Query 009056
Match_columns 545
No_of_seqs 214 out of 620
Neff 5.2
Searched_HMMs 46136
Date Thu Mar 28 19:52:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009056.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009056hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2570 SWI/SNF transcription 100.0 2E-110 4E-115 865.9 33.7 378 153-540 40-419 (420)
2 COG5531 SWIB-domain-containing 99.9 3.9E-26 8.5E-31 225.6 7.6 202 210-436 3-224 (237)
3 smart00151 SWIB SWI complex, B 99.9 7.4E-22 1.6E-26 165.2 7.7 76 327-402 2-77 (77)
4 PF02201 SWIB: SWIB/MDM2 domai 99.8 1.1E-22 2.3E-27 169.9 1.0 74 327-400 2-75 (76)
5 KOG1946 RNA polymerase I trans 99.7 3.2E-18 6.8E-23 170.8 6.3 81 328-408 102-182 (240)
6 PRK14724 DNA topoisomerase III 99.6 2.6E-16 5.6E-21 183.7 7.3 74 328-401 914-987 (987)
7 PRK06319 DNA topoisomerase I/S 99.1 9.8E-11 2.1E-15 136.0 5.1 74 328-401 786-859 (860)
8 PF03366 YEATS: YEATS family; 85.2 3 6.6E-05 35.9 6.4 57 269-334 16-74 (84)
9 KOG2522 Filamentous baseplate 71.6 5.4 0.00012 44.1 4.7 63 340-402 374-448 (560)
10 KOG0487 Transcription factor A 48.7 20 0.00044 38.0 4.0 48 152-218 235-285 (308)
11 PRK05350 acyl carrier protein; 47.2 17 0.00038 30.4 2.7 54 345-401 2-55 (82)
12 KOG0993 Rab5 GTPase effector R 46.3 37 0.0008 37.5 5.5 64 439-512 153-226 (542)
13 KOG3648 Golgi apparatus protei 34.6 40 0.00087 39.2 3.7 9 328-336 432-440 (1179)
14 PF09804 DUF2347: Uncharacteri 32.0 49 0.0011 34.6 3.7 31 277-310 3-33 (280)
15 PF03678 Adeno_hexon_C: Hexon, 28.7 69 0.0015 32.5 3.9 40 266-312 76-115 (237)
16 PRK05828 acyl carrier protein; 27.5 86 0.0019 26.9 3.8 54 345-401 1-54 (84)
17 KOG1142 Transcription initiati 25.3 86 0.0019 32.6 4.0 12 238-249 221-232 (258)
18 PRK13918 CRP/FNR family transc 24.9 68 0.0015 30.4 3.1 46 334-383 153-199 (202)
19 TIGR03697 NtcA_cyano global ni 24.6 60 0.0013 30.3 2.6 44 334-381 147-191 (193)
20 PRK05849 hypothetical protein; 22.4 1.2E+03 0.026 28.2 13.1 43 337-385 266-315 (783)
21 KOG1151 Tousled-like protein k 21.1 71 0.0015 36.1 2.6 15 484-498 718-732 (775)
22 PF13545 HTH_Crp_2: Crp-like h 20.7 67 0.0014 25.7 1.8 43 334-380 32-75 (76)
23 KOG1924 RhoA GTPase effector D 20.4 1.1E+02 0.0024 36.6 4.0 9 484-492 983-991 (1102)
No 1
>KOG2570 consensus SWI/SNF transcription activation complex subunit [Chromatin structure and dynamics; Transcription]
Probab=100.00 E-value=2e-110 Score=865.89 Aligned_cols=378 Identities=46% Similarity=0.832 Sum_probs=363.1
Q ss_pred HhcCCCCcch-hhHHHHhhcCchHHHHHHHHHHHHHHHHHHhhhhhHHHHhcCCCCCcceEEEEEEEecccCcccCCCCC
Q 009056 153 RKKQKLPEKQ-LQERVAAILPESALYTQLLEFEARVDAALTRKKVDIQEALKNPPCLQKTLRIYVFNTFANQIKTIPKKP 231 (545)
Q Consensus 153 rkkrk~tDk~-iP~~v~~~vPes~~Y~~L~e~ErrLD~~i~RKrldiqesl~rp~k~~rtLRI~IsNT~enQ~wq~~~~~ 231 (545)
.||+|+.||. ||+.+.+++||++.|..|+++|+|||++|+|||+||||++++|.+.+|+|||||||||++|+|+..+.+
T Consensus 40 ~kk~kl~dk~~i~~~~~~~ipes~~y~~Ll~~e~Kld~~i~Rk~~diqealK~p~~~kk~LRIyI~ntf~~~~~~~~~~~ 119 (420)
T KOG2570|consen 40 LKKKKLADKLNIPQRILELIPESQAYMDLLAFERKLDSTIIRKRLDIQEALKRPPKIKKKLRIYISNTFENQKPSTKDTP 119 (420)
T ss_pred hhhhhcchhcccCHHHHhhCccHHHHHHHHHHHHHhhhHHHHhhhhHHHHhcCCccccceEEEEEEecccCCCCCCCCCC
Confidence 4677788886 999999999999999999999999999999999999999999999999999999999999999987665
Q ss_pred CCCCCceEEEEEEEEcCCCCCCCCCCCcCCCCCCCcccccccceeEEeeCCCCC-CCCceeEecCCCCCCCCCceEEeec
Q 009056 232 NAEPPTWTLKIIGRILEDGVDPDQPGMVQKSNPLYPKFSSFFKRVTISLDQRLY-PDNHIIVWENSRSPAPHEGFEVKRK 310 (545)
Q Consensus 232 ~~~~psWtLrIEGRLLdd~~~~~~~~~~~~~~~~~~KFSsFfk~I~VelD~~ly-p~~~~VEW~k~~s~~efDGfeIKR~ 310 (545)
++..|+|||||||||||+..+. .+ ++|||||||+|+|+||+++| |++|.||||+.++++++|||+|||.
T Consensus 120 ~a~~~sWtLriEGrLLd~~~~~---------~~-krkFSsFfkslvIelDk~~y~P~~~lvEW~r~~~~~etdGf~VKR~ 189 (420)
T KOG2570|consen 120 EADLPSWTLRIEGRLLDDPVDD---------WG-KRKFSSFFKSLVIELDKDLYGPDNHLVEWHRDPNTNETDGFQVKRP 189 (420)
T ss_pred CCCCcceeeeeeeeecccCccc---------cc-cccchHHHhhhhhhhhhhhccCccceeeeeecCCCCCcCceeeecc
Confidence 6779999999999999986211 11 69999999999999999887 9999999999889999999999999
Q ss_pred CCceeeEEEEEeecccCccccCChhHHhhhCCCccChHHHHHHHHHHHHhcCCCCCCCCCeeecChhhhhhhCcCccchh
Q 009056 311 GDKEFTVNIRLEMNYVPEKFKLSPPLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEEKMKFT 390 (545)
Q Consensus 311 G~~~~~itI~L~~~~~Per~kLSp~La~~LG~~~~TR~eiv~~LW~YIK~n~Lqdp~dkr~I~cDe~Lk~lFg~d~i~f~ 390 (545)
||.++.|+|.|+++++|++|+|||.|+.+||+.+.||++||.+||+|||.|+|||++|+.+|+||..|+.+||+++++|.
T Consensus 190 Gd~~v~ctIll~l~~~P~~fklsp~La~lLGi~t~Trp~iI~alWqYIk~n~Lqd~~e~~~incD~~l~qif~~~rl~F~ 269 (420)
T KOG2570|consen 190 GDRNVRCTILLLLDYQPEEFKLSPRLANLLGIHTGTRPDIVTALWQYIKTNKLQDPEDSDFINCDKALEQIFGVDRLKFP 269 (420)
T ss_pred CCCccceEEEEeeccCCcccccCHHHHHHhhhccCcchHHHHHHHHHHHHhccCCcccchhhcchHHHHHhhcccccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHccCCCCCCceeeeeeecCCCCCCCCceEEEEecCCCchHHHHHHHhhcccchhhHHHHHHHHHHHHHHHHHHH
Q 009056 391 MVSQKISQHLSPPQPIHLEHKIKLSGNSPVGTACYDVLVDVPFPIQRELSTLLANADKNKEIDQCDEAICSAIRKIHEHR 470 (545)
Q Consensus 391 ~l~~lL~~HL~p~~PI~l~ytIrvd~~~~~~~~~yDV~V~v~dpl~~~~~~~l~~~~~~keI~~LD~qIa~~i~~I~~~k 470 (545)
+|+.+|++||.|++||+|+|+|+||++++++.+||||+|+|++|++.+|..|+.+++..+||++||++|..++++||+++
T Consensus 270 elp~~l~~lL~P~dPIvi~h~I~v~~~~~~~tacyDIdV~v~~p~~~q~~nfl~~~~~~~eI~alD~kI~~li~~ine~~ 349 (420)
T KOG2570|consen 270 ELPQLLNPLLSPPDPIVIDHTISVDGNDTKVTACYDIDVEVEDPRKSQMSNFLASTESQKEIAALDRKITELIQQINESK 349 (420)
T ss_pred cchhhhhhccCCCCCeeecceeccCCCcccceeEEeeeeccCCccchhhhhhhcchhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhhCHHHHHHHHHHHHHHHHHHHhcCCCCCcchhhcccccCchhHHHHHHHHHhcCCCCCCC
Q 009056 471 RRRAFFLGFSQSPVEFINTLIESQSKDLKLVAGEGSRSAEKERRSDFFNQPWVEDAVIRYLNRKPAAGSD 540 (545)
Q Consensus 471 ~rr~F~~~fS~DPv~FI~~wi~SQsrDLkvi~gd~~~~~E~~Rrsefy~qpWV~eAV~rYL~~k~~~~~~ 540 (545)
.||+||++||+||++||++||+||++||+++.||.++|+|++||++||++|||+|||+||++.+...|..
T Consensus 350 ~rr~Ff~~Fs~dPvefin~wi~Sq~~Dlkv~~gd~~~N~e~eRraefy~qpw~~eav~ry~~~~~~q~r~ 419 (420)
T KOG2570|consen 350 ERRDFFLEFSKDPVEFINEWIESQSSDLKVLAGDVSGNPEEERRAEFYKQPWTDEAVSRYMFLKVQQKRQ 419 (420)
T ss_pred HHHHHHHHhhhCHHHHHHHHHHhcchhhHHhhccccCCHHHHHHHHHHcCccHHHHHHHHHHHHHhhccC
Confidence 9999999999999999999999999999999999999999999999999999999999999999877653
No 2
>COG5531 SWIB-domain-containing proteins implicated in chromatin remodeling [Chromatin structure and dynamics]
Probab=99.92 E-value=3.9e-26 Score=225.57 Aligned_cols=202 Identities=22% Similarity=0.303 Sum_probs=156.7
Q ss_pred ceEEEEEEEecccCcccCCCC-----CCCCCCceEEEEEEEEcCCCCCCCCCCCcCCCCCCCcccccccceeEEeeCC--
Q 009056 210 KTLRIYVFNTFANQIKTIPKK-----PNAEPPTWTLKIIGRILEDGVDPDQPGMVQKSNPLYPKFSSFFKRVTISLDQ-- 282 (545)
Q Consensus 210 rtLRI~IsNT~enQ~wq~~~~-----~~~~~psWtLrIEGRLLdd~~~~~~~~~~~~~~~~~~KFSsFfk~I~VelD~-- 282 (545)
...|+.+.|+...|.|+.... .....+.|+++|+||+++-.. ..+.+|.++.....+....
T Consensus 3 ~~~~~~~~~~~~~~~~e~~~~~ek~v~~~~~~~~~~~l~~r~k~~~~------------~~~~~~~s~~~~~~~~~~~k~ 70 (237)
T COG5531 3 CYNRYGTMNDSWLQLDERDTNNEKDVGKLLFSEWTVRLEGRFKDNND------------LIRDKFDSLAEEPRVLRKEKY 70 (237)
T ss_pred cccccccccceeeecccccccChhhcccccchhhheehhhhhhhccc------------hhhhhhhhhcccchhhhhhhh
Confidence 456788888888888875321 124568999999999998321 1257788877776665432
Q ss_pred ------CCCCCCceeEecCCC-------CCCCCCceEEeecCCceeeEEEEEeecccCccccCChhHHhhhCCCccChHH
Q 009056 283 ------RLYPDNHIIVWENSR-------SPAPHEGFEVKRKGDKEFTVNIRLEMNYVPEKFKLSPPLMEVLGIEVDTRPR 349 (545)
Q Consensus 283 ------~lyp~~~~VEW~k~~-------s~~efDGfeIKR~G~~~~~itI~L~~~~~Per~kLSp~La~~LG~~~~TR~e 349 (545)
.++.+..-.+|...+ ...+++|...+|.+... ......+++|+||+.||.|||..++||++
T Consensus 71 ~~~r~~~~~~~~~~~~~~~~~s~k~~~n~~te~k~~~~~k~~~~~------~~~~~~~~~~~lS~~La~ilG~~~~tr~~ 144 (237)
T COG5531 71 NITRKTTGKNDLPKEEDSSLPSSKETENGDTEGKETDKKKKSSTI------SKNSPSGEKVKLSPKLAAILGLEPGTRPE 144 (237)
T ss_pred ccCcccccccccccccccccCcchhhhcCcccccccccccccccc------ccccCCCCceecCHHHHHHhCCCCCCccH
Confidence 234444455665422 22366777777777432 34556778999999999999999999999
Q ss_pred HHHHHHHHHHhcCCCCCCCCCeeecChhhhhhhCcCccchhHHHHHHHccCCCCCCceeeeeeecCCCCCCCCceEEEEe
Q 009056 350 IIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEEKMKFTMVSQKISQHLSPPQPIHLEHKIKLSGNSPVGTACYDVLV 429 (545)
Q Consensus 350 iv~~LW~YIK~n~Lqdp~dkr~I~cDe~Lk~lFg~d~i~f~~l~~lL~~HL~p~~PI~l~ytIrvd~~~~~~~~~yDV~V 429 (545)
||+.||+|||.||||+|+|+++|.||++|+.|||.+.+.|++|.++ +.|+.++|+++++..++++.++.|++|
T Consensus 145 ~v~~lw~YIk~h~lq~~~nkr~I~~D~~L~~v~g~~p~~mf~~~k~-------l~~hl~~~~~~vs~~~~~~~~~~d~ei 217 (237)
T COG5531 145 AVKKLWKYIKKHNLQDPNNKRLILCDSKLKKVLGSDPIDMFELTKP-------LSPHLIKYTIDVSKAPTYGGTTLDIEI 217 (237)
T ss_pred HHHHHHHHHHHhcCCCccccceecccHHHHHHhCCCchhhhhhhcc-------cccceecCccccccCCCcCcceecccC
Confidence 9999999999999999999999999999999999889999999854 455667899999999999999999999
Q ss_pred cCCCchH
Q 009056 430 DVPFPIQ 436 (545)
Q Consensus 430 ~v~dpl~ 436 (545)
..+.+..
T Consensus 218 ~~~~~~~ 224 (237)
T COG5531 218 PLENDSL 224 (237)
T ss_pred Ccccccc
Confidence 8876543
No 3
>smart00151 SWIB SWI complex, BAF60b domains.
Probab=99.86 E-value=7.4e-22 Score=165.25 Aligned_cols=76 Identities=34% Similarity=0.676 Sum_probs=74.0
Q ss_pred CccccCChhHHhhhCCCccChHHHHHHHHHHHHhcCCCCCCCCCeeecChhhhhhhCcCccchhHHHHHHHccCCC
Q 009056 327 PEKFKLSPPLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEEKMKFTMVSQKISQHLSP 402 (545)
Q Consensus 327 Per~kLSp~La~~LG~~~~TR~eiv~~LW~YIK~n~Lqdp~dkr~I~cDe~Lk~lFg~d~i~f~~l~~lL~~HL~p 402 (545)
+++|+||++|++|+|..++||++|+++||+|||.|||+||+|++.|+||+.|+.+||+++|.|++|+++|++||.|
T Consensus 2 ~~~~~ls~~L~~~lg~~~~tr~ev~~~lw~YIk~n~L~d~~~k~~i~~D~~L~~l~~~~~v~~~~~~~ll~~Hl~~ 77 (77)
T smart00151 2 TKKVTLSPELAKVLGAPEMTRTEIIKRLWEYIKEHNLQDPQNKREILCDSKLEQIFGKDRMDMFEMNKLLTPHLIK 77 (77)
T ss_pred CCcccCCHHHHHHhCCCcCcHHHHHHHHHHHHHHhcccCCccCCEEecCHHHHHHHCcCeecHHHHHHHHHHHcCC
Confidence 4789999999999999999999999999999999999999999999999999999999999999999999999975
No 4
>PF02201 SWIB: SWIB/MDM2 domain; InterPro: IPR003121 The SWI/SNF family of complexes, which are conserved from yeast to humans, are ATP-dependent chromatin-remodelling proteins that facilitate transcription activation []. The mammalian complexes are made up of 9-12 proteins called BAFs (BRG1-associated factors). The BAF60 family have at least three members: BAF60a, which is ubiquitous, BAF60b and BAF60c, which are expressed in muscle and pancreatic tissues, respectively. BAF60b is present in alternative forms of the SWI/SNF complex, including complex B (SWIB), which lacks BAF60a. The SWIB domain is a conserved region found within the BAF60b proteins [], and can be found fused to the C terminus of DNA topoisomerase in Chlamydia. MDM2 is an oncoprotein that acts as a cellular inhibitor of the p53 tumour suppressor by binding to the transactivation domain of p53 and suppressing its ability to activate transcription []. p53 acts in response to DNA damage, inducing cell cycle arrest and apoptosis. Inactivation of p53 is a common occurrence in neoplastic transformations. The core of MDM2 folds into an open bundle of four helices, which is capped by two small 3-stranded beta-sheets. It consists of a duplication of two structural repeats. MDM2 has a deep hydrophobic cleft on which the p53 alpha-helix binds; p53 residues involved in transactivation are buried deep within the cleft of MDM2, thereby concealing the p53 transactivation domain. The SWIB and MDM2 domains are homologous and share a common fold.; GO: 0005515 protein binding; PDB: 1V31_A 3FE7_A 3JZQ_B 3EQY_B 2VYR_A 3JZO_A 3DAB_E 3LBJ_E 3FEA_A 3FDO_A ....
Probab=99.85 E-value=1.1e-22 Score=169.93 Aligned_cols=74 Identities=38% Similarity=0.811 Sum_probs=70.7
Q ss_pred CccccCChhHHhhhCCCccChHHHHHHHHHHHHhcCCCCCCCCCeeecChhhhhhhCcCccchhHHHHHHHccC
Q 009056 327 PEKFKLSPPLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEEKMKFTMVSQKISQHL 400 (545)
Q Consensus 327 Per~kLSp~La~~LG~~~~TR~eiv~~LW~YIK~n~Lqdp~dkr~I~cDe~Lk~lFg~d~i~f~~l~~lL~~HL 400 (545)
|++|+||++|++++|..++||++|++.||+|||+||||||+|++.|.||+.|++|||.++|.|++|+++|++||
T Consensus 2 ~k~~~ls~~L~~~lg~~~~sr~~v~~~lw~YIk~~~L~dp~~k~~I~cD~~L~~lf~~~~v~~~~i~~~l~~hl 75 (76)
T PF02201_consen 2 PKRFKLSPELAEFLGEDELSRSEVVKRLWQYIKENNLQDPKDKRIIICDEKLKKLFGKDSVNFFEIPKLLKPHL 75 (76)
T ss_dssp EEEEHHHHHHHHHTT-SCEEHHHHHHHHHHHHHHTTSBESSSTTEEE-TTSHHHHHHTSECSEEETTHHHHHHH
T ss_pred CCCccCCHHHHHHhCCCCCCHHHHHHHHHHHHHHhcCCCcccCceEecCHHHHHHhCCCeecHhhHHHHHHHhc
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999997
No 5
>KOG1946 consensus RNA polymerase I transcription factor UAF [Transcription]
Probab=99.73 E-value=3.2e-18 Score=170.75 Aligned_cols=81 Identities=25% Similarity=0.517 Sum_probs=77.6
Q ss_pred ccccCChhHHhhhCCCccChHHHHHHHHHHHHhcCCCCCCCCCeeecChhhhhhhCcCccchhHHHHHHHccCCCCCCce
Q 009056 328 EKFKLSPPLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEEKMKFTMVSQKISQHLSPPQPIH 407 (545)
Q Consensus 328 er~kLSp~La~~LG~~~~TR~eiv~~LW~YIK~n~Lqdp~dkr~I~cDe~Lk~lFg~d~i~f~~l~~lL~~HL~p~~PI~ 407 (545)
+.+.||+.|+.++|.++++|.+|++.||+|||+||||||.|++.|.||++|+.|||..+|.|++|++||.+||.......
T Consensus 102 kl~~ls~~L~~~~G~~~lsR~~vvk~iw~YIke~nLqDP~nkr~IlCDekL~~iF~~k~v~~fem~KLL~~H~~~~~d~~ 181 (240)
T KOG1946|consen 102 KLIPLSPSLARFVGTSELSRTDVVKKIWAYIKEHNLQDPKNKREILCDEKLKSIFGKKRVGMFEMLKLLTKHFLKNQDMV 181 (240)
T ss_pred cccccCHHHHhhcccccccHHHHHHHHHHHHHHhccCCccccCeeeeHHHHHHHhccCccceeeHHHHHHHhccCccccc
Confidence 67899999999999999999999999999999999999999999999999999999999999999999999999888765
Q ss_pred e
Q 009056 408 L 408 (545)
Q Consensus 408 l 408 (545)
-
T Consensus 182 ~ 182 (240)
T KOG1946|consen 182 G 182 (240)
T ss_pred c
Confidence 4
No 6
>PRK14724 DNA topoisomerase III; Provisional
Probab=99.63 E-value=2.6e-16 Score=183.73 Aligned_cols=74 Identities=34% Similarity=0.634 Sum_probs=72.0
Q ss_pred ccccCChhHHhhhCCCccChHHHHHHHHHHHHhcCCCCCCCCCeeecChhhhhhhCcCccchhHHHHHHHccCC
Q 009056 328 EKFKLSPPLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEEKMKFTMVSQKISQHLS 401 (545)
Q Consensus 328 er~kLSp~La~~LG~~~~TR~eiv~~LW~YIK~n~Lqdp~dkr~I~cDe~Lk~lFg~d~i~f~~l~~lL~~HL~ 401 (545)
..|+|||+|++|||..++||++||++||+|||.||||||+|++.|+||++|+.|||+++|.|++|+++|++||.
T Consensus 914 ~~~~ls~~La~~lg~~~~~r~~v~~~lW~YIK~~~Lqdp~~k~~i~cD~~L~~vfg~~~~~~~~~~~~l~~hl~ 987 (987)
T PRK14724 914 AGLKPSAALAAVIGAEPVARPEVIKKLWDYIKANNLQDPADKRAINADAKLRPVFGKDQVTMFELAGIVGKHLS 987 (987)
T ss_pred cccCCCHHHHHHhCCCcCCHHHHHHHHHHHHHHccCCCcccCCeeccchHHHHHhCCCcccHHHHHHHHHHhcC
Confidence 36899999999999999999999999999999999999999999999999999999999999999999999984
No 7
>PRK06319 DNA topoisomerase I/SWI domain fusion protein; Validated
Probab=99.06 E-value=9.8e-11 Score=136.04 Aligned_cols=74 Identities=31% Similarity=0.540 Sum_probs=71.6
Q ss_pred ccccCChhHHhhhCCCccChHHHHHHHHHHHHhcCCCCCCCCCeeecChhhhhhhCcCccchhHHHHHHHccCC
Q 009056 328 EKFKLSPPLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEEKMKFTMVSQKISQHLS 401 (545)
Q Consensus 328 er~kLSp~La~~LG~~~~TR~eiv~~LW~YIK~n~Lqdp~dkr~I~cDe~Lk~lFg~d~i~f~~l~~lL~~HL~ 401 (545)
..|.+|++|+.++|..+++|.++++.||+|||.|+||||+|++.|+||++|+++||++++.|++|+++|+.||.
T Consensus 786 ~~~~~S~~La~~~g~~~~sr~~~~~~lw~yIk~~~lqdp~~Kr~i~~d~kl~kvf~~~~~~~~~~~k~l~~hl~ 859 (860)
T PRK06319 786 PLYTPSPALAAMIGAEPVGRGEATKKVWDYIKEHGLQSPENKKLIIPDSKLQGVIGPDPIDMFQLSKKLSQHLI 859 (860)
T ss_pred cccccccccccccCcCccCchHHHHHHHHHHHHhcccCccccccCCCchhhhhhhCcCccchhhhHHHHHhhhc
Confidence 45889999999999999999999999999999999999999999999999999999999999999999999985
No 8
>PF03366 YEATS: YEATS family; InterPro: IPR005033 Named the YEATS family, after `YNK7', `ENL', `AF-9', and `TFIIF small subunit', this family also contains the GAS41 protein. All these proteins are thought to have a transcription stimulatory activity.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3QRL_A 2L7E_A 3FK3_C 3RLS_A.
Probab=85.16 E-value=3 Score=35.87 Aligned_cols=57 Identities=25% Similarity=0.336 Sum_probs=36.4
Q ss_pred cccccceeEEeeCCCCCCCCceeEecCCCCCCCCCceEEeecCCceeeEEEEEeecc--cCccccCCh
Q 009056 269 FSSFFKRVTISLDQRLYPDNHIIVWENSRSPAPHEGFEVKRKGDKEFTVNIRLEMNY--VPEKFKLSP 334 (545)
Q Consensus 269 FSsFfk~I~VelD~~lyp~~~~VEW~k~~s~~efDGfeIKR~G~~~~~itI~L~~~~--~Per~kLSp 334 (545)
.+.|+++++..|.++.-+.. ..=+++ =|+|.+.|=-++.|.|.++... ....+.+.-
T Consensus 16 ~~~~i~kV~f~LHpsF~~p~--r~v~~p-------PFevte~GWGeF~i~I~i~f~~~~~~~~~~~~h 74 (84)
T PF03366_consen 16 LSYFIKKVTFKLHPSFPNPV--RVVTKP-------PFEVTETGWGEFEIPIKIHFKDPSNEKPVTIQH 74 (84)
T ss_dssp -TTTEEEEEEES-TTSSS-E--EECSST-------TEEEEEEESS--EEEEEEECCCGGCTCEEEEEE
T ss_pred ccceEEEEEEECCCCCCCCc--eEecCC-------CCEEEEeEeccEEEEEEEEEeCCCCCCcEEEEE
Confidence 68999999999997643332 222222 3999999998999999988766 444444443
No 9
>KOG2522 consensus Filamentous baseplate protein Ligatin, contains PUA domain [Translation, ribosomal structure and biogenesis]
Probab=71.56 E-value=5.4 Score=44.07 Aligned_cols=63 Identities=16% Similarity=0.348 Sum_probs=47.8
Q ss_pred hCCC---ccChHHHHHHHHHHHHhcCCCCCCCCCeeecChhhhhhhCc---------CccchhHHHHHHHccCCC
Q 009056 340 LGIE---VDTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGE---------EKMKFTMVSQKISQHLSP 402 (545)
Q Consensus 340 LG~~---~~TR~eiv~~LW~YIK~n~Lqdp~dkr~I~cDe~Lk~lFg~---------d~i~f~~l~~lL~~HL~p 402 (545)
+|.. ..|-++|-..+-+||+.|||.|+.||..|++|+.|-..... .......|..++...+.|
T Consensus 374 vg~~kg~lyt~seir~~V~kYi~knnLad~~nKg~VrLDpILfd~~~k~~K~~~a~~~~~pw~~l~~~~~~rmtp 448 (560)
T KOG2522|consen 374 VGLAKGTLYTSSEIRSAVSKYISKNNLADTKNKGKVRLDPILFDMVNKKKKVLNASRIIAPWEILHPLLTNRMTP 448 (560)
T ss_pred cCccccceeeHHHHHHHHHHHhhhhhccccccCCcEEeccHHHHHHHhhhhccccccccccHHHHHHHHHhcCCc
Confidence 4664 45679999999999999999999999999999998766643 233455566666555544
No 10
>KOG0487 consensus Transcription factor Abd-B, contains HOX domain [Transcription]
Probab=48.68 E-value=20 Score=38.04 Aligned_cols=48 Identities=27% Similarity=0.448 Sum_probs=31.6
Q ss_pred HHhcCCCCcchhhHHHHhhcCchHHHHHHHHHHHH--HHHHHHh-hhhhHHHHhcCCCCCcceEEEEEEE
Q 009056 152 RRKKQKLPEKQLQERVAAILPESALYTQLLEFEAR--VDAALTR-KKVDIQEALKNPPCLQKTLRIYVFN 218 (545)
Q Consensus 152 ~rkkrk~tDk~iP~~v~~~vPes~~Y~~L~e~Err--LD~~i~R-Krldiqesl~rp~k~~rtLRI~IsN 218 (545)
-||||+|--|. |++|+||+ ...+|+| ||++|.-.|.-. -|-+-||.-|
T Consensus 235 ~RKKRcPYTK~----------------QtlELEkEFlfN~YitkeKR~ElSr~lNLT---eRQVKIWFQN 285 (308)
T KOG0487|consen 235 GRKKRCPYTKH----------------QTLELEKEFLFNMYITKEKRLELSRTLNLT---ERQVKIWFQN 285 (308)
T ss_pred cccccCCchHH----------------HHHHHHHHHHHHHHHhHHHHHHHHHhcccc---hhheeeeehh
Confidence 36777775553 56666665 6888887 788988887532 2455566655
No 11
>PRK05350 acyl carrier protein; Provisional
Probab=47.16 E-value=17 Score=30.38 Aligned_cols=54 Identities=13% Similarity=0.138 Sum_probs=45.4
Q ss_pred cChHHHHHHHHHHHHhcCCCCCCCCCeeecChhhhhhhCcCccchhHHHHHHHccCC
Q 009056 345 DTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEEKMKFTMVSQKISQHLS 401 (545)
Q Consensus 345 ~TR~eiv~~LW~YIK~n~Lqdp~dkr~I~cDe~Lk~lFg~d~i~f~~l~~lL~~HL~ 401 (545)
+||.+|...|.++|... +- .+...|.+|..|..-+|-|++.+-+|.-.|..+|.
T Consensus 2 m~~~~i~~~v~~ii~~~-~~--~~~~~i~~d~~l~~dlg~DSld~veli~~lE~~fg 55 (82)
T PRK05350 2 MTREEILERLRAILVEL-FE--IDPEDITPEANLYEDLDLDSIDAVDLVVHLQKLTG 55 (82)
T ss_pred CCHHHHHHHHHHHHHHH-hC--CCHHHCCCCccchhhcCCCHHHHHHHHHHHHHHHC
Confidence 68999999999999887 42 23357999999988889999999999988887764
No 12
>KOG0993 consensus Rab5 GTPase effector Rabaptin-5 [Intracellular trafficking, secretion, and vesicular transport]
Probab=46.32 E-value=37 Score=37.45 Aligned_cols=64 Identities=20% Similarity=0.360 Sum_probs=48.0
Q ss_pred HHHHhhcccchhhHHHHHHHHHHHHHHHHHH-HHHHHH---------HHHhhhCHHHHHHHHHHHHHHHHHHHhcCCCCC
Q 009056 439 LSTLLANADKNKEIDQCDEAICSAIRKIHEH-RRRRAF---------FLGFSQSPVEFINTLIESQSKDLKLVAGEGSRS 508 (545)
Q Consensus 439 ~~~~l~~~~~~keI~~LD~qIa~~i~~I~~~-k~rr~F---------~~~fS~DPv~FI~~wi~SQsrDLkvi~gd~~~~ 508 (545)
|..++ +.+.++|.+|.++++..-+.|.+. +++|.. ++.|+.|| +-|-|-|+-+.||+|..
T Consensus 153 lrelv--~pmekeI~elk~kl~~aE~~i~El~k~~~h~a~slh~~t~lL~L~RD~--------s~~l~~leel~gd~gps 222 (542)
T KOG0993|consen 153 LRELV--TPMEKEINELKKKLAKAEQRIDELSKAKHHKAESLHVFTDLLNLARDK--------SEQLRQLEELDGDAGPS 222 (542)
T ss_pred HHHHH--hhHHHHHHHHHHHHHhHHHHHHHHHhhhcccchHHHHHHHHHHHhcCC--------chhhhHHHHhccCCCCC
Confidence 44444 345699999999999999999987 466664 45677887 55677888899998876
Q ss_pred cchh
Q 009056 509 AEKE 512 (545)
Q Consensus 509 ~E~~ 512 (545)
+|..
T Consensus 223 ~d~F 226 (542)
T KOG0993|consen 223 GDDF 226 (542)
T ss_pred cchh
Confidence 6554
No 13
>KOG3648 consensus Golgi apparatus protein (cysteine-rich fibroblast growth factor receptor) [Intracellular trafficking, secretion, and vesicular transport]
Probab=34.62 E-value=40 Score=39.17 Aligned_cols=9 Identities=56% Similarity=1.010 Sum_probs=4.5
Q ss_pred ccccCChhH
Q 009056 328 EKFKLSPPL 336 (545)
Q Consensus 328 er~kLSp~L 336 (545)
+.|.+||+|
T Consensus 432 ~~F~msPEi 440 (1179)
T KOG3648|consen 432 EDFSLSPEI 440 (1179)
T ss_pred HHhccCHHH
Confidence 445555554
No 14
>PF09804 DUF2347: Uncharacterized conserved protein (DUF2347); InterPro: IPR018626 Members of this family of hypothetical proteins have no known function.
Probab=31.96 E-value=49 Score=34.61 Aligned_cols=31 Identities=26% Similarity=0.478 Sum_probs=24.5
Q ss_pred EEeeCCCCCCCCceeEecCCCCCCCCCceEEeec
Q 009056 277 TISLDQRLYPDNHIIVWENSRSPAPHEGFEVKRK 310 (545)
Q Consensus 277 ~VelD~~lyp~~~~VEW~k~~s~~efDGfeIKR~ 310 (545)
.|+||.. .+++|+|.++....++||+|+|--
T Consensus 3 l~~FD~k---~Gn~i~W~~~~~~i~L~gVEfKsL 33 (280)
T PF09804_consen 3 LVKFDVK---KGNTIVWSRPAPDIDLEGVEFKSL 33 (280)
T ss_pred EEEecCC---CCcEEEEeccCCCCccCCeeEecC
Confidence 4667753 368999999877789999999964
No 15
>PF03678 Adeno_hexon_C: Hexon, adenovirus major coat protein, C-terminal domain; InterPro: IPR016108 Hexon is a major coat protein found in various species-specific Adenoviruses, which are type II dsDNA viruses. Hexon coat proteins are synthesised during late infection and form homo-trimers. The 240 copies of the hexon trimer that are produced are organised so that 12 lie on each of the 20 facets. The central 9 hexons in a facet are cemented together by 12 copies of polypeptide IX. The penton complex, formed by the peripentonal hexons and base hexon (holding in place a fibre), lie at each of the 12 vertices []. The hexon coat protein is a duplication consisting of two domains with a similar fold packed together like the nucleoplasmin subunits. Within a hexon trimer, the domains are arranged around a pseudo 6-fold axis. The domains have a beta-sandwich structure consisting of 8 strands in two sheets with a jelly-roll topology; each domain is heavily decorated with many insertions []. This entry represents the C-terminal domain of hexon coat proteins.; GO: 0005198 structural molecule activity, 0019028 viral capsid; PDB: 2BVI_M 1VSZ_K 3IYN_D 3TG7_A 1P30_A 2OBE_B 2INY_A 1P2Z_A.
Probab=28.73 E-value=69 Score=32.50 Aligned_cols=40 Identities=30% Similarity=0.496 Sum_probs=26.3
Q ss_pred CcccccccceeEEeeCCCCCCCCceeEecCCCCCCCCCceEEeecCC
Q 009056 266 YPKFSSFFKRVTISLDQRLYPDNHIIVWENSRSPAPHEGFEVKRKGD 312 (545)
Q Consensus 266 ~~KFSsFfk~I~VelD~~lyp~~~~VEW~k~~s~~efDGfeIKR~G~ 312 (545)
.--+||=|++++|.||.+ |-|--..--.-=..|||||.-|
T Consensus 76 TFYL~HTFr~vsI~fDss-------V~WPGnDRlLtPN~FEIKR~~D 115 (237)
T PF03678_consen 76 TFYLSHTFRRVSIQFDSS-------VPWPGNDRLLTPNEFEIKRNVD 115 (237)
T ss_dssp --SSGGGEEEEEEEETTT-------EECSSTTCSSSTTSEESB-SSC
T ss_pred eEEEeeeeeeeeEEeccc-------cCCCCCccccCCCceeeeeccc
Confidence 356899999999999964 7884432111224799999854
No 16
>PRK05828 acyl carrier protein; Validated
Probab=27.50 E-value=86 Score=26.87 Aligned_cols=54 Identities=7% Similarity=0.124 Sum_probs=42.4
Q ss_pred cChHHHHHHHHHHHHhcCCCCCCCCCeeecChhhhhhhCcCccchhHHHHHHHccCC
Q 009056 345 DTRPRIIAAIWHYVKARKLQHPNDPSIFTCDPPLQKVFGEEKMKFTMVSQKISQHLS 401 (545)
Q Consensus 345 ~TR~eiv~~LW~YIK~n~Lqdp~dkr~I~cDe~Lk~lFg~d~i~f~~l~~lL~~HL~ 401 (545)
|||.+|+..|=+-|...++--+ ...|.+|..|.. +|-|++.+.+|.-.|...|.
T Consensus 1 m~~~eI~~~i~~ii~e~~~~~~--~d~i~~~~~~~d-Lg~DSLd~velv~~lE~~f~ 54 (84)
T PRK05828 1 MQEMEILLKIKEIAKKKNFAVT--LDESNINKPYRE-LKIDSLDMFSIIVSLESEFN 54 (84)
T ss_pred CCHHHHHHHHHHHHHHhccCCC--cccccCCCCHHh-cCCCHHHHHHHHHHHHHHHC
Confidence 6899999999999987655322 244688889977 99999999999888776553
No 17
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=25.32 E-value=86 Score=32.57 Aligned_cols=12 Identities=17% Similarity=0.401 Sum_probs=7.2
Q ss_pred eEEEEEEEEcCC
Q 009056 238 WTLKIIGRILED 249 (545)
Q Consensus 238 WtLrIEGRLLdd 249 (545)
|-++|=|+=.|+
T Consensus 221 ~Nm~iPgf~sd~ 232 (258)
T KOG1142|consen 221 FNMEIPGFSSDE 232 (258)
T ss_pred ccccCCCccccc
Confidence 666666655543
No 18
>PRK13918 CRP/FNR family transcriptional regulator; Provisional
Probab=24.89 E-value=68 Score=30.36 Aligned_cols=46 Identities=15% Similarity=0.161 Sum_probs=35.7
Q ss_pred hhHHhhhCCCccChHHHHHHHHHHHHhcCCCCCCCCCeeecC-hhhhhhhC
Q 009056 334 PPLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCD-PPLQKVFG 383 (545)
Q Consensus 334 p~La~~LG~~~~TR~eiv~~LW~YIK~n~Lqdp~dkr~I~cD-e~Lk~lFg 383 (545)
.+||++||+...|-.++++.| +..||..-+.++++++| +.|+++.+
T Consensus 153 ~~iA~~lG~tretvsR~l~~l----~~~g~I~~~~~~i~I~d~~~L~~~~~ 199 (202)
T PRK13918 153 DELAAAVGSVRETVTKVIGEL----SREGYIRSGYGKIQLLDLKGLEELAE 199 (202)
T ss_pred HHHHHHhCccHHHHHHHHHHH----HHCCCEEcCCCEEEEECHHHHHHHHh
Confidence 479999999877776666654 78999998778888888 56776654
No 19
>TIGR03697 NtcA_cyano global nitrogen regulator NtcA, cyanobacterial. Members of this protein family, found in the cyanobacteria, are the global nitrogen regulator NtcA. This DNA-binding transcriptional regulator is required for expressing many different ammonia-repressible genes. The consensus NtcA-binding site is G T A N(8)T A C.
Probab=24.58 E-value=60 Score=30.35 Aligned_cols=44 Identities=20% Similarity=0.249 Sum_probs=33.1
Q ss_pred hhHHhhhCCCccChHHHHHHHHHHHHhcCCCCCCCCCeeecC-hhhhhh
Q 009056 334 PPLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCD-PPLQKV 381 (545)
Q Consensus 334 p~La~~LG~~~~TR~eiv~~LW~YIK~n~Lqdp~dkr~I~cD-e~Lk~l 381 (545)
.+||++||+...|-.++++ -.+..|+..-..++++++| +.|++.
T Consensus 147 ~~iA~~lG~tretvsR~l~----~l~~~g~I~~~~~~i~I~d~~~L~~~ 191 (193)
T TIGR03697 147 QAIAEAIGSTRVTITRLLG----DLRKKKLISIHKKKITVHDPIALGQR 191 (193)
T ss_pred HHHHHHhCCcHHHHHHHHH----HHHHCCCEEecCCEEEEeCHHHHHHh
Confidence 6899999977666555554 4588999888888888988 556554
No 20
>PRK05849 hypothetical protein; Provisional
Probab=22.37 E-value=1.2e+03 Score=28.22 Aligned_cols=43 Identities=21% Similarity=0.423 Sum_probs=29.0
Q ss_pred HhhhCCCcc------ChHHHHHHHHHHHHhc-CCCCCCCCCeeecChhhhhhhCcC
Q 009056 337 MEVLGIEVD------TRPRIIAAIWHYVKAR-KLQHPNDPSIFTCDPPLQKVFGEE 385 (545)
Q Consensus 337 a~~LG~~~~------TR~eiv~~LW~YIK~n-~Lqdp~dkr~I~cDe~Lk~lFg~d 385 (545)
|+|||+..- =|.=|+..+|.|-+.| |- |.++.++.|..+.|..
T Consensus 266 AEiIG~~P~~La~SLYr~litd~~Wa~~r~~~GY------r~~r~~~Lm~~f~g~P 315 (783)
T PRK05849 266 AEIIGLRPKPLAFSLYRELITDNIWAYQRDNYGY------RDLRSHPLMHSFAGIP 315 (783)
T ss_pred HHHhCCCCccchHHHHHHHHhhHHHHHHHHhCCC------CcCCCchHHHHhCCCc
Confidence 678888643 3566888999998875 32 3355566777777753
No 21
>KOG1151 consensus Tousled-like protein kinase [Signal transduction mechanisms]
Probab=21.07 E-value=71 Score=36.11 Aligned_cols=15 Identities=20% Similarity=0.315 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHH
Q 009056 484 VEFINTLIESQSKDL 498 (545)
Q Consensus 484 v~FI~~wi~SQsrDL 498 (545)
.+||.++|+=-++|-
T Consensus 718 kaFIRRCLaYRKeDR 732 (775)
T KOG1151|consen 718 KAFIRRCLAYRKEDR 732 (775)
T ss_pred HHHHHHHHHhhhhhh
Confidence 468888888766653
No 22
>PF13545 HTH_Crp_2: Crp-like helix-turn-helix domain; PDB: 3LA2_A 3LA3_B 3LA7_A 3B02_A 3E97_A 2H6C_B 1OMI_A 2BGC_H 2BEO_A 2GAU_A ....
Probab=20.72 E-value=67 Score=25.75 Aligned_cols=43 Identities=21% Similarity=0.337 Sum_probs=31.4
Q ss_pred hhHHhhhCCCccChHHHHHHHHHHHHhcCCCCCCCCCeeecC-hhhhh
Q 009056 334 PPLMEVLGIEVDTRPRIIAAIWHYVKARKLQHPNDPSIFTCD-PPLQK 380 (545)
Q Consensus 334 p~La~~LG~~~~TR~eiv~~LW~YIK~n~Lqdp~dkr~I~cD-e~Lk~ 380 (545)
.+||+++|++..|-..+ -+-.+..|+.+-..+.++.+| +.|++
T Consensus 32 ~~iA~~~g~sr~tv~r~----l~~l~~~g~I~~~~~~i~I~d~~~L~~ 75 (76)
T PF13545_consen 32 EEIADMLGVSRETVSRI----LKRLKDEGIIEVKRGKIIILDPERLEE 75 (76)
T ss_dssp HHHHHHHTSCHHHHHHH----HHHHHHTTSEEEETTEEEESSHHHHHH
T ss_pred HHHHHHHCCCHHHHHHH----HHHHHHCCCEEEcCCEEEECCHHHHhc
Confidence 47999999887664444 455688889888888888888 44443
No 23
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=20.39 E-value=1.1e+02 Score=36.56 Aligned_cols=9 Identities=33% Similarity=0.567 Sum_probs=3.6
Q ss_pred HHHHHHHHH
Q 009056 484 VEFINTLIE 492 (545)
Q Consensus 484 v~FI~~wi~ 492 (545)
..|=+.|++
T Consensus 983 ~tFrnaf~e 991 (1102)
T KOG1924|consen 983 RTFRNAFLE 991 (1102)
T ss_pred HHHHHHHHH
Confidence 334444433
Done!