Query 027042
Match_columns 229
No_of_seqs 179 out of 344
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 04:08:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027042.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027042hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05712 MRG: MRG; InterPro: 100.0 1.9E-51 4.2E-56 349.6 13.9 171 40-213 4-194 (194)
2 KOG3001 Dosage compensation re 100.0 1.1E-34 2.3E-39 268.7 7.8 173 54-226 211-390 (391)
3 cd04404 RhoGAP-p50rhoGAP RhoGA 56.7 1.1E+02 0.0024 25.4 9.2 137 66-209 22-195 (195)
4 smart00340 HALZ homeobox assoc 52.9 8 0.00017 25.3 1.1 16 3-18 17-32 (44)
5 PF13495 Phage_int_SAM_4: Phag 47.4 34 0.00074 24.0 3.9 45 91-136 37-81 (85)
6 PF15136 UPF0449: Uncharacteri 44.8 17 0.00038 27.9 2.1 20 88-107 7-26 (97)
7 PF02899 Phage_int_SAM_1: Phag 44.6 1E+02 0.0022 21.2 9.1 82 101-203 1-82 (84)
8 PF11390 FdsD: NADH-dependant 43.9 36 0.00078 23.9 3.4 33 165-197 1-33 (61)
9 PRK14752 delta-hemolysin; Prov 41.4 37 0.00081 21.8 2.8 37 166-208 5-41 (44)
10 cd04402 RhoGAP_ARHGAP20 RhoGAP 40.5 2.2E+02 0.0047 23.8 10.1 21 192-212 171-191 (192)
11 PF05372 Delta_lysin: Delta ly 38.2 59 0.0013 18.6 3.0 21 188-208 3-23 (25)
12 PRK00236 xerC site-specific ty 30.8 3.2E+02 0.0069 22.8 9.3 88 93-204 2-92 (297)
13 TIGR03248 galactar-dH20 galact 27.0 91 0.002 30.7 4.3 49 156-218 305-353 (507)
14 KOG2573 Ribosome biogenesis pr 26.4 1.6E+02 0.0034 28.5 5.6 78 65-146 69-146 (498)
15 COG3475 LPS biosynthesis prote 24.5 25 0.00053 31.6 -0.0 73 157-229 24-100 (256)
16 cd00801 INT_P4 Bacteriophage P 24.2 4E+02 0.0086 23.2 7.7 88 92-205 68-155 (357)
17 cd04392 RhoGAP_ARHGAP19 RhoGAP 23.7 87 0.0019 26.7 3.2 37 174-210 161-197 (208)
18 KOG1556 26S proteasome regulat 22.1 1E+02 0.0022 27.8 3.3 45 159-203 169-215 (309)
19 PF04295 GD_AH_C: D-galactarat 21.6 1.3E+02 0.0029 28.6 4.3 49 156-218 196-244 (396)
20 PF10025 DUF2267: Uncharacteri 20.2 2.2E+02 0.0048 22.0 4.7 40 64-110 45-84 (125)
No 1
>PF05712 MRG: MRG; InterPro: IPR008676 This family consists of three different eukaryotic proteins (mortality factor 4 (MORF4/MRG15), male-specific lethal 3(MSL-3) and ESA1-associated factor 3(EAF3)). It is thought that the MRG family is involved in transcriptional regulation via histone acetylation [, ].; GO: 0005634 nucleus; PDB: 2AQL_A 2F5J_A 2LKM_B 2Y0N_D.
Probab=100.00 E-value=1.9e-51 Score=349.55 Aligned_cols=171 Identities=47% Similarity=0.754 Sum_probs=127.0
Q ss_pred CCCCcCCCCCCcccccccCCCcceEEeCChhHHHHHHHHHHHHhhCCceeeCCCCCCHHHHHHHHHHhhhccC--Cch--
Q 027042 40 GRGRKRKNDSLNKETNGLQMENFVNIQIPPPLKKQLVDDCEFITHLGKLVKLPRTPNVDDILEKYCDYRSKKD--GLV-- 115 (229)
Q Consensus 40 ~~~~kr~~~~~~e~~~~~~~~~~i~i~iP~~Lk~~LvdD~e~Itk~~~Lv~LP~~~tV~~IL~~Y~~~~~~~~--~~~-- 115 (229)
+++++|++++ .++++...++++|+||..||.+|||||++|+++++|++|||++||++||++|.++..... ...
T Consensus 4 ~~~~~~~~~~---~~~~~~~~~~~~i~lP~~Lk~~LvdD~~~I~~~~~l~~LP~~~~V~~IL~~y~~~~~~~~~~~~~~~ 80 (194)
T PF05712_consen 4 ARGKKRRRSS---SEDDSEEEPEIKIELPEELKKILVDDWELITKEKKLVKLPAKPSVDDILEDYVESFADSDDSEEESA 80 (194)
T ss_dssp -----------------------------HHHHHHHHHHHHHHHTS-EEE-SS-SSBHHHHHHHHHHHHHHCHCSS---T
T ss_pred cccCCCCCcc---cccccccCceEEEECCHHHHHHHHHHHHHHHcCCceeeCCCCCCHHHHHHHHHHHHhhcccCcchhH
Confidence 3555665554 244557788999999999999999999999999999999999999999999999987432 111
Q ss_pred ---hhhHHHHHHHHHHHHhhhcCccCCChhhHhhHHHhhhcC------------CCCccccChhHHHHHHhhhHHHhhcC
Q 027042 116 ---ADSTGEIVKGLRCYFDKALPIMLLYKSEREQYEDSMAAD------------VSPSSVYGAEHLLRLFVKLPELLVHA 180 (229)
Q Consensus 116 ---~~~~~e~~~Gl~~YFn~~L~~~LLY~~ER~Qy~~~~~~~------------~~pS~iYGa~HLLRLfvkLP~ll~~t 180 (229)
...+.|+++||+.|||++||++|||++||+||.+++... .+||++||++|||||||+||+||+.+
T Consensus 81 ~~~~~~~~e~~~Gl~~yFn~~L~~~LLY~~Er~Qy~~~~~~~~~~~~~~~~~~~~~ps~~YG~~HLLRL~vkLPell~~~ 160 (194)
T PF05712_consen 81 EQERDLLKEVADGLRDYFNKALGSQLLYKFERPQYDELLKKHATRDDSPPDEPGFRPSDIYGAIHLLRLFVKLPELLSST 160 (194)
T ss_dssp HH--HHHHHHHHHHHHHHHHHCCCCTS-GGGHHHHHHHHHHS---------STTS-HHHC-BHHHHHHHHHHHHHHHCCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHhcccchhccccCCCCCHHhhccHHHHHHHHHHHHHHHhhC
Confidence 146899999999999999999999999999999998653 49999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHchhhhcc-ccC
Q 027042 181 KIEEETLTLLQHKLVDLLKFLQKHQSTFFL-SRY 213 (229)
Q Consensus 181 ~~d~~s~~~l~~~l~~fl~fL~~n~~~~F~-~dY 213 (229)
+|++++++.|..++.+||+||++|.+.||. ++|
T Consensus 161 ~~~~~~~~~l~~~l~~fl~fL~~n~~~~f~~~~y 194 (194)
T PF05712_consen 161 NMDEESINILLEHLQDFLKFLEKNSEEYFSEEDY 194 (194)
T ss_dssp GGCHHHHHHHHHHHHHHHHHHHHTHHHHS-GGGE
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHhCCcccC
Confidence 999999999999999999999999999999 666
No 2
>KOG3001 consensus Dosage compensation regulatory complex/histone acetyltransferase complex, subunit MSL-3/MRG15/EAF3, and related CHROMO domain-containing proteins [Chromatin structure and dynamics; Transcription]
Probab=100.00 E-value=1.1e-34 Score=268.73 Aligned_cols=173 Identities=40% Similarity=0.609 Sum_probs=151.1
Q ss_pred ccccCCCcceEEeCChhHHHHHHHHHHHHhhCCceeeCCCCCCHHHHHHHHHHhhhccC--Cc-hhhhHHHHHHHHHHHH
Q 027042 54 TNGLQMENFVNIQIPPPLKKQLVDDCEFITHLGKLVKLPRTPNVDDILEKYCDYRSKKD--GL-VADSTGEIVKGLRCYF 130 (229)
Q Consensus 54 ~~~~~~~~~i~i~iP~~Lk~~LvdD~e~Itk~~~Lv~LP~~~tV~~IL~~Y~~~~~~~~--~~-~~~~~~e~~~Gl~~YF 130 (229)
+..+...+++.+.||..|+.+|+|||+.|++..+++.+|+.++|+.|+..|........ +. ....+.+...|++.||
T Consensus 211 ~~~~~~~~~v~~~l~~~~~~~l~dd~~~vt~~~~~~~~~~~~~~e~~~~~~~~~~k~~~~~~~~~~~~~~~~~~g~~~yf 290 (391)
T KOG3001|consen 211 PPTLPATVEVKLSLPQELKRSLVDDWDSVTEVDSLAELPQDVTVEQILKKYGFSEKKASGLSNSKEPEVLEVAAGLKRYF 290 (391)
T ss_pred CCCCCccccccccCchhhcccccchhhhhhhhhhhhcccCCchhhhhhhhhhHhhhhccccccccccccccccccceeee
Confidence 33444467899999999999999999999999999999999999999999987765332 11 1223344559999999
Q ss_pred hhhcCccCCChhhHhhHHHhhhcCC---CCccccChhHHHHHHhhhHHHhhcCCCCHHHHHHHHHHHHHHHHHHHHchhh
Q 027042 131 DKALPIMLLYKSEREQYEDSMAADV---SPSSVYGAEHLLRLFVKLPELLVHAKIEEETLTLLQHKLVDLLKFLQKHQST 207 (229)
Q Consensus 131 n~~L~~~LLY~~ER~Qy~~~~~~~~---~pS~iYGa~HLLRLfvkLP~ll~~t~~d~~s~~~l~~~l~~fl~fL~~n~~~ 207 (229)
|.+||.+|||++||.||.++..+.. +||++|||+|||||||+||+||.+++|+.++++.|..++++|++||.+|...
T Consensus 291 n~~lG~~llyk~Er~qy~~~~~~~~~Ds~~s~vyGa~HLlRLfvKLpe~l~~~~~~~~~l~~Ll~~~~~flk~L~~~~~~ 370 (391)
T KOG3001|consen 291 NGQLGVMLLYKFERLQYAEVVAKYPKDSPPSNVYGAEHLLRLFVKLPEILKYTPMDEKSLALLLRHRKDFLKYLRKNSAS 370 (391)
T ss_pred cccchhhhhhhhhhHHHHHHHhcCCCCCCcccchhHHHHHHHHhHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHhccc
Confidence 9999999999999999999986433 4999999999999999999999999999999999999999999999999977
Q ss_pred hcc-ccCCCCCHHHHHhhcc
Q 027042 208 FFL-SRYHSAEDVETSANKQ 226 (229)
Q Consensus 208 ~F~-~dY~~a~~eY~~~a~~ 226 (229)
||. ++|.+++++|.+.+-+
T Consensus 371 ~f~~s~y~~~~~e~~~~~~~ 390 (391)
T KOG3001|consen 371 FFSSSDYSNASPEYSSSSLP 390 (391)
T ss_pred cccccchhhhchhhhhcccC
Confidence 777 9999999999987754
No 3
>cd04404 RhoGAP-p50rhoGAP RhoGAP-p50rhoGAP: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of p50RhoGAP-like proteins; p50RhoGAP, also known as RhoGAP-1, contains a C-terminal RhoGAP domain and an N-terminal Sec14 domain which binds phosphatidylinositol 3,4,5-trisphosphate (PtdIns(3,4,5)P3). It is ubiquitously expressed and preferentially active on Cdc42. This subgroup also contains closely related ARHGAP8. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=56.74 E-value=1.1e+02 Score=25.43 Aligned_cols=137 Identities=17% Similarity=0.257 Sum_probs=64.0
Q ss_pred eCChhHHHHHHHHH-HHHhhCCceeeCCCCCC-HHHHHHHHHHhhhccCCchh-hhHHHHHHHHHHHHhhhcCccCCChh
Q 027042 66 QIPPPLKKQLVDDC-EFITHLGKLVKLPRTPN-VDDILEKYCDYRSKKDGLVA-DSTGEIVKGLRCYFDKALPIMLLYKS 142 (229)
Q Consensus 66 ~iP~~Lk~~LvdD~-e~Itk~~~Lv~LP~~~t-V~~IL~~Y~~~~~~~~~~~~-~~~~e~~~Gl~~YFn~~L~~~LLY~~ 142 (229)
.+|..|..++.-=+ .-+. .--++++|...+ |+++.+.+-+.... .... .-+..++..|+.||... +.-|+-.
T Consensus 22 ~iP~il~~~i~~l~~~g~~-~eGIFR~~g~~~~i~~l~~~~~~~~~~--~~~~~~d~~~va~~LK~~lr~L-p~pLi~~- 96 (195)
T cd04404 22 PIPPVVRETVEYLQAHALT-TEGIFRRSANTQVVKEVQQKYNMGEPV--DFDQYEDVHLPAVILKTFLREL-PEPLLTF- 96 (195)
T ss_pred CCChHHHHHHHHHHHcCCC-CCCeeeCCCcHHHHHHHHHHHhCCCCC--CcccccCHHHHHHHHHHHHHhC-CCccCCH-
Confidence 47777765532211 1122 234778877654 44444444221110 1111 12334555577777754 3334321
Q ss_pred hHhhHHHhhh-----------------cCCCCccccChhHHHHHHhhhHHHhhcCCCCHHHHHH----------------
Q 027042 143 EREQYEDSMA-----------------ADVSPSSVYGAEHLLRLFVKLPELLVHAKIEEETLTL---------------- 189 (229)
Q Consensus 143 ER~Qy~~~~~-----------------~~~~pS~iYGa~HLLRLfvkLP~ll~~t~~d~~s~~~---------------- 189 (229)
| .|..+.. ..-++....=..+|+++|.++-.--....|+.+.+..
T Consensus 97 ~--~~~~l~~~~~~~~~~~~~~~~~~i~~LP~~n~~~L~~L~~~l~~i~~~s~~NkM~~~nLa~vfaP~l~~~~~~~~~l 174 (195)
T cd04404 97 D--LYDDIVGFLNVDKEERVERVKQLLQTLPEENYQVLKYLIKFLVQVSAHSDQNKMTNSNLAVVFGPNLLWAKDASMSL 174 (195)
T ss_pred H--HHHHHHHHHcCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHhcccccCCCHhHhheeeeccccCCCCcccCH
Confidence 1 2222211 1123344444555666665543322233455444332
Q ss_pred -HHHHHHHHHHHHHHchhhhc
Q 027042 190 -LQHKLVDLLKFLQKHQSTFF 209 (229)
Q Consensus 190 -l~~~l~~fl~fL~~n~~~~F 209 (229)
=...++.|++||-.|.++.|
T Consensus 175 ~~~~~~~~~~~~LI~~~~~iF 195 (195)
T cd04404 175 SAINPINTFTKFLLDHQDEIF 195 (195)
T ss_pred HHHHHHHHHHHHHHHhHHhhC
Confidence 12346789999999988776
No 4
>smart00340 HALZ homeobox associated leucin zipper.
Probab=52.87 E-value=8 Score=25.27 Aligned_cols=16 Identities=38% Similarity=0.275 Sum_probs=13.6
Q ss_pred CCHHHHhhhHHHHHHh
Q 027042 3 DTEANRHRQPVFTKKR 18 (229)
Q Consensus 3 ~~e~N~~~qk~L~~~~ 18 (229)
.+|||..+|++|++-.
T Consensus 17 LteeNrRL~ke~~eLr 32 (44)
T smart00340 17 LTEENRRLQKEVQELR 32 (44)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5799999999998655
No 5
>PF13495 Phage_int_SAM_4: Phage integrase, N-terminal SAM-like domain; PDB: 2A3V_A.
Probab=47.44 E-value=34 Score=23.98 Aligned_cols=45 Identities=27% Similarity=0.487 Sum_probs=29.2
Q ss_pred CCCCCCHHHHHHHHHHhhhccCCchhhhHHHHHHHHHHHHhhhcCc
Q 027042 91 LPRTPNVDDILEKYCDYRSKKDGLVADSTGEIVKGLRCYFDKALPI 136 (229)
Q Consensus 91 LP~~~tV~~IL~~Y~~~~~~~~~~~~~~~~e~~~Gl~~YFn~~L~~ 136 (229)
-|...|.++| .+|+.+.....+-....+.-...+|+.+|+.+++.
T Consensus 37 ~~~~it~~~i-~~y~~~l~~~~~~s~~T~~~~~~~l~~ff~~~~~~ 81 (85)
T PF13495_consen 37 PPDEITPEDI-EQYLNYLQNERGLSPSTINQYLSALRSFFRWLLER 81 (85)
T ss_dssp -GGG--HHHH-HHHHHHHHTTT---HHHHHHHHHHHHHHHHCTSS-
T ss_pred ccchhHHHHH-HHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHcC
Confidence 3566777777 68988887433334456677899999999998764
No 6
>PF15136 UPF0449: Uncharacterised protein family UPF0449
Probab=44.82 E-value=17 Score=27.85 Aligned_cols=20 Identities=35% Similarity=0.501 Sum_probs=15.7
Q ss_pred eeeCCCCCCHHHHHHHHHHh
Q 027042 88 LVKLPRTPNVDDILEKYCDY 107 (229)
Q Consensus 88 Lv~LP~~~tV~~IL~~Y~~~ 107 (229)
|..=|+.|||++||+|-...
T Consensus 7 LPtRP~PPTvEqILEDv~~A 26 (97)
T PF15136_consen 7 LPTRPEPPTVEQILEDVRGA 26 (97)
T ss_pred CCCCCCCCCHHHHHHHHhcC
Confidence 44557889999999997654
No 7
>PF02899 Phage_int_SAM_1: Phage integrase, N-terminal SAM-like domain; InterPro: IPR004107 Proteins containing this domain cleave DNA substrates by a series of staggered cuts, during which the protein becomes covalently linked to the DNA through a catalytic tyrosine residue at the carboxy end of the alignment [, ]. The phage integrase N-terminal SAM-like domain is almost always found with the signature that defines the phage integrase family (see IPR002104 from INTERPRO).; GO: 0003677 DNA binding, 0015074 DNA integration; PDB: 1Z1G_B 1Z19_A 1Z1B_A 2OXO_A 1P7D_B 3NRW_A 1A0P_A.
Probab=44.60 E-value=1e+02 Score=21.20 Aligned_cols=82 Identities=15% Similarity=0.263 Sum_probs=44.5
Q ss_pred HHHHHHhhhccCCchhhhHHHHHHHHHHHHhhhcCccCCChhhHhhHHHhhhcCCCCccccChhHHHHHHhhhHHHhhcC
Q 027042 101 LEKYCDYRSKKDGLVADSTGEIVKGLRCYFDKALPIMLLYKSEREQYEDSMAADVSPSSVYGAEHLLRLFVKLPELLVHA 180 (229)
Q Consensus 101 L~~Y~~~~~~~~~~~~~~~~e~~~Gl~~YFn~~L~~~LLY~~ER~Qy~~~~~~~~~pS~iYGa~HLLRLfvkLP~ll~~t 180 (229)
|++|..+.....+.....+......|+.+++.+-.. ....+.++ ...|+...+. -+...
T Consensus 1 i~~f~~~l~~~~~ls~~T~~~Y~~~l~~f~~~~~~~----------------~~~~~~~i-~~~~v~~f~~----~~~~~ 59 (84)
T PF02899_consen 1 IERFLRYLEQERGLSPNTIRSYRRDLRRFIRWLEEH----------------GIIDWEDI-TEEDVRDFLE----YLAKE 59 (84)
T ss_dssp HHHHHHHHHHTTTS-HHHHHHHHHHHHHHHHHHHHT----------------TS-CGGG---HHHHHHHHH----HHHCT
T ss_pred CHHHHHHHHHccCCcHHHHHHHHHHHHHHHHhhhhh----------------hhhhhhhh-hhHHHHHHHH----HHHcc
Confidence 567888776544333444555555555555432210 11233333 3444443333 33444
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHH
Q 027042 181 KIEEETLTLLQHKLVDLLKFLQK 203 (229)
Q Consensus 181 ~~d~~s~~~l~~~l~~fl~fL~~ 203 (229)
...+.+++..+..|..|.+|+.+
T Consensus 60 ~~s~~T~~~~~~alr~f~~~l~~ 82 (84)
T PF02899_consen 60 GLSPSTINRRLSALRAFFRFLYR 82 (84)
T ss_dssp T--HHHHHHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHHHHH
Confidence 47889999999999999999975
No 8
>PF11390 FdsD: NADH-dependant formate dehydrogenase delta subunit FdsD; InterPro: IPR021074 FdsD is the delta subunit of the enzyme formate dehydrogenase. This subunit may play a role in maintaining the quaternary structure by means of electrostatic interactions with the other subunits []. The delta subunit is not involved in the active centre of the enzyme [].
Probab=43.91 E-value=36 Score=23.85 Aligned_cols=33 Identities=12% Similarity=0.256 Sum_probs=28.4
Q ss_pred HHHHHHhhhHHHhhcCCCCHHHHHHHHHHHHHH
Q 027042 165 HLLRLFVKLPELLVHAKIEEETLTLLQHKLVDL 197 (229)
Q Consensus 165 HLLRLfvkLP~ll~~t~~d~~s~~~l~~~l~~f 197 (229)
||.||--.+...+...+-.++.+..+..||+.|
T Consensus 1 ~LI~MANQIa~ff~~~p~~~~a~~~va~Hi~kF 33 (61)
T PF11390_consen 1 KLIKMANQIAAFFESYPPEEEAVEGVANHIKKF 33 (61)
T ss_pred CHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHh
Confidence 788899999999988877888888899998876
No 9
>PRK14752 delta-hemolysin; Provisional
Probab=41.43 E-value=37 Score=21.76 Aligned_cols=37 Identities=22% Similarity=0.432 Sum_probs=25.5
Q ss_pred HHHHHhhhHHHhhcCCCCHHHHHHHHHHHHHHHHHHHHchhhh
Q 027042 166 LLRLFVKLPELLVHAKIEEETLTLLQHKLVDLLKFLQKHQSTF 208 (229)
Q Consensus 166 LLRLfvkLP~ll~~t~~d~~s~~~l~~~l~~fl~fL~~n~~~~ 208 (229)
.||.|.-+.+=.-. +..-+...+.+|++|+-+...+|
T Consensus 5 ilrifilikegvis------ma~dii~tig~~vk~ii~tv~kf 41 (44)
T PRK14752 5 ILRIFILIKEGVIS------MAQDIISTIGDLVKWIIDTVNKF 41 (44)
T ss_pred HHHHHHHHHHhHHH------HHHHHHHHHHHHHHHHHHHHHHH
Confidence 57888755543322 23457888999999998877655
No 10
>cd04402 RhoGAP_ARHGAP20 RhoGAP_ARHGAP20: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of ArhGAP20-like proteins. ArhGAP20, also known as KIAA1391 and RA-RhoGAP, contains a RhoGAP, a RA, and a PH domain, and ANXL repeats. ArhGAP20 is activated by Rap1 and induces inactivation of Rho, which in turn leads to neurite outgrowth. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=40.47 E-value=2.2e+02 Score=23.75 Aligned_cols=21 Identities=24% Similarity=0.415 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHchhhhcccc
Q 027042 192 HKLVDLLKFLQKHQSTFFLSR 212 (229)
Q Consensus 192 ~~l~~fl~fL~~n~~~~F~~d 212 (229)
..+..++.||-.|.+..|..|
T Consensus 171 ~~~~~~~~~LI~~~~~IF~~~ 191 (192)
T cd04402 171 KKVTSLVQFLIENCQEIFGED 191 (192)
T ss_pred HhhhHHHHHHHHhHHHhCCCC
Confidence 457889999999999988754
No 11
>PF05372 Delta_lysin: Delta lysin family; InterPro: IPR008034 Delta-lysin is a 26 amino acid, hemolytic peptide toxin secreted by Staphylococcus aureus. It is thought that delta-toxin forms an amphipathic helix upon binding to lipid bilayers []. The precise mode of action of delta-lysis is unclear.; GO: 0019836 hemolysis by symbiont of host erythrocytes, 0005576 extracellular region; PDB: 2KAM_A 2DTB_A 1DTC_A.
Probab=38.21 E-value=59 Score=18.63 Aligned_cols=21 Identities=14% Similarity=0.289 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHchhhh
Q 027042 188 TLLQHKLVDLLKFLQKHQSTF 208 (229)
Q Consensus 188 ~~l~~~l~~fl~fL~~n~~~~ 208 (229)
.-+.+.+.+|++|+.+...+|
T Consensus 3 ~DIisTIgdfvKlI~~TV~KF 23 (25)
T PF05372_consen 3 ADIISTIGDFVKLIIETVKKF 23 (25)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHh
Confidence 347788999999999877665
No 12
>PRK00236 xerC site-specific tyrosine recombinase XerC; Reviewed
Probab=30.80 E-value=3.2e+02 Score=22.84 Aligned_cols=88 Identities=13% Similarity=0.230 Sum_probs=46.1
Q ss_pred CCCCHHHHHHHHHHhhhccCCchhhhHH---HHHHHHHHHHhhhcCccCCChhhHhhHHHhhhcCCCCccccChhHHHHH
Q 027042 93 RTPNVDDILEKYCDYRSKKDGLVADSTG---EIVKGLRCYFDKALPIMLLYKSEREQYEDSMAADVSPSSVYGAEHLLRL 169 (229)
Q Consensus 93 ~~~tV~~IL~~Y~~~~~~~~~~~~~~~~---e~~~Gl~~YFn~~L~~~LLY~~ER~Qy~~~~~~~~~pS~iYGa~HLLRL 169 (229)
+.+|+.+++++|+++............. -.+.-+..|+...-+ . ..++ -...|+..+
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~s~~T~~~~~~~~~~~~~~~~~~~~----~---------------~~~~-i~~~~i~~~ 61 (297)
T PRK00236 2 ADADLPAALEAFLEYLRVERGLSPHTLRAYRRDLRAFLAFLEEHGI----S---------------SLQD-LDAADLRSF 61 (297)
T ss_pred CCchHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHcCC----C---------------chhh-CCHHHHHHH
Confidence 4689999999999987543211111222 223334444433111 0 0111 123344443
Q ss_pred HhhhHHHhhcCCCCHHHHHHHHHHHHHHHHHHHHc
Q 027042 170 FVKLPELLVHAKIEEETLTLLQHKLVDLLKFLQKH 204 (229)
Q Consensus 170 fvkLP~ll~~t~~d~~s~~~l~~~l~~fl~fL~~n 204 (229)
+-.+- ...+...+++.....|..|++|+.++
T Consensus 62 ~~~~~----~~~~~~~t~~~~~~~l~~~~~~a~~~ 92 (297)
T PRK00236 62 LARRR----RQGLSARSLARRLSALRSFYRWLVRR 92 (297)
T ss_pred HHHHH----hcccChhHHHHHHHHHHHHHHHHHhc
Confidence 33321 12345667778888899999998765
No 13
>TIGR03248 galactar-dH20 galactarate dehydratase. Galactarate dehydratase converts D-galactarate to 5-dehydro-4-deoxyglucarate which is subsequently acted on by GarL, tartronate semialdehyde reductase and glycerate kinase (, GenProp0714).
Probab=27.04 E-value=91 Score=30.75 Aligned_cols=49 Identities=18% Similarity=0.118 Sum_probs=35.3
Q ss_pred CCccccChhHHHHHHhhhHHHhhcCCCCHHHHHHHHHHHHHHHHHHHHchhhhccccCCCCCH
Q 027042 156 SPSSVYGAEHLLRLFVKLPELLVHAKIEEETLTLLQHKLVDLLKFLQKHQSTFFLSRYHSAED 218 (229)
Q Consensus 156 ~pS~iYGa~HLLRLfvkLP~ll~~t~~d~~s~~~l~~~l~~fl~fL~~n~~~~F~~dY~~a~~ 218 (229)
.-.++||+||+|-= ---+++....+...++.|-+|...+-..+ |.++||
T Consensus 305 Et~E~~GaE~iL~~----------Ra~~~ev~~k~~~~i~~~~~y~~~~g~~~----~~nPSp 353 (507)
T TIGR03248 305 EVTEVRDAIHLLTP----------RAETAEVAKALVREMDWYDRYLARGQADR----SANTTP 353 (507)
T ss_pred CCcceeChHHHHHh----------hhCCHHHHHHHHHHHHHHHHHHHHcCCCc----cCCCCc
Confidence 67899999998632 23467777788888888888887765533 666665
No 14
>KOG2573 consensus Ribosome biogenesis protein - Nop56p/Sik1p [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=26.39 E-value=1.6e+02 Score=28.53 Aligned_cols=78 Identities=15% Similarity=0.070 Sum_probs=49.6
Q ss_pred EeCChhHHHHHHHHHHHHhhCCceeeCCCCCCHHHHHHHHHHhhhccCCchhhhHHHHHHHHHHHHhhhcCccCCChhhH
Q 027042 65 IQIPPPLKKQLVDDCEFITHLGKLVKLPRTPNVDDILEKYCDYRSKKDGLVADSTGEIVKGLRCYFDKALPIMLLYKSER 144 (229)
Q Consensus 65 i~iP~~Lk~~LvdD~e~Itk~~~Lv~LP~~~tV~~IL~~Y~~~~~~~~~~~~~~~~e~~~Gl~~YFn~~L~~~LLY~~ER 144 (229)
=.+++.|+..|..-+--+.+.+....+--..=-..|-+.+-... -.....+.|++.|+|..|++.+...==|..|+
T Consensus 69 G~~~edLr~fLe~nlpK~kkkk~sLgi~d~kLg~~i~E~~~~i~----c~~~~~~~ellRGvR~hf~kl~K~L~~~d~~k 144 (498)
T KOG2573|consen 69 GVVHEDLRSFLELNLPKVKKKKVSLGIGDSKLGISIKEAFPKIP----CQSNEVVQELLRGVRKHFDKLMKGLDPGDLEK 144 (498)
T ss_pred ccccHHHHHHHHhhChhhhcCceeeccCcchhhhHHHhhccCcc----cccchhHHHHHHHHHHHHHHHHccCCCccHHH
Confidence 35789999999887766643333322222111223333321000 11235788999999999999998888899999
Q ss_pred hh
Q 027042 145 EQ 146 (229)
Q Consensus 145 ~Q 146 (229)
.|
T Consensus 145 aq 146 (498)
T KOG2573|consen 145 AQ 146 (498)
T ss_pred HH
Confidence 99
No 15
>COG3475 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]
Probab=24.45 E-value=25 Score=31.55 Aligned_cols=73 Identities=14% Similarity=0.168 Sum_probs=56.5
Q ss_pred CccccChhHHHHHHhhhHHHhhc--CCCCHH-HHHHHHHHHHHHHH-HHHHchhhhccccCCCCCHHHHHhhccCCC
Q 027042 157 PSSVYGAEHLLRLFVKLPELLVH--AKIEEE-TLTLLQHKLVDLLK-FLQKHQSTFFLSRYHSAEDVETSANKQEDD 229 (229)
Q Consensus 157 pS~iYGa~HLLRLfvkLP~ll~~--t~~d~~-s~~~l~~~l~~fl~-fL~~n~~~~F~~dY~~a~~eY~~~a~~~~~ 229 (229)
.|.-|+++|-|+-=+-+.++-.- -+||++ .+-.++..-+.|++ |+.+|.++|+...+......|+..|...|+
T Consensus 24 lC~~~~i~y~l~~gTLigAirhkgfIPwDDDIDi~~~r~Dy~~L~~v~~~~~~~~Y~i~s~~~~~~~~~~fi~i~D~ 100 (256)
T COG3475 24 LCKEYKIEYWLRYGTLIGAIRHKGFIPWDDDIDIYMLRKDYHRLLEVWMGENNENYWILSGTLLGAVRHQFIIIFDD 100 (256)
T ss_pred HHHHhCCcEEEecccchhhhhhCCcCCcccchhhhhhHHHHHHHHHHhhhccCcceeeeecchhhhhhcCceeeecC
Confidence 36668888888877777777664 456655 66788999999995 889999999997777777888877776654
No 16
>cd00801 INT_P4 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall reaction mechanism with the superfamily of DNA breaking-rejoining enzymes. The P4 integrase mediates integrative and excisive site-specific recombination between two sites, called attachment sites, located on the phage genome and the bacterial chromosome. The phage attachment site is often found adjacent to the integrase gene, while the host attachment sites are typically situated near tRNA genes.
Probab=24.16 E-value=4e+02 Score=23.18 Aligned_cols=88 Identities=10% Similarity=0.108 Sum_probs=48.4
Q ss_pred CCCCCHHHHHHHHHHhhhccCCchhhhHHHHHHHHHHHHhhhcCccCCChhhHhhHHHhhhcCCCCccccChhHHHHHHh
Q 027042 92 PRTPNVDDILEKYCDYRSKKDGLVADSTGEIVKGLRCYFDKALPIMLLYKSEREQYEDSMAADVSPSSVYGAEHLLRLFV 171 (229)
Q Consensus 92 P~~~tV~~IL~~Y~~~~~~~~~~~~~~~~e~~~Gl~~YFn~~L~~~LLY~~ER~Qy~~~~~~~~~pS~iYGa~HLLRLfv 171 (229)
+...|+.++++.|++...... ...........+..++...+|..-|-... ..|+.+++.
T Consensus 68 ~~~~t~~~~~~~y~~~~~~~~--~~~t~~~~~~~~~~~l~~~~g~~~l~~i~-------------------~~~~~~~~~ 126 (357)
T cd00801 68 SAANTFAEVAEEWLAAKKPRW--SEKHARQWRRTLEKHVLPVLGKKPITEIT-------------------ARDLLDVLR 126 (357)
T ss_pred hhhhHHHHHHHHHHHHhhccC--ChhHHHHHHHHHHhhcchhhcCCCHHHcC-------------------HHHHHHHHH
Confidence 455899999999998875311 11112222222333333333433222222 334444444
Q ss_pred hhHHHhhcCCCCHHHHHHHHHHHHHHHHHHHHch
Q 027042 172 KLPELLVHAKIEEETLTLLQHKLVDLLKFLQKHQ 205 (229)
Q Consensus 172 kLP~ll~~t~~d~~s~~~l~~~l~~fl~fL~~n~ 205 (229)
.+..- ..+.+++.....|..|+.|+.++-
T Consensus 127 ~~~~~-----~~~~t~~~~~~~l~~~~~~a~~~g 155 (357)
T cd00801 127 RIEAR-----GALETARRVRQRLKQVFRYAIARG 155 (357)
T ss_pred HHHHc-----CCHHHHHHHHHHHHHHHHHHHHcC
Confidence 33321 126788899999999999998763
No 17
>cd04392 RhoGAP_ARHGAP19 RhoGAP_ARHGAP19: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of ArhGAP19-like proteins. The function of ArhGAP19 is unknown. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=23.69 E-value=87 Score=26.73 Aligned_cols=37 Identities=27% Similarity=0.481 Sum_probs=25.2
Q ss_pred HHHhhcCCCCHHHHHHHHHHHHHHHHHHHHchhhhcc
Q 027042 174 PELLVHAKIEEETLTLLQHKLVDLLKFLQKHQSTFFL 210 (229)
Q Consensus 174 P~ll~~t~~d~~s~~~l~~~l~~fl~fL~~n~~~~F~ 210 (229)
|.|+.....+...+..-...++.++.||-+|.++.|.
T Consensus 161 P~Ll~~~~~~~~~~~~~~~~~~~iv~~lI~~~~~iF~ 197 (208)
T cd04392 161 PHLICPRNLTPEDLHENAQKLNSIVTFMIKHSQKLFK 197 (208)
T ss_pred cccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 4444444444444433445678999999999999997
No 18
>KOG1556 consensus 26S proteasome regulatory complex, subunit RPN8/PSMD7 [Posttranslational modification, protein turnover, chaperones]
Probab=22.12 E-value=1e+02 Score=27.82 Aligned_cols=45 Identities=29% Similarity=0.356 Sum_probs=24.9
Q ss_pred cccChhHHHHHHhh--hHHHhhcCCCCHHHHHHHHHHHHHHHHHHHH
Q 027042 159 SVYGAEHLLRLFVK--LPELLVHAKIEEETLTLLQHKLVDLLKFLQK 203 (229)
Q Consensus 159 ~iYGa~HLLRLfvk--LP~ll~~t~~d~~s~~~l~~~l~~fl~fL~~ 203 (229)
+--|+|||||=+-- .+.|-...+---.++.-|...+.+.-.||.+
T Consensus 169 EEvGVEHLlRDikd~t~gtla~rit~ql~sLkgl~~~L~eI~~YL~~ 215 (309)
T KOG1556|consen 169 EEVGVEHLLRDIKDTTVGTLATRITNQLMSLKGLQSRLREIRSYLDK 215 (309)
T ss_pred HHhhHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34699999997631 1112111111123455567777777777764
No 19
>PF04295 GD_AH_C: D-galactarate dehydratase / Altronate hydrolase, C terminus; InterPro: IPR007392 This domain is found at the C terminus of D-galactarate dehydratase (4.2.1.42 from EC) which is thought to catalyse the reaction D-galactarate = 5-keto-4-deoxy-D-glucarate + H2O, [] and altronate hydrolase (altronic acid hydratase, 4.2.1.7 from EC), which catalyses D-altronate = 2-keto-2-deoxygluconate + H2O []. As purified, both enzymes are catalytically inactive in the absence of added Fe2+, Mn2+, and beta-mercaptoethanol. Synergistic activation of altronate hydrolase activity is seen in the presence of both iron and manganese ions, suggesting that the enzyme may have two ion binding sites. Mn2+ appears to be part of the enzyme active centre, but the function of the single bound Fe2+ ion is unknown. The hydratase has no Fe-S core []. The N-terminal is represented by IPR007389 from INTERPRO.; GO: 0016836 hydro-lyase activity
Probab=21.63 E-value=1.3e+02 Score=28.61 Aligned_cols=49 Identities=14% Similarity=0.191 Sum_probs=34.5
Q ss_pred CCccccChhHHHHHHhhhHHHhhcCCCCHHHHHHHHHHHHHHHHHHHHchhhhccccCCCCCH
Q 027042 156 SPSSVYGAEHLLRLFVKLPELLVHAKIEEETLTLLQHKLVDLLKFLQKHQSTFFLSRYHSAED 218 (229)
Q Consensus 156 ~pS~iYGa~HLLRLfvkLP~ll~~t~~d~~s~~~l~~~l~~fl~fL~~n~~~~F~~dY~~a~~ 218 (229)
.-.+++|+||+|-= --.+++....|...++.|-+|+..+-..+ +.++||
T Consensus 196 Et~El~GaE~~l~~----------Ra~~~ev~~k~~~~i~~~~~~~~~~g~~~----~~nPSp 244 (396)
T PF04295_consen 196 ETPELIGAEHILAR----------RAVNPEVADKILALINWFEDYAKSHGQDI----GGNPSP 244 (396)
T ss_pred cCccccCHHHHHHH----------HhCCHHHHHHHHHHHHHHHHHHHHhCCCc----CCCcCC
Confidence 78899999998632 22467777788888888888887665433 555554
No 20
>PF10025 DUF2267: Uncharacterized conserved protein (DUF2267); InterPro: IPR018727 This entry contains proteins that have no known function. ; PDB: 2YSK_A.
Probab=20.15 E-value=2.2e+02 Score=22.03 Aligned_cols=40 Identities=18% Similarity=0.251 Sum_probs=24.9
Q ss_pred EEeCChhHHHHHHHHHHHHhhCCceeeCCCCCCHHHHHHHHHHhhhc
Q 027042 64 NIQIPPPLKKQLVDDCEFITHLGKLVKLPRTPNVDDILEKYCDYRSK 110 (229)
Q Consensus 64 ~i~iP~~Lk~~LvdD~e~Itk~~~Lv~LP~~~tV~~IL~~Y~~~~~~ 110 (229)
-=.+|..|+.+|.+.|..... |.+.+.++++..-.+....
T Consensus 45 a~qLP~~l~~~l~~gw~~~~~-------~~~~~~~eF~~rVa~~~~~ 84 (125)
T PF10025_consen 45 AAQLPMELRGILYEGWRPSEG-------PGRFDLDEFLARVAERLGG 84 (125)
T ss_dssp HTTS-HHHHHHHHTT--TTS------------SHHHHHHHHHHTSEE
T ss_pred HHhCCHHHHHHHHhcccCCCC-------CCCCCHHHHHHHHHHHccC
Confidence 346899999999999986543 4448899888887765543
Done!