLRDENKRVEILTPQEFLEEVL 138 (142)
T ss_pred CCchHHHHHHHHHhccC------CEEEEcchhhheecccCCcEEEcCHHHHHHHHH
Confidence 34679999999984332 378999986654444444 77788899987654
No 37
>COG1848 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]
Probab=62.05 E-value=2.9 Score=39.66 Aligned_cols=46 Identities=28% Similarity=0.385 Sum_probs=34.3
Q ss_pred EEEccceeccCCCch------hHHHhhccc--CceEEEehhHHHHHhccccCCc
Q 002923 627 VVVDTSTLLDKESRK------SLQLLQGLK--GTQLVIPRMVTRELDCLKQRGN 672 (865)
Q Consensus 627 fVLDTNVLLhdeslk------~L~lL~~fk--e~~VVIPiiVLEELDgLKKg~~ 672 (865)
+++|||||+...... +...+.... ...+++|.+|+.|+=.+-.+..
T Consensus 2 i~~Dtnvlv~~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~~v~~e~~~v~~~~~ 55 (140)
T COG1848 2 IVIDTNVLVYALFRDHPHHDRARELLERLEAGDIRVYTPELVLAELLRVLTRRR 55 (140)
T ss_pred eeeehHHHHHHHHccChhHHHHHHHHHHHhcCCCceeecHHHHHHHHHHHhhcc
Confidence 689999999886332 344454444 4579999999999998877753
No 38
>PF02626 AHS2: Allophanate hydrolase subunit 2; InterPro: IPR003778 Allophanate hydrolase catalyses the second reaction in an ATP-dependent, two-step degradation of urea to ammonia and C02. This follows the action of the biotin-containing urea carboxylase. Saccharomyces cerevisiae can use urea as a sole nitrogen source via this degradation pathway []. In yeast, the fusion of allophanate hydrolase to urea carboxylase is called urea amidolyase. In bacteria, the second step in the urea degradation pathway is also the ATP-dependent allophanate hydrolase. The gene encoding this enzyme is found adjacent to the urea carboxylase gene []. Allophanate hydrolase has strict substrate specificity, as analogues of allophanate are not hydrolysed by it []. This domain represents subunit 2 of allophanate hydrolase (AHS2) which is found in urea carboxylase.; PDB: 3MML_G 3VA7_A 3OEP_A 3OPF_C 3ORE_B.
Probab=57.38 E-value=9.8 Score=41.53 Aligned_cols=36 Identities=25% Similarity=0.326 Sum_probs=27.4
Q ss_pred cceEEcCeecCCCCceecCCCCEEEEcCc---eeeEEEE
Q 002923 56 HGTWVSEKKIEPGVPVEMDEGDTLKIGGS---TRVYRLH 91 (865)
Q Consensus 56 nGT~vN~~rI~~~~~~eL~~gD~ikfG~s---tr~y~l~ 91 (865)
-.-.|||++|+..+.+.++.||+|+||.. .|.|.-.
T Consensus 55 ~~~~lng~~~~~~~~~~v~~Gd~L~~~~~~~G~r~YLAv 93 (271)
T PF02626_consen 55 FEATLNGKPVPMWQPFLVKAGDVLKFGPPRSGARAYLAV 93 (271)
T ss_dssp EEEEETTEEE-TTSEEEE-TT-EEEEEEESSECEEEEEE
T ss_pred CceEECCEEccCCEEEEECCCCEEEecCCCCccEEEEEe
Confidence 34678999999999999999999999866 5666554
No 39
>COG1487 VapC Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]
Probab=56.75 E-value=4.2 Score=38.55 Aligned_cols=44 Identities=16% Similarity=0.069 Sum_probs=28.6
Q ss_pred EEEEccceeccCCCc-hhHHHhhcccCceEEEehhHHHHHhcccc
Q 002923 626 TVVVDTSTLLDKESR-KSLQLLQGLKGTQLVIPRMVTRELDCLKQ 669 (865)
Q Consensus 626 ~fVLDTNVLLhdesl-k~L~lL~~fke~~VVIPiiVLEELDgLKK 669 (865)
-+++|||++++.... ........+....+.+|.+|+-||-.=..
T Consensus 3 ~~llDTnv~i~l~~~~~~~~~~~~~~~~~~~~s~it~~El~~g~~ 47 (133)
T COG1487 3 MYLLDTSVIIALLRGEPKELLELRLAEFEIYLSSITVAELLLGAL 47 (133)
T ss_pred ceeeeHHHHHHHHhcCChHHHHHHHhcCCeeecHHHHHHHHHHHH
Confidence 379999999995311 11111222334789999999999976433
No 40
>PRK13725 plasmid maintenance protein; Provisional
Probab=56.29 E-value=4.4 Score=39.05 Aligned_cols=40 Identities=18% Similarity=0.150 Sum_probs=27.0
Q ss_pred EEEccceeccCCCchh---HHHhhcccCceEEEehhHHHHHhcc
Q 002923 627 VVVDTSTLLDKESRKS---LQLLQGLKGTQLVIPRMVTRELDCL 667 (865)
Q Consensus 627 fVLDTNVLLhdeslk~---L~lL~~fke~~VVIPiiVLEELDgL 667 (865)
|+||||++++.+-.+. ...+. .....++|+.+++-||-.-
T Consensus 4 yLLDTni~i~~~~~~~~~v~~~~~-~~~~~~~iS~It~~EL~~G 46 (132)
T PRK13725 4 FMLDTNICIFTIKNKPEHVRERFN-LNTGRMCISSVTLMELIYG 46 (132)
T ss_pred hhhhHHHHHHHHhCCcHHHHHHHh-CCCcceeehHHHHHHHHHH
Confidence 8999999999742111 12222 2245799999999999653
No 41
>KOG1892 consensus Actin filament-binding protein Afadin [Cytoskeleton]
Probab=46.63 E-value=15 Score=46.45 Aligned_cols=28 Identities=21% Similarity=0.407 Sum_probs=23.4
Q ss_pred cceEEcCeecCCCCceecCCCCEEEEcCce
Q 002923 56 HGTWVSEKKIEPGVPVEMDEGDTLKIGGST 85 (865)
Q Consensus 56 nGT~vN~~rI~~~~~~eL~~gD~ikfG~st 85 (865)
--|||||.+|.. +.-|+.|+.|+||.+-
T Consensus 422 A~t~VnGh~isq--ttiL~~G~~v~fGa~h 449 (1629)
T KOG1892|consen 422 AETYVNGHRISQ--TTILQSGMKVQFGASH 449 (1629)
T ss_pred hhhhccceecch--hhhhccCCEEEeccce
Confidence 358999999974 4579999999999873
No 42
>KOG3165 consensus Predicted nucleic-acid-binding protein, contains PIN domain [General function prediction only]
Probab=43.92 E-value=11 Score=39.08 Aligned_cols=48 Identities=25% Similarity=0.283 Sum_probs=32.8
Q ss_pred CCccEEEEEccceeccCCCchhHHHhhcc-----cCceEEEehhHHHHHhcccc
Q 002923 621 GRRGWTVVVDTSTLLDKESRKSLQLLQGL-----KGTQLVIPRMVTRELDCLKQ 669 (865)
Q Consensus 621 ~~rkk~fVLDTNVLLhdeslk~L~lL~~f-----ke~~VVIPiiVLEELDgLKK 669 (865)
=+.+-.+++|||.+=.. ..+-+++.+++ .....+||=-|+-||++|-.
T Consensus 60 L~PPy~vivDTNFINfs-i~~KiDi~~gmmdcl~Ak~~pcitDCVmaELEkLg~ 112 (195)
T KOG3165|consen 60 LGPPYHVIVDTNFINFS-IQNKIDLFEGMMDCLYAKCIPCITDCVMAELEKLGQ 112 (195)
T ss_pred cCCCeEEEEecchhhHH-HHhHHHHHHHHHHHHHhccccchhHHHHHHHHHhcc
Confidence 34567899999965333 12234444443 36789999999999999844
No 43
>smart00797 AHS2 Allophanate hydrolase subunit 2. This domain represents subunit 2 of allophanate hydrolase (AHS2).
Probab=43.64 E-value=25 Score=38.67 Aligned_cols=34 Identities=21% Similarity=0.392 Sum_probs=28.6
Q ss_pred eEEcCeecCCCCceecCCCCEEEEcCc---eeeEEEE
Q 002923 58 TWVSEKKIEPGVPVEMDEGDTLKIGGS---TRVYRLH 91 (865)
Q Consensus 58 T~vN~~rI~~~~~~eL~~gD~ikfG~s---tr~y~l~ 91 (865)
-.|||++|.+...+.++.||+|+||.. .|.|.-.
T Consensus 57 ~~ln~~~~~~~~~~~v~~Gd~L~~g~~~~G~R~YLAv 93 (280)
T smart00797 57 ATLDGQPVPPWKPFLVRAGQVLSLGAPKAGARAYLAV 93 (280)
T ss_pred eeECCEEcCCCeEEEECCCCEEEeCCCCCccEEEEEE
Confidence 468999999999999999999999965 5777543
No 44
>TIGR02500 type_III_yscD type III secretion apparatus protein, YscD/HrpQ family. This family represents a conserved protein of bacterial type III secretion systems. Gene symbols are variable from species to species. Members are designated YscD in Yersinia, HrpQ in Pseudomonas syringae, and EscD in enteropathogenic Escherichia coli. In the Chlamydiae, this model describes the C-terminal 400 residues of a longer protein.
Probab=41.35 E-value=44 Score=38.26 Aligned_cols=24 Identities=13% Similarity=0.325 Sum_probs=19.3
Q ss_pred CCCCCCCCccceEEEEcCCCCceEEE
Q 002923 1 MLTHPSISRFHLQIQSNPSSLKLSVI 26 (865)
Q Consensus 1 ~L~hPsiSR~Ha~i~~~~~~~~~~v~ 26 (865)
+|.+|+||+.|+.|....+ ++.+.
T Consensus 34 ~L~d~~~~~~h~~l~v~~~--~~~l~ 57 (410)
T TIGR02500 34 VLSDGGIAAVHVSLHVRLE--GVTLA 57 (410)
T ss_pred EeCCCCccchheEEEEcCc--eEEEe
Confidence 4789999999999999874 54444
No 45
>KOG2293 consensus Daxx-interacting protein MSP58/p78, contains FHA domain [Transcription; Signal transduction mechanisms]
Probab=37.01 E-value=66 Score=38.65 Aligned_cols=60 Identities=17% Similarity=0.254 Sum_probs=50.9
Q ss_pred CCCccceEEEEcCCCCceEEEeCCCCCcccccceeccccccCCCCccccccceEEcCeecCCCCceecCCCCEEEEcCce
Q 002923 6 SISRFHLQIQSNPSSLKLSVIDLSSGNCLIFAFVTTFLSSYGSFPVGMVLHGTWVSEKKIEPGVPVEMDEGDTLKIGGST 85 (865)
Q Consensus 6 siSR~Ha~i~~~~~~~~~~v~DL~S~~~~~~~~~~~~~~~~~~~~~~~~~nGT~vN~~rI~~~~~~eL~~gD~ikfG~st 85 (865)
-|||..|+|.+... +.|+|-.||- --.||||.+|.+|.-+.|...-+|.|-+-+
T Consensus 473 KISRRQa~IkL~n~-GsF~IkNlGK-------------------------~~I~vng~~l~~gq~~~L~~nclveIrg~~ 526 (547)
T KOG2293|consen 473 KISRRQALIKLKND-GSFFIKNLGK-------------------------RSILVNGGELDRGQKVILKNNCLVEIRGLR 526 (547)
T ss_pred eeeccceeEEeccC-CcEEeccCcc-------------------------eeEEeCCccccCCceEEeccCcEEEEccce
Confidence 48999999998876 8899999987 567999999999999999999999998777
Q ss_pred eeEEEE
Q 002923 86 RVYRLH 91 (865)
Q Consensus 86 r~y~l~ 91 (865)
.+|...
T Consensus 527 FiF~~N 532 (547)
T KOG2293|consen 527 FIFEIN 532 (547)
T ss_pred EEEeec
Confidence 555443
No 46
>TIGR03875 RNA_lig_partner RNA ligase partner, MJ_0950 family. This uncharacterized protein family is found almost perfectly in the same set of genomes as the Pab1020 family described by model TIGR01209. These pairs are found mostly in Archaea, but also in a few bacteria (e.g. Alkalilimnicola ehrlichei MLHE-1, Aquifex aeolicus). While the partner protein has been described as homodimeric ligase that has RNA circularization activity, the function of this protein (also called UPF0278) is unknown.
Probab=36.58 E-value=42 Score=35.89 Aligned_cols=154 Identities=23% Similarity=0.255 Sum_probs=92.4
Q ss_pred EEEccceeccCCCch-----hH-HHhhccc----------CceEEEehhHHHHHhccccCCccc----------------
Q 002923 627 VVVDTSTLLDKESRK-----SL-QLLQGLK----------GTQLVIPRMVTRELDCLKQRGNLF---------------- 674 (865)
Q Consensus 627 fVLDTNVLLhdeslk-----~L-~lL~~fk----------e~~VVIPiiVLEELDgLKKg~~l~---------------- 674 (865)
|||||.+|.+...++ .+ .++..|- +-..+||-.|-.||-+|...+...
T Consensus 2 fVLDTS~fTdp~vr~~fg~~~l~ea~~~~l~Lia~arl~l~iscYmPpsVy~El~~fl~~~~~~~e~~~kl~twv~~KsP 81 (206)
T TIGR03875 2 FVLDTSAFTDPELREQLGDEDLCEAVRTFLDLIARARLKLGIECYMPPSVYKELRRFLERNGCDPETLAKLDTWVVKKSP 81 (206)
T ss_pred eEeeccccCCHHHHHHcCCCCHHHHHHHHHHHHHHhhhccCceeecCHHHHHHHHHHHHhcCCCHHHHHhheeEEEEcCC
Confidence 899999999875322 11 2222221 556799999999999998766531
Q ss_pred -c--hhhHHHHHHHHHHHHHhccccceeccCcc--cCCcc---cCCCCCCCCCccccCCCcccccCCC------Cc-ccC
Q 002923 675 -R--RKSQVSSLLEWIEECMVKTKWWIHIQSSV--EEGRP---IAPTPPASPQSQFSIGSGRFHCGSP------TL-TEI 739 (865)
Q Consensus 675 -r--ra~~ARrALrwLee~l~k~~~~IhVQSs~--e~G~~---Ia~tppasp~~~~~eg~~~f~~gt~------~l-~dl 739 (865)
+ -.--|.-.-+||++.....+.|.+|--.. +++.. +....+ .+ +....+. ..+ .+ .++
T Consensus 82 ~rye~~IPA~i~ye~I~e~R~RInkGLRVAEe~vrea~~~~~~~~~~~~-~~-----~~~~~~I-~~lRekYReAlR~Gi 154 (206)
T TIGR03875 82 NRYEVKIPAEIFYEYIEEVRERIDKGLRVAEEHVREAALAGDEISAEHE-KK-----EEVGKII-RKLREKYREALRKGI 154 (206)
T ss_pred CeeeeeccHHHHHHHHHHHHHHHhcchhHHHHHHHHHhhcccchhcccc-cc-----ccHHHHH-HHHHHHHHHHHHccc
Confidence 0 00135566678888777666776662111 10110 000000 00 0000000 000 01 134
Q ss_pred CCCCCChHHHHHHHHHHHhcCCCcEEEEECChhhhhhhhcCCccccchhhHHHhh
Q 002923 740 VSPTSEDHILDCALLFRKMKNDRCLVLLSNDVTMKIKAMAEGLICETAQEFRESL 794 (865)
Q Consensus 740 ~s~tNDDrILdCAL~lq~~~~~~~VVLVTkDiNLRIKA~AeGI~AEd~eeF~dsL 794 (865)
.....|=.+|.-|+.+ +.+|||+|-.++.=|..+||...+...|..-|
T Consensus 155 LdS~~DidvlaLA~EL-------da~lvTdD~giqn~A~~Lgi~~~~~~~f~~~L 202 (206)
T TIGR03875 155 LDSAEDLDVLLLAKEL-------DAAVVSADEGIRKWAERLGLRFVDARNFPEML 202 (206)
T ss_pred cCchhhHHHHHHHHHc-------CcEEEeCcHHHHHHHHHcCCeeecHHHHHHHH
Confidence 4446788888888865 68999999999999999999999988887544
No 47
>TIGR00724 urea_amlyse_rel biotin-dependent carboxylase uncharacterized domain. Urea amidolyase of Saccharomyces cerevisiae is a 1835 amino acid protein with an amidase domain, a biotin/lipoyl cofactor attachment domain, a carbamoyl-phosphate synthase L chain-like domain, and uncharacterized regions. It has both urea carboxylase and allophanate hydrolase activities. This alignment models a domain that represents uncharacterized prokaryotic proteins of about 300 amino acids, regions of prokaryotic urea carboxylase and of the urea carboxylase region of yeast urea amidolyase, and regions of other biotin-containing proteins.
Probab=36.47 E-value=34 Score=38.35 Aligned_cols=36 Identities=22% Similarity=0.357 Sum_probs=29.5
Q ss_pred cceEEcCeecCC-CCceecCCCCEEEEcCc---eeeEEEE
Q 002923 56 HGTWVSEKKIEP-GVPVEMDEGDTLKIGGS---TRVYRLH 91 (865)
Q Consensus 56 nGT~vN~~rI~~-~~~~eL~~gD~ikfG~s---tr~y~l~ 91 (865)
-...|||++|.+ .+.+.++.||+|+||.. .|.|.-.
T Consensus 77 ~~~~lng~~~~~~~~~~~v~~Gd~L~~g~~~~G~R~YLAv 116 (314)
T TIGR00724 77 TDLCLNDGQVIPQWRPYEVKRGQILSLGRLKSGMRGYLAV 116 (314)
T ss_pred CcceeCCcccCCCceEEEECCCCEEEeCCCCCccEEEEEE
Confidence 357899999987 88899999999999966 4666544
No 48
>PF01479 S4: S4 domain; InterPro: IPR002942 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 S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterised, small proteins that may be involved in translation regulation []. The S4 domain probably mediates binding to RNA.; GO: 0003723 RNA binding; PDB: 3BBU_A 1DM9_B 2K6P_A 3U5G_E 3U5C_E 3IZB_D 2XZM_D 2XZN_D 3O30_E 3O2Z_E ....
Probab=35.57 E-value=28 Score=27.64 Aligned_cols=23 Identities=22% Similarity=0.316 Sum_probs=19.4
Q ss_pred ccceEEcCeecC-CCCceecCCCCEE
Q 002923 55 LHGTWVSEKKIE-PGVPVEMDEGDTL 79 (865)
Q Consensus 55 ~nGT~vN~~rI~-~~~~~eL~~gD~i 79 (865)
.++-+|||+.+. |+. .+.+||+|
T Consensus 25 ~g~V~VNg~~v~~~~~--~v~~~d~I 48 (48)
T PF01479_consen 25 QGRVKVNGKVVKDPSY--IVKPGDVI 48 (48)
T ss_dssp TTTEEETTEEESSTTS--BESTTEEE
T ss_pred CCEEEECCEEEcCCCC--CCCCcCCC
Confidence 678999999999 664 68899987
No 49
>TIGR02988 YaaA_near_RecF S4 domain protein YaaA. This small protein has a single S4 domain (pfam01479), as do bacterial ribosomal protein S4, some pseudouridine synthases, tyrosyl-tRNA synthetases. The S4 domain may bind RNA. Members of this protein family are found almost exclusively in the Firmicutes, and almost invariably just a few nucleotides upstream of the gene for the DNA replication and repair protein RecF. The few members of this family that are not near recF are found instead near dnaA and/or dnaN, the usual neighbors of recF, near the origin of replication. The conserved location suggests a possible role in replication in the Firmicutes lineage.
Probab=33.70 E-value=45 Score=27.96 Aligned_cols=26 Identities=15% Similarity=0.150 Sum_probs=20.2
Q ss_pred ccceEEcCeecCCCCceecCCCCEEEE
Q 002923 55 LHGTWVSEKKIEPGVPVEMDEGDTLKI 81 (865)
Q Consensus 55 ~nGT~vN~~rI~~~~~~eL~~gD~ikf 81 (865)
...-+|||+++.. .-+.|..||+|.|
T Consensus 33 ~G~V~VNg~~~~~-~~~~l~~Gd~v~i 58 (59)
T TIGR02988 33 ENEVLVNGELENR-RGKKLYPGDVIEI 58 (59)
T ss_pred cCCEEECCEEccC-CCCCCCCCCEEEe
Confidence 5678999999842 2358999999986
No 50
>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]
Probab=32.67 E-value=57 Score=31.47 Aligned_cols=33 Identities=21% Similarity=0.253 Sum_probs=24.9
Q ss_pred ceEEcCeecCCCCceecCCCCEEEEcCc--eeeEEEE
Q 002923 57 GTWVSEKKIEPGVPVEMDEGDTLKIGGS--TRVYRLH 91 (865)
Q Consensus 57 GT~vN~~rI~~~~~~eL~~gD~ikfG~s--tr~y~l~ 91 (865)
-.+|||.++.|.. ++.+||+|.|+-. ...|.+.
T Consensus 35 rV~vNG~~aKpS~--~VK~GD~l~i~~~~~~~~v~Vl 69 (100)
T COG1188 35 RVKVNGQRAKPSK--EVKVGDILTIRFGNKEFTVKVL 69 (100)
T ss_pred eEEECCEEccccc--ccCCCCEEEEEeCCcEEEEEEE
Confidence 3689999998875 7899999887544 5555555
No 51
>TIGR03875 RNA_lig_partner RNA ligase partner, MJ_0950 family. This uncharacterized protein family is found almost perfectly in the same set of genomes as the Pab1020 family described by model TIGR01209. These pairs are found mostly in Archaea, but also in a few bacteria (e.g. Alkalilimnicola ehrlichei MLHE-1, Aquifex aeolicus). While the partner protein has been described as homodimeric ligase that has RNA circularization activity, the function of this protein (also called UPF0278) is unknown.
Probab=32.03 E-value=52 Score=35.23 Aligned_cols=20 Identities=10% Similarity=0.061 Sum_probs=10.5
Q ss_pred EEEEECChhhhhhhhcCCcc
Q 002923 764 LVLLSNDVTMKIKAMAEGLI 783 (865)
Q Consensus 764 VVLVTkDiNLRIKA~AeGI~ 783 (865)
++.=.-|+-+=..|+-++-.
T Consensus 154 iLdS~~DidvlaLA~ELda~ 173 (206)
T TIGR03875 154 ILDSAEDLDVLLLAKELDAA 173 (206)
T ss_pred ccCchhhHHHHHHHHHcCcE
Confidence 33333566666666655444
No 52
>PRK11507 ribosome-associated protein; Provisional
Probab=31.90 E-value=60 Score=29.47 Aligned_cols=30 Identities=17% Similarity=0.216 Sum_probs=24.5
Q ss_pred ccceEEcCeecCCCCceecCCCCEEEEcCce
Q 002923 55 LHGTWVSEKKIEPGVPVEMDEGDTLKIGGST 85 (865)
Q Consensus 55 ~nGT~vN~~rI~~~~~~eL~~gD~ikfG~st 85 (865)
.+...|||+ ++-.+-..|++||+|.|++.+
T Consensus 36 eg~V~VNGe-ve~rRgkKl~~GD~V~~~g~~ 65 (70)
T PRK11507 36 EGQVKVDGA-VETRKRCKIVAGQTVSFAGHS 65 (70)
T ss_pred cCceEECCE-EecccCCCCCCCCEEEECCEE
Confidence 466889997 556677789999999999855
No 53
>COG1984 DUR1 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]
Probab=27.83 E-value=69 Score=36.25 Aligned_cols=34 Identities=26% Similarity=0.441 Sum_probs=29.5
Q ss_pred eEEcCeecCCCCceecCCCCEEEEcCc---eeeEEEE
Q 002923 58 TWVSEKKIEPGVPVEMDEGDTLKIGGS---TRVYRLH 91 (865)
Q Consensus 58 T~vN~~rI~~~~~~eL~~gD~ikfG~s---tr~y~l~ 91 (865)
-.|||.+|.+..++.++.||+|+||.- -|-|.-.
T Consensus 78 a~ld~~~i~~~~~~~vk~Gq~L~~g~~~~G~R~YLav 114 (314)
T COG1984 78 ATLDGQEVPPWSPYLVKAGQTLKLGRPKQGMRAYLAV 114 (314)
T ss_pred ceECCEEcCCCceEEccCCCEEEecCCCCcceEEEEe
Confidence 468999999999999999999999865 5677655
No 54
>PRK01777 hypothetical protein; Validated
Probab=27.43 E-value=1.5e+02 Score=27.99 Aligned_cols=56 Identities=13% Similarity=0.102 Sum_probs=36.1
Q ss_pred ceEEEeCCCCCcccccceeccccccCCCC-ccccccceEEcCeecCCCCceecCCCCEEEE
Q 002923 22 KLSVIDLSSGNCLIFAFVTTFLSSYGSFP-VGMVLHGTWVSEKKIEPGVPVEMDEGDTLKI 81 (865)
Q Consensus 22 ~~~v~DL~S~~~~~~~~~~~~~~~~~~~~-~~~~~nGT~vN~~rI~~~~~~eL~~gD~ikf 81 (865)
.+.-.++..|..|.-+.- .+.....|| ++++++...|||+...... .|++||+|.|
T Consensus 17 ~~~~l~vp~GtTv~dal~--~sgi~~~~pei~~~~~~vgI~Gk~v~~d~--~L~dGDRVeI 73 (95)
T PRK01777 17 YLQRLTLQEGATVEEAIR--ASGLLELRTDIDLAKNKVGIYSRPAKLTD--VLRDGDRVEI 73 (95)
T ss_pred EEEEEEcCCCCcHHHHHH--HcCCCccCcccccccceEEEeCeECCCCC--cCCCCCEEEE
Confidence 334456666654432211 222233443 6677788899999998775 6999999987
No 55
>PF10130 PIN_2: PIN domain; InterPro: IPR019298 This entry represents a set of bacterial and archaeal proteins that are predicted to be RNases (from similarities to 5'-exonucleases).
Probab=25.34 E-value=14 Score=36.45 Aligned_cols=42 Identities=19% Similarity=0.234 Sum_probs=28.4
Q ss_pred EEccceeccCC-C-chhHHHhhcccCceEEEehhHHHHHhcccc
Q 002923 628 VVDTSTLLDKE-S-RKSLQLLQGLKGTQLVIPRMVTRELDCLKQ 669 (865)
Q Consensus 628 VLDTNVLLhde-s-lk~L~lL~~fke~~VVIPiiVLEELDgLKK 669 (865)
|+|||+++.-+ . ......+.......++.|-.++.|+++-+.
T Consensus 1 VvDaNIl~Sall~~~~~~~~~~~~~~~~f~~p~~~~~Ei~kh~~ 44 (133)
T PF10130_consen 1 VVDANILFSALLGKRSRTRILLVEPRIEFFAPDYALEEIEKHLP 44 (133)
T ss_pred CccHHHHHHHHHccCcceeeeecccchheeccHHHHHHHHHHHH
Confidence 79999999983 1 111111112236789999999999987655
No 56
>smart00363 S4 S4 RNA-binding domain.
Probab=23.65 E-value=1e+02 Score=23.66 Aligned_cols=27 Identities=26% Similarity=0.438 Sum_probs=20.6
Q ss_pred ccceEEcCeec-CCCCceecCCCCEEEEcC
Q 002923 55 LHGTWVSEKKI-EPGVPVEMDEGDTLKIGG 83 (865)
Q Consensus 55 ~nGT~vN~~rI-~~~~~~eL~~gD~ikfG~ 83 (865)
..+-+|||+++ .+. +.+..||+|.+-.
T Consensus 25 ~g~i~vng~~~~~~~--~~l~~gd~i~~~~ 52 (60)
T smart00363 25 QGRVKVNGKKVTKPS--YIVKPGDVISVRG 52 (60)
T ss_pred cCCEEECCEEecCCC--eEeCCCCEEEEcc
Confidence 34578999998 654 4689999998854
No 57
>cd00165 S4 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized functional similarity between these three protein classes.
Probab=22.90 E-value=97 Score=24.52 Aligned_cols=28 Identities=21% Similarity=0.463 Sum_probs=21.8
Q ss_pred ccceEEcCeec-CCCCceecCCCCEEEEcCc
Q 002923 55 LHGTWVSEKKI-EPGVPVEMDEGDTLKIGGS 84 (865)
Q Consensus 55 ~nGT~vN~~rI-~~~~~~eL~~gD~ikfG~s 84 (865)
.++-+|||+++ .++. .+..||+|.+...
T Consensus 25 ~g~V~vn~~~~~~~~~--~v~~~d~i~i~~~ 53 (70)
T cd00165 25 HGHVLVNGKVVTKPSY--KVKPGDVIEVDGK 53 (70)
T ss_pred cCCEEECCEEccCCcc--CcCCCCEEEEcCC
Confidence 56778999998 5553 6889999998753
No 58
>PF02739 5_3_exonuc_N: 5'-3' exonuclease, N-terminal resolvase-like domain; InterPro: IPR020046 The N-terminal and internal 5'3'-exonuclease domains are commonly found together, and are most often associated with 5' to 3' nuclease activities. The XPG protein signatures (PDOC00658 from PROSITEDOC) are never found outside the '53EXO' domains. The latter are found in more diverse proteins [, , ]. The number of amino acids that separate the two 53EXO domains, and the presence of accompanying motifs allow the diagnosis of several protein families. In the eubacterial type A DNA-polymerases, the N-terminal and internal domains are separated by a few amino acids, usually four. The pattern DNA_POLYMERASE_A (IPR001098 from INTERPRO) is always present towards the C terminus. Several eukaryotic structure-dependent endonucleases and exonucleases have the 53EXO domains separated by 24 to 27 amino acids, and the XPG protein signatures are always present. In several proteins from herpesviridae, the two 53EXO domains are separated by 50 to 120 amino acids. These proteins are implicated in the inhibition of the expression of the host genes. Eukaryotic DNA repair proteins with 600 to 700 amino acids between the 53_EXO domains all carry the XPG protein signatures. This entry represents the N-terminal resolvase-like domain, which has a 3-layer alpha/beta/alpha core structure and contains an alpha-helical arch [, ].; GO: 0003677 DNA binding, 0008409 5'-3' exonuclease activity; PDB: 1TAQ_A 1BGX_T 1TAU_A 1XO1_B 1EXN_A 1UT8_A 1UT5_B 3H7I_A 3H8J_A 3H8S_A ....
Probab=22.64 E-value=1.7e+02 Score=29.72 Aligned_cols=61 Identities=20% Similarity=0.250 Sum_probs=39.7
Q ss_pred CCChHHHHHHHHHHHhcCCCcEEEEECChhhhhhhhcCCccccchhhHHHhhcCcccccccccCCCCCccccccCchhHH
Q 002923 743 TSEDHILDCALLFRKMKNDRCLVLLSNDVTMKIKAMAEGLICETAQEFRESLVNPFSERFLWADSSPRGRTWSYLDDVVL 822 (865)
Q Consensus 743 tNDDrILdCAL~lq~~~~~~~VVLVTkDiNLRIKA~AeGI~AEd~eeF~dsLvnp~S~RF~w~~s~Prg~tws~~d~~~l 822 (865)
-.||.|=..|..+.+. +.+|++||.|+-|. +|+++...=.+|..+ +..+...|..-+
T Consensus 109 EADDvIatla~~~~~~--~~~v~IvS~DkD~~------------------QLv~~~~~V~~~~~~---~~~~~~~~~~~v 165 (169)
T PF02739_consen 109 EADDVIATLAKKASEE--GFEVIIVSGDKDLL------------------QLVDENVNVYLLDPG---KKKFKVYDPEEV 165 (169)
T ss_dssp -HHHHHHHHHHHHHHT--TCEEEEE-SSGGGG------------------GGTCS-TSEEEEETT---TTCS-EB-HHHH
T ss_pred cHHHHHHHHHhhhccC--CCEEEEEcCCCCHH------------------HhcCCCceEEEeecC---CCCCEEEcHHHH
Confidence 3599999999888775 57899999998653 555554444455533 566666777777
Q ss_pred Hhhh
Q 002923 823 REKY 826 (865)
Q Consensus 823 ~e~y 826 (865)
.|||
T Consensus 166 ~eky 169 (169)
T PF02739_consen 166 EEKY 169 (169)
T ss_dssp HHHT
T ss_pred hhcC
Confidence 7776
No 59
>TIGR02712 urea_carbox urea carboxylase. Members of this family are ATP-dependent urea carboxylase, including characterized members from Oleomonas sagaranensis (alpha class Proteobacterium) and yeasts such as Saccharomyces cerevisiae. The allophanate hydrolase domain of the yeast enzyme is not included in this model and is represented by an adjacent gene in Oleomonas sagaranensis. The fusion of urea carboxylase and allophanate hydrolase is designated urea amidolyase. The enzyme from Oleomonas sagaranensis was shown to be highly active on acetamide and formamide as well as urea.
Probab=21.58 E-value=84 Score=41.08 Aligned_cols=35 Identities=23% Similarity=0.346 Sum_probs=30.4
Q ss_pred ceEEcCeecCCCCceecCCCCEEEEcCce----eeEEEE
Q 002923 57 GTWVSEKKIEPGVPVEMDEGDTLKIGGST----RVYRLH 91 (865)
Q Consensus 57 GT~vN~~rI~~~~~~eL~~gD~ikfG~st----r~y~l~ 91 (865)
.-.|||++|...+.+.++.||+|+||... |.|.-.
T Consensus 527 ~~~l~g~~v~~~~~~~v~~G~~L~~g~~~~~G~r~Ylav 565 (1201)
T TIGR02712 527 PATLDGQPVPQWKPITVKAGSTLSIGKIAGSGCRTYLAI 565 (1201)
T ss_pred cceECCEEcCCCeEEEECCCCEEEecCCCcCceEEEEEe
Confidence 45789999999999999999999999654 888766
No 60
>KOG2162 consensus Nonsense-mediated mRNA decay protein [RNA processing and modification]
Probab=20.66 E-value=67 Score=40.70 Aligned_cols=98 Identities=18% Similarity=0.092 Sum_probs=68.7
Q ss_pred ChHHHHHHHHHHHhcC----------CCcEEEEECChhhhhhhhcCCccccchhhHHHhhcCcccccccccCCCCCcccc
Q 002923 745 EDHILDCALLFRKMKN----------DRCLVLLSNDVTMKIKAMAEGLICETAQEFRESLVNPFSERFLWADSSPRGRTW 814 (865)
Q Consensus 745 DDrILdCAL~lq~~~~----------~~~VVLVTkDiNLRIKA~AeGI~AEd~eeF~dsLvnp~S~RF~w~~s~Prg~tw 814 (865)
|..|+.|.....+..+ -...|+-+.|..++.|+...+.++.+.+.+....-++ +|.--.|.+.-+
T Consensus 702 ~~~~~~s~~r~~q~~~~~p~p~~~~~~~~~v~h~~~r~~k~ks~~~~~~~~~~~a~~~~a~~~---~~~~~~s~~~~~-- 776 (862)
T KOG2162|consen 702 LCKILSSTFRRIQEEPRSPEPSATQIPQDCVLHTEDRSLKRKSFTQNSPVRDLPALDTWASGV---PFASYSSSKQTR-- 776 (862)
T ss_pred HHHhhhhhhHHHhcccCCCCCCcccCchhheecccccccccccccCCccCcchHHHhccccCC---ccccccCcceeE--
Confidence 4488998887776532 1358899999999999999999999999888877776 666554444333
Q ss_pred ccCchhHHHhhhccCCCCCCCCCCCCcCCceEEEeecCccc
Q 002923 815 SYLDDVVLREKYNRSSLKKPSKGGEGAKGLKLILLHNSHYA 855 (865)
Q Consensus 815 s~~d~~~l~e~y~~~~~~~~~~~~~~a~glklil~hns~~~ 855 (865)
+..-++. +-++.+-+..++.+||---+|+|.|-
T Consensus 777 --~~~~~~~------~~~a~~~~~~~~~~~k~~~~~g~~~~ 809 (862)
T KOG2162|consen 777 --QGIEVLS------LYKASSLQASSKNNLKCATTKGSFWL 809 (862)
T ss_pred --eeecccC------cccccccchhhhcchhhhcccCcccc
Confidence 3333332 23333334467788888888888775
Done!