Query 022655
Match_columns 294
No_of_seqs 114 out of 270
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 05:10:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022655.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022655hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04177 TAP42: TAP42-like fam 100.0 5.1E-47 1.1E-51 362.0 9.1 222 1-282 109-340 (340)
2 KOG2830 Protein phosphatase 2A 100.0 1.8E-34 3.9E-39 268.7 15.3 187 13-292 136-324 (324)
3 PF13355 DUF4101: Protein of u 36.1 55 0.0012 26.6 3.9 40 196-239 6-45 (117)
4 PF12252 SidE: Dot/Icm substra 30.1 2.2E+02 0.0048 32.1 8.1 40 75-114 1093-1149(1439)
5 PF08599 Nbs1_C: DNA damage re 25.0 1.2E+02 0.0027 22.4 3.7 12 216-227 37-48 (65)
6 PRK15422 septal ring assembly 20.5 2.3E+02 0.0049 21.9 4.5 29 83-111 5-33 (79)
7 PF09733 VEFS-Box: VEFS-Box of 19.6 1.2E+02 0.0027 25.7 3.3 19 201-220 16-35 (140)
8 KOG2830 Protein phosphatase 2A 18.7 1.8E+02 0.0039 28.2 4.5 31 16-46 120-150 (324)
9 COG2188 PhnF Transcriptional r 18.0 79 0.0017 28.6 1.9 18 197-214 16-33 (236)
10 PF00392 GntR: Bacterial regul 16.8 58 0.0013 23.1 0.6 18 198-215 10-27 (64)
No 1
>PF04177 TAP42: TAP42-like family; InterPro: IPR007304 The TOR signalling pathway activates a cell-growth program in response to nutrients []. TIP41 interacts with TAP42 and negatively regulates the TOR signalling pathway [].; GO: 0009966 regulation of signal transduction; PDB: 3QC1_A 2V0P_A.
Probab=100.00 E-value=5.1e-47 Score=362.00 Aligned_cols=222 Identities=31% Similarity=0.450 Sum_probs=78.5
Q ss_pred CCCCCHHHHHHHhcc----------CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccCCCCCCCcccCCCC
Q 022655 1 MELVPEEELEAVAQA----------KPTAFTDQRARKIARFKRQRAAESKLQEIKERKERRGRSTRAAAPSAPVEAGEED 70 (294)
Q Consensus 1 ~~~~~~~~~~~~~~~----------~~~d~a~~R~~KIaryK~eKel~~kL~~L~~~~~~~~r~~~~~~~~~~~e~~~~~ 70 (294)
++||+.++...+... ...+|+.+|+.||+|||++|+|+++|..|+..... +
T Consensus 109 y~ll~~~~~~~~~~~~~~~~~~~~~~~~~~a~~R~~KI~r~K~eKel~~~L~~l~~~~~~-------------------~ 169 (340)
T PF04177_consen 109 YGLLDKDDPKLLESYQDNPSSSSSSSLSDPAARRNEKIARFKREKELEQKLKELEKRRES-------------------D 169 (340)
T ss_dssp TT-S-HHHHHHHHT-HHS---SSCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHT-------------------T
T ss_pred CCCCChhHHHHHhhcccccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc-------------------c
Confidence 478898888877655 35799999999999999999999999999986531 1
Q ss_pred CCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhhhcCCCcchhhHHHHHhhhhhhhhhhhHHhhhhccC
Q 022655 71 VLDDDGEEEREAWLTTISLAVCKALDLLEMLKKEEDMLSAVKERQLKGGEEEFSEVVLDERSKKAESWHRDAAIRAQYTK 150 (294)
Q Consensus 71 ~~~~DEE~~Re~~l~~L~l~~~~a~~~L~si~~EleiL~~~~~~~~~~~~~~~~~~~~d~r~~~~~~~~~~~~~~~~~~~ 150 (294)
.+++|||++|++||++|++|+++|+++|+||.+|++||++++++..............+.....+.+|+++..
T Consensus 170 ~~~~DEE~~Re~~l~~L~~~~~~s~~~l~si~~El~mL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~------- 242 (340)
T PF04177_consen 170 DDDDDEEIEREYYLLLLKLWVLKSLEELESIEQELEMLEMRPKMKEAPESEPSQDERDDEPDADGYSDRLESP------- 242 (340)
T ss_dssp TT-S-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHTT--------------------------------------
T ss_pred CCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCCccccccccccccccccccccccc-------
Confidence 2456999999999999999999999999999999999999987765422100000000000111233443320
Q ss_pred CCCCccccchhhhhhhhhccccccccccCCCcccccccccCCCCchHHHHHHHhcCCCCCCCCcccHHHHHHHHHHHHHH
Q 022655 151 PAQPITCATFAQDVLEGRAKVSQAHEHKHQPMIFGPASLVGGGLTSERERMAAQVFQPMHRLPTMSIEEAGLKEMEMMNK 230 (294)
Q Consensus 151 p~~p~~~~~~~~~~~~~~~~~~~~~~~~~~Pl~~~p~~~~~~~it~~R~~lq~~VFgpG~~LPTMTVeE~~~~E~e~~~~ 230 (294)
...++ ....++|+ +|||| +++|+++|++||||||+||||||||||++|++
T Consensus 243 -----------------~~~pl--~~~~~~~l--~pfti-----~~~R~~~~~~VFgpg~~LPTMTveE~~e~E~~---- 292 (340)
T PF04177_consen 243 -----------------KPGPL--LSKPGKPL--KPFTI-----TSTREQLQKKVFGPGHPLPTMTVEEFLEQEMR---- 292 (340)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred -----------------CCCCC--CCCCCCCC--CCccc-----HHHHHHHHHHhcCCCCCCCcCcHHHHHHHHHH----
Confidence 00000 11233454 89975 45699999999999999999999999999984
Q ss_pred HHHHHHHHHHhhhhhhcccccccCCCCCCCCCCcHHHHHHHHhhhccccCCC
Q 022655 231 WQEMNVKLMEEANSAWYKDNRKLGTSENDNEDDDDDAVQKARAFDDWKDDNP 282 (294)
Q Consensus 231 ~~~r~g~~~~~~~~~~~~~~~~~~~~e~d~eeddee~~~KaR~WDd~KD~np 282 (294)
+|+++.++..............++++++.+|++++|+|+||||||+||
T Consensus 293 ----~g~~~~~~~~~~~~~~~~~~~~~e~~~e~~d~e~~k~R~WDdwKD~np 340 (340)
T PF04177_consen 293 ----EGNIPQGGGAKAEAKEEEEEEDDEDDDEEDDEETLKAREWDDWKDDNP 340 (340)
T ss_dssp ----------------------------------------------------
T ss_pred ----hccCccccccccccccccccchhhhhhhhhcHHHHHHHhhhcccccCC
Confidence 365666543221000111112233345667888999999999999998
No 2
>KOG2830 consensus Protein phosphatase 2A-associated protein [Signal transduction mechanisms]
Probab=100.00 E-value=1.8e-34 Score=268.66 Aligned_cols=187 Identities=30% Similarity=0.434 Sum_probs=138.0
Q ss_pred hccCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccCCCCCCCcccCCCCCCCCChHHHHHHHHHHHHH-HH
Q 022655 13 AQAKPTAFTDQRARKIARFKRQRAAESKLQEIKERKERRGRSTRAAAPSAPVEAGEEDVLDDDGEEEREAWLTTISL-AV 91 (294)
Q Consensus 13 ~~~~~~d~a~~R~~KIaryK~eKel~~kL~~L~~~~~~~~r~~~~~~~~~~~e~~~~~~~~~DEE~~Re~~l~~L~l-~~ 91 (294)
+......++.+|..||++|+++|+|+.+|..++.. |+++ .+|++.+|++|+++|.. |+
T Consensus 136 ~~~~l~~~~~~r~~Kier~~r~kEl~~~l~~~~~a----------------ve~~-----~~Dde~lrelyl~~l~~~~~ 194 (324)
T KOG2830|consen 136 AEKSLVEAALKRQKKIERYKRKKELKHRLTRMQSA----------------VEDG-----QDDDEHLRELYLLQLQRGWI 194 (324)
T ss_pred ccchhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHh----------------hhcC-----CCchHHHHHHHHHHHHhhhh
Confidence 45556789999999999999999999999999872 4444 34677799999999999 99
Q ss_pred HHHHHHHHHHHHHHHHHHhhHHhhhcCCCcchhhHHHHHhhhhhhhhhhhHHhhhhccCCCCCccccchhhhhhhhhccc
Q 022655 92 CKALDLLEMLKKEEDMLSAVKERQLKGGEEEFSEVVLDERSKKAESWHRDAAIRAQYTKPAQPITCATFAQDVLEGRAKV 171 (294)
Q Consensus 92 ~~a~~~L~si~~EleiL~~~~~~~~~~~~~~~~~~~~d~r~~~~~~~~~~~~~~~~~~~p~~p~~~~~~~~~~~~~~~~~ 171 (294)
-.+++.+++|.+|+.+|+... +|| +. .+.++. ..
T Consensus 195 d~~lee~E~i~~e~r~lkE~~------------------------s~r-~~-------st~~t~------------~~-- 228 (324)
T KOG2830|consen 195 DISLEEEESIDQEERLLKEGE------------------------SSR-DP-------STSNTS------------RG-- 228 (324)
T ss_pred chhHHHHHHHHHHHHHHhccc------------------------ccc-cc-------ccCccc------------cc--
Confidence 999999999999999999210 111 00 000000 00
Q ss_pred cccccccCCCcccccccccCCCCchHHHHHHHhcCCCCC-CCCcccHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcccc
Q 022655 172 SQAHEHKHQPMIFGPASLVGGGLTSERERMAAQVFQPMH-RLPTMSIEEAGLKEMEMMNKWQEMNVKLMEEANSAWYKDN 250 (294)
Q Consensus 172 ~~~~~~~~~Pl~~~p~~~~~~~it~~R~~lq~~VFgpG~-~LPTMTVeE~~~~E~e~~~~~~~r~g~~~~~~~~~~~~~~ 250 (294)
..+| .+.||++ .|++.|++|||.|| .||||||+||+++++++ |.++.++..+..+.
T Consensus 229 ------e~~p-~~~~fi~-------~r~~~q~kVfG~Gyp~lPtMsvdE~~~~~~~~--------g~a~~~~~~~~~a~- 285 (324)
T KOG2830|consen 229 ------ETRP-PLFPFII-------TRNETQKKVFGLGYPGLPTMTVDEFLDQEFEE--------GIAKAEAEESRPAA- 285 (324)
T ss_pred ------cCCC-CcchHHH-------HHHHHhhhhhhcCCCCCccccHHHHHHHHHHh--------hhcccCcccccccc-
Confidence 1145 4577763 49999999999999 48999999999988843 43343322222111
Q ss_pred cccCCCCCCCCCCcHHHHHHHHhhhccccCCCCCCCCCCCCC
Q 022655 251 RKLGTSENDNEDDDDDAVQKARAFDDWKDDNPRGAGNKKLTP 292 (294)
Q Consensus 251 ~~~~~~e~d~eeddee~~~KaR~WDd~KD~npRG~GNt~~~~ 292 (294)
.+++++++++++++++|+|+||+|||+||||+||++|++
T Consensus 286 ---~ed~E~~e~ddd~~~~kar~wDe~Kd~~prG~GN~~n~~ 324 (324)
T KOG2830|consen 286 ---KEDQEEEEEDDDEATMKARRWDEFKDDHPRGSGNTMNTG 324 (324)
T ss_pred ---cchhhhhcccChHHHHHHhhhccccccCcccccccccCC
Confidence 112222567889999999999999999999999999986
No 3
>PF13355 DUF4101: Protein of unknown function (DUF4101)
Probab=36.15 E-value=55 Score=26.62 Aligned_cols=40 Identities=23% Similarity=0.278 Sum_probs=24.9
Q ss_pred hHHHHHHHhcCCCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHH
Q 022655 196 SERERMAAQVFQPMHRLPTMSIEEAGLKEMEMMNKWQEMNVKLM 239 (294)
Q Consensus 196 ~~R~~lq~~VFgpG~~LPTMTVeE~~~~E~e~~~~~~~r~g~~~ 239 (294)
..-...|+.+|||.|. +=.+++++...| +..|+.+.....
T Consensus 6 ~~Wl~~Ka~alg~~~~--~~~L~~vl~g~l--l~~w~~~a~~~~ 45 (117)
T PF13355_consen 6 QRWLSAKAQALGPPHD--IDSLSEVLTGPL--LSQWQDRAQWLK 45 (117)
T ss_pred HHHHHHHHHHhCCCcc--hhHHHHHhhHHH--HHHHHHHHHHHH
Confidence 3467799999999996 223455544444 556655554333
No 4
>PF12252 SidE: Dot/Icm substrate protein; InterPro: IPR021014 This entry represents bacterial proteins that are typically between 397 and 1543 amino acids in length including SidE protein in the Dot/Icm pathway of Legionella pneumophila bacteria. There is little literature describing the family.
Probab=30.15 E-value=2.2e+02 Score=32.13 Aligned_cols=40 Identities=33% Similarity=0.346 Sum_probs=31.1
Q ss_pred ChHHHHHHHHHHHHH-----------------HHHHHHHHHHHHHHHHHHHHhhHHh
Q 022655 75 DGEEEREAWLTTISL-----------------AVCKALDLLEMLKKEEDMLSAVKER 114 (294)
Q Consensus 75 DEE~~Re~~l~~L~l-----------------~~~~a~~~L~si~~EleiL~~~~~~ 114 (294)
|++-+|..|=.+|.- .+-+++..|+.+++|+.+|++-...
T Consensus 1093 d~eKvr~rYe~LI~~iTKrIt~LEk~k~~~l~~ikK~ia~lnnlqqElklLRnEK~R 1149 (1439)
T PF12252_consen 1093 DAEKVRVRYETLITDITKRITDLEKAKLDNLDSIKKAIANLNNLQQELKLLRNEKIR 1149 (1439)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHHHHHhHHHh
Confidence 677888887666543 2678999999999999999985443
No 5
>PF08599 Nbs1_C: DNA damage repair protein Nbs1; InterPro: IPR013908 This C-terminal region of the DNA damage repair protein Nbs1 has been identified to be necessary for the binding of Mre11 and Tel1 [].
Probab=25.04 E-value=1.2e+02 Score=22.40 Aligned_cols=12 Identities=42% Similarity=0.307 Sum_probs=9.8
Q ss_pred cHHHHHHHHHHH
Q 022655 216 SIEEAGLKEMEM 227 (294)
Q Consensus 216 TVeE~~~~E~e~ 227 (294)
.++||+.+||+.
T Consensus 37 eleeWl~~e~E~ 48 (65)
T PF08599_consen 37 ELEEWLRQEMEE 48 (65)
T ss_pred cHHHHHHHHHHH
Confidence 789999888853
No 6
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=20.46 E-value=2.3e+02 Score=21.91 Aligned_cols=29 Identities=21% Similarity=0.295 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 022655 83 WLTTISLAVCKALDLLEMLKKEEDMLSAV 111 (294)
Q Consensus 83 ~l~~L~l~~~~a~~~L~si~~EleiL~~~ 111 (294)
.+.+|.--|-.|++.+..+++|++=|+.-
T Consensus 5 vleqLE~KIqqAvdtI~LLqmEieELKek 33 (79)
T PRK15422 5 VFEKLEAKVQQAIDTITLLQMEIEELKEK 33 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46788888999999999999999999864
No 7
>PF09733 VEFS-Box: VEFS-Box of polycomb protein; InterPro: IPR019135 The VEFS-Box is found in the the C-terminal region of the VRN2, EMF2, FIS2, and Su(z)12 polycomb proteins. This domain is characterised by an acidic cluster and a tryptophan/methionine-rich sequence, the acidic-W/M domain []. In some proteins the VEFS-Box is associated with a zinc-finger domain located roughly 100 residues towards the N terminus. These proteins are part of the polycomb cluster of proteins which control HOX gene transcription as it functions in heterochromatin-mediated repression [].
Probab=19.59 E-value=1.2e+02 Score=25.65 Aligned_cols=19 Identities=21% Similarity=0.263 Sum_probs=14.2
Q ss_pred HHHhcCCCCC-CCCcccHHHH
Q 022655 201 MAAQVFQPMH-RLPTMSIEEA 220 (294)
Q Consensus 201 lq~~VFgpG~-~LPTMTVeE~ 220 (294)
+++.+|=..+ .+| |+.+|.
T Consensus 16 ~~~R~y~Hs~t~~p-~~~~e~ 35 (140)
T PF09733_consen 16 LHNRQYFHSRTCQP-MRPEEV 35 (140)
T ss_pred ccCcceecccccee-ccHHHh
Confidence 5666676677 788 999976
No 8
>KOG2830 consensus Protein phosphatase 2A-associated protein [Signal transduction mechanisms]
Probab=18.74 E-value=1.8e+02 Score=28.23 Aligned_cols=31 Identities=29% Similarity=0.363 Sum_probs=26.1
Q ss_pred CCccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 022655 16 KPTAFTDQRARKIARFKRQRAAESKLQEIKE 46 (294)
Q Consensus 16 ~~~d~a~~R~~KIaryK~eKel~~kL~~L~~ 46 (294)
.+..++..|..||++|+...-+...+....+
T Consensus 120 k~~~~~~~~~~~~s~~~~~~l~~~~~~r~~K 150 (324)
T KOG2830|consen 120 KTKNNAADRALKISRMAEKSLVEAALKRQKK 150 (324)
T ss_pred cccCchhHHHHHHhhhccchhHHHHHHHHhH
Confidence 3568899999999999999888888877655
No 9
>COG2188 PhnF Transcriptional regulators [Transcription]
Probab=17.98 E-value=79 Score=28.58 Aligned_cols=18 Identities=28% Similarity=0.578 Sum_probs=17.0
Q ss_pred HHHHHHHhcCCCCCCCCc
Q 022655 197 ERERMAAQVFQPMHRLPT 214 (294)
Q Consensus 197 ~R~~lq~~VFgpG~~LPT 214 (294)
-++++.+++|.||+.||+
T Consensus 16 i~~~I~~G~~~~G~~LPs 33 (236)
T COG2188 16 IRQRIESGELPPGDKLPS 33 (236)
T ss_pred HHHHHHhCCCCCCCCCCC
Confidence 399999999999999998
No 10
>PF00392 GntR: Bacterial regulatory proteins, gntR family; InterPro: IPR000524 Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon []. Family members include GntR, HutC, KorA, NtaR, FadR, ExuR, FarR, DgoR and PhnF. The crystal structure of the FadR protein has been determined []. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector-binding or oligomerisation domain at the C terminus (IPR011711 from INTERPRO). The DNA-binding domain is well conserved in structure for the whole of the GntR family, consisting of a 3-helical bundle core with a small beta-sheet (wing); the GntR winged helix structure is similar to that found in several other transcriptional regulator families. The regions outside the DNA-binding domain are more variable and are consequently used to define GntR subfamilies []. This entry represents the N-terminal DNA-binding domain of the GntR family.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1HW1_B 1H9T_A 1HW2_A 1H9G_A 1E2X_A 3IHU_A 3C7J_A 2RA5_A 3BY6_C 3IC7_A ....
Probab=16.79 E-value=58 Score=23.06 Aligned_cols=18 Identities=28% Similarity=0.506 Sum_probs=13.9
Q ss_pred HHHHHHhcCCCCCCCCcc
Q 022655 198 RERMAAQVFQPMHRLPTM 215 (294)
Q Consensus 198 R~~lq~~VFgpG~~LPTM 215 (294)
++.+..+.|.||..|||.
T Consensus 10 ~~~I~~g~~~~g~~lps~ 27 (64)
T PF00392_consen 10 RQAILSGRLPPGDRLPSE 27 (64)
T ss_dssp HHHHHTTSS-TTSBE--H
T ss_pred HHHHHcCCCCCCCEeCCH
Confidence 889999999999999975
Done!