Query 021942
Match_columns 305
No_of_seqs 91 out of 93
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 06:49:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021942.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021942hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13266 DUF4057: Protein of u 100.0 4E-122 1E-126 857.6 20.4 297 3-303 1-302 (302)
2 PF13266 DUF4057: Protein of u 100.0 1.4E-47 3E-52 358.1 8.0 167 32-224 103-302 (302)
3 PF10313 DUF2415: Uncharacteri 14.9 55 0.0012 23.6 0.0 10 15-24 15-24 (43)
4 PRK14463 ribosomal RNA large s 12.1 1.1E+02 0.0025 30.0 1.3 30 268-301 318-348 (349)
5 cd08003 WGR_PARP2_like WGR dom 8.6 2E+02 0.0043 23.8 1.3 36 209-249 47-82 (103)
6 PF07623 PEGSRP: Protein of un 8.1 1.6E+02 0.0035 19.6 0.5 8 292-299 4-11 (27)
7 TIGR02569 TIGR02569_actnb cons 7.1 2E+02 0.0044 28.2 0.8 16 243-258 179-194 (272)
8 PF07908 D-aminoacyl_C: D-amin 6.9 2.6E+02 0.0057 20.0 1.2 24 34-60 10-33 (48)
9 cd08001 WGR_PARP1_like WGR dom 6.2 3.1E+02 0.0068 22.1 1.4 22 231-252 65-86 (104)
10 PF03020 LEM: LEM domain; Int 5.6 2.3E+02 0.005 20.5 0.2 19 228-246 23-41 (43)
No 1
>PF13266 DUF4057: Protein of unknown function (DUF4057)
Probab=100.00 E-value=4.4e-122 Score=857.56 Aligned_cols=297 Identities=77% Similarity=1.152 Sum_probs=288.2
Q ss_pred CCCCCCCCCCCccccccccCCCCCCCC----CCCCCCCCCCCCCCCCCcceEEeCcccchHHHHhhhccCCCCccccccc
Q 021942 3 RSTPVRKPHTSTADLLVWSETPPSDSP----AQASSTRSSVRGQPSDGISKVVFGGQVTDEEVESLNRRKPCSGYKMKEM 78 (305)
Q Consensus 3 r~~pvr~~h~stadll~w~~~~~~~~~----~~~~~~R~~~~~Qp~~giS~i~fg~~~T~e~~~~l~krKq~S~aK~KEm 78 (305)
|+||||+|||||||||+|+|+|+++++ ++++++|+ |||++|||+|+||+|||+||+++|+|||+||++|||||
T Consensus 1 r~~pvR~~HtsTadLltWse~~~~~~~~~~~~~~~a~Rs---hQPs~giskv~fGgQvT~EEAEsL~KRKpCS~~K~KEm 77 (302)
T PF13266_consen 1 RATPVRKPHTSTADLLTWSETPPPDSPAASSTSRPARRS---HQPSDGISKVVFGGQVTEEEAESLNKRKPCSGYKMKEM 77 (302)
T ss_pred CCCCccCCCcCchhhccccCCCCcccccccCCCCCCCCC---CCCcccccccccCCcCCHHHHHHHhccCcCccccceec
Confidence 799999999999999999999987665 45899999 99999999999999999999999999999999999999
Q ss_pred cCccCCCCCCCCCcCCCCCCCCCCCCCCccceeeccccCccceeccCCCCCCCCCCCCchHHHhhhccCCcccchhHHHH
Q 021942 79 TGSGIFAAGAENDESESGSANPTPNNKTGLRMYQQAIAGISHISFGEEDSISPKKPTTLPEVAKQRELSGTLESESEAKL 158 (305)
Q Consensus 79 SGsgIFa~~~e~~~~~~~~~~~~p~n~tt~~~~~~~~~g~S~IsFgee~~vspkKp~s~~evAkqrelsg~~~de~~~~~ 158 (305)
+|||||++++++++++.+.+++. +|++++|||||.++|+|||||++|++|+||||++++||||||||+||+++++|.++
T Consensus 78 TGSGIF~~~~e~~~se~~san~~-~~rt~vr~yQq~~~giSqISF~~eesvsPKKpts~~EVAKQRELSGTlese~D~k~ 156 (302)
T PF13266_consen 78 TGSGIFSANGEDDASESGSANPT-PNRTGVRMYQQAINGISQISFSEEESVSPKKPTSLPEVAKQRELSGTLESEADSKM 156 (302)
T ss_pred ccccccccCCCCcccccccCCCC-ccccccceecccccccceeeecCCCCcCCCCccchHHHHHHhhhcCccccchhhHH
Confidence 99999999999999998877743 57999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhhhhhhccCCCCCCCCCCCCChhHH-HHHhhhhccCCCCCCCCCccccccccCCCCCCCCccccCccchhhhhhh
Q 021942 159 KKQISDAKSKELSGHDIFAPPPEILPRPAV-RALALKENFNLGDSAPQDVQTSVGVLTPAGDQSSISSTEEPVMKTSKKI 237 (305)
Q Consensus 159 ~KqlS~AK~KELSGsdIFApp~~~~p~~~~-~~~~~~~~~~~gkp~~Rd~~~s~~vr~P~GG~SsI~fge~~~~kt~kki 237 (305)
+||+|+||+||||||||||||++++||+++ |.||.+|+++++++.+|+++++|+|.+|+||+|+|.|++|+|+||+|||
T Consensus 157 kkq~S~AK~KELSGhdIFapp~~~~pr~~~~r~le~k~~~~~~e~~~~~~~ts~~~~n~a~~~s~~~~~~~~~~Ktakki 236 (302)
T PF13266_consen 157 KKQISNAKSKELSGHDIFAPPPEIKPRSLTARSLELKENKDRGEPAPRNVRTSVKVSNPAGGQSNIEFGEDSVVKTAKKI 236 (302)
T ss_pred HhhhhhhhhhhcccCcccCCCccCCCCcchhhhhhhcccccccCCCCCcccccccccCCcCcccccccccCcchhhhhhh
Confidence 999999999999999999999999999975 9999999999999999999999999999999999999999999999999
Q ss_pred hhhhhccccCCCCCCCCCCCCCCCCcchhhhhhhccCCcccCCCCCCccccCCCcccCCCCCCCcc
Q 021942 238 YDKKFSELSGNDIFKGDVPPSSAEKPLSVAKLREMSGSNIFADGKVESRDYLGGVRKPPGGESSIA 303 (305)
Q Consensus 238 ~~~K~~el~Gn~Ifk~d~~~~~~ek~ls~Akl~emsGsdIFadgk~~~Rd~~gg~rkpPGGeSsIa 303 (305)
|+|||+||+||||||+|.||+++||+||+||||||+|+|||||||+++|||+|||||||||+||||
T Consensus 237 ~~~K~aeltGN~IFk~d~p~~saek~lS~AKlrEmsGsdIFaDgk~~~rd~~gg~rkPPGG~SSIa 302 (302)
T PF13266_consen 237 SNQKFAELTGNNIFKGDVPPASAEKPLSSAKLREMSGSDIFADGKAESRDYLGGVRKPPGGESSIA 302 (302)
T ss_pred hhhhhhhcccCcccCCCCCCCCcccchhhhhHhhcccccccccCCcccchhcCCccCCCCCCCcCC
Confidence 999999999999999999999999999999999999999999999999999999999999999997
No 2
>PF13266 DUF4057: Protein of unknown function (DUF4057)
Probab=100.00 E-value=1.4e-47 Score=358.12 Aligned_cols=167 Identities=30% Similarity=0.384 Sum_probs=153.6
Q ss_pred CCCCCCCCCCC-CCCCcceEEeCccc---------------------chHHHHhhhccCCCCccccccccCccCCCCCCC
Q 021942 32 ASSTRSSVRGQ-PSDGISKVVFGGQV---------------------TDEEVESLNRRKPCSGYKMKEMTGSGIFAAGAE 89 (305)
Q Consensus 32 ~~~~R~~~~~Q-p~~giS~i~fg~~~---------------------T~e~~~~l~krKq~S~aK~KEmSGsgIFa~~~e 89 (305)
++++|+ || ..+|||||+||++. |+|.+.+++.+||+|+||+|||+|||||+++++
T Consensus 103 rt~vr~---yQq~~~giSqISF~~eesvsPKKpts~~EVAKQRELSGTlese~D~k~kkq~S~AK~KELSGhdIFapp~~ 179 (302)
T PF13266_consen 103 RTGVRM---YQQAINGISQISFSEEESVSPKKPTSLPEVAKQRELSGTLESEADSKMKKQISNAKSKELSGHDIFAPPPE 179 (302)
T ss_pred ccccce---ecccccccceeeecCCCCcCCCCccchHHHHHHhhhcCccccchhhHHHhhhhhhhhhhcccCcccCCCcc
Confidence 566777 77 55899999999988 788787888889999999999999999999999
Q ss_pred CCcCCC---------CC--CCCCCCCCCccceeeccccCccceeccCCCCCCCCCCCCchHHHhhhccCCcccchhHHHH
Q 021942 90 NDESES---------GS--ANPTPNNKTGLRMYQQAIAGISHISFGEEDSISPKKPTTLPEVAKQRELSGTLESESEAKL 158 (305)
Q Consensus 90 ~~~~~~---------~~--~~~~p~n~tt~~~~~~~~~g~S~IsFgee~~vspkKp~s~~evAkqrelsg~~~de~~~~~ 158 (305)
+.++.. +. ..+.|++.++++++.++++|+|+|.|++|++|+++|+||.+|||+|+||+||++|.++.++
T Consensus 180 ~~pr~~~~r~le~k~~~~~~e~~~~~~~ts~~~~n~a~~~s~~~~~~~~~~Ktakki~~~K~aeltGN~IFk~d~p~~sa 259 (302)
T PF13266_consen 180 IKPRSLTARSLELKENKDRGEPAPRNVRTSVKVSNPAGGQSNIEFGEDSVVKTAKKISNQKFAELTGNNIFKGDVPPASA 259 (302)
T ss_pred CCCCcchhhhhhhcccccccCCCCCcccccccccCCcCcccccccccCcchhhhhhhhhhhhhhcccCcccCCCCCCCCc
Confidence 999852 22 2345789999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhhhhhhccCCCCCCCCCCCCChhHHHHHhhhhccCCCCCCCCCccccccccCCCCCCCCcc
Q 021942 159 KKQISDAKSKELSGHDIFAPPPEILPRPAVRALALKENFNLGDSAPQDVQTSVGVLTPAGDQSSIS 224 (305)
Q Consensus 159 ~KqlS~AK~KELSGsdIFApp~~~~p~~~~~~~~~~~~~~~gkp~~Rd~~~s~~vr~P~GG~SsI~ 224 (305)
+|+||.||+|||+||||||| |||+.|||++ |||+||||+|+|+
T Consensus 260 ek~lS~AKlrEmsGsdIFaD---------------------gk~~~rd~~g--g~rkPPGG~SSIa 302 (302)
T PF13266_consen 260 EKPLSSAKLREMSGSDIFAD---------------------GKAESRDYLG--GVRKPPGGESSIA 302 (302)
T ss_pred ccchhhhhHhhccccccccc---------------------CCcccchhcC--CccCCCCCCCcCC
Confidence 99999999999999999999 8999999999 9999999999996
No 3
>PF10313 DUF2415: Uncharacterised protein domain (DUF2415); InterPro: IPR019417 This entry represents a short (30 residues) domain of unknown function found in a family of fungal proteins. It contains a characteristic DLL sequence motif.
Probab=14.85 E-value=55 Score=23.64 Aligned_cols=10 Identities=50% Similarity=1.029 Sum_probs=8.0
Q ss_pred cccccccCCC
Q 021942 15 ADLLVWSETP 24 (305)
Q Consensus 15 adll~w~~~~ 24 (305)
-|||.|+|..
T Consensus 15 ~DLL~~~E~~ 24 (43)
T PF10313_consen 15 NDLLAWAEHQ 24 (43)
T ss_pred ccEEEEEccC
Confidence 4999999853
No 4
>PRK14463 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=12.07 E-value=1.1e+02 Score=30.05 Aligned_cols=30 Identities=40% Similarity=0.599 Sum_probs=20.5
Q ss_pred hhhhccCCcccCC-CCCCccccCCCcccCCCCCCC
Q 021942 268 KLREMSGSNIFAD-GKVESRDYLGGVRKPPGGESS 301 (305)
Q Consensus 268 kl~emsGsdIFad-gk~~~Rd~~gg~rkpPGGeSs 301 (305)
.+|.=-|.||.|- |.... --+|-||||||-
T Consensus 318 ~vR~~~G~di~aaCGqL~~----~~~~~~~~~~~~ 348 (349)
T PRK14463 318 ITRSSRGSDISAACGQLKG----KLDKAPPGGESC 348 (349)
T ss_pred EEeCCCCcchhhccCcccc----cccCCCCCCCCC
Confidence 3455578888875 55432 257999999983
No 5
>cd08003 WGR_PARP2_like WGR domain of poly(ADP-ribose) polymerases. The WGR domain is found in a variety of eukaryotic poly(ADP-ribose) polymerases (PARPs). It has been called WGR after the most conserved central motif of the domain. The domain typically occurs together with a catalytic PARP domain, and is between 70 and 80 residues in length. It has been proposed to function as a nucleic acid binding domain. PARPs catalyze the NAD(+)-dependent synthesis of ADP-ribose polymers and their addition to various nuclear proteins. Higher eukaryotes contain several PARPs and and there may be up to 17 human PARP-like proteins, with three of them (PARP-1, PARP-2, and PARP-3) containing a WGR domain. The synthesis of poly-ADP-ribose requires multiple enzymatic activities for initiation, trans-ADP-ribosylation, elongation, branching, and release of the polymer from the enzyme. This subfamily is composed of human PARP-2 and similar proteins. Similar to PARP-1, PARP-2 is ubiquitously expressed and it
Probab=8.56 E-value=2e+02 Score=23.82 Aligned_cols=36 Identities=25% Similarity=0.482 Sum_probs=24.5
Q ss_pred ccccccCCCCCCCCccccCccchhhhhhhhhhhhccccCCC
Q 021942 209 TSVGVLTPAGDQSSISSTEEPVMKTSKKIYDKKFSELSGND 249 (305)
Q Consensus 209 ~s~~vr~P~GG~SsI~fge~~~~kt~kki~~~K~~el~Gn~ 249 (305)
|+||. .|+..-..|+. ....|++--.+||.|.|||+
T Consensus 47 GRVG~---~G~~~l~~~~~--~l~~A~~~F~k~F~~KTgn~ 82 (103)
T cd08003 47 GRVGK---KGQSSLVPCGS--DLEQAKSLFEKKFLDKTKNE 82 (103)
T ss_pred ccccc---cccceeccCCC--CHHHHHHHHHHHHHHHhCCc
Confidence 45555 24444333432 25789999999999999995
No 6
>PF07623 PEGSRP: Protein of unknown function (DUF1584); InterPro: IPR011477 This sequence motif is highly conserved in several short hypothetical proteins from Rhodopirellula baltica. It is also associated with IPR011476 from INTERPRO in Q7UJJ9 from SWISSPROT.
Probab=8.13 E-value=1.6e+02 Score=19.60 Aligned_cols=8 Identities=75% Similarity=1.244 Sum_probs=5.7
Q ss_pred cccCCCCC
Q 021942 292 VRKPPGGE 299 (305)
Q Consensus 292 ~rkpPGGe 299 (305)
-|||||-+
T Consensus 4 ~RkppG~~ 11 (27)
T PF07623_consen 4 WRKPPGEE 11 (27)
T ss_pred cccCCCCC
Confidence 48898853
No 7
>TIGR02569 TIGR02569_actnb conserved hypothetical protein TIGR02569, Actinobacterial. This protein family is found, so far, only in Actinobacteria, including as least five species of Mycobacterium, three of Corynebacterium, and Nocardia farcinica, always in a single copy per genome. The function is unknown.
Probab=7.07 E-value=2e+02 Score=28.19 Aligned_cols=16 Identities=19% Similarity=0.706 Sum_probs=14.5
Q ss_pred ccccCCCCCCCCCCCC
Q 021942 243 SELSGNDIFKGDVPPS 258 (305)
Q Consensus 243 ~el~Gn~Ifk~d~~~~ 258 (305)
.||.||-||.|+.+|+
T Consensus 179 gDl~gt~lF~g~~~P~ 194 (272)
T TIGR02569 179 ADMYATTLYAGTQPPG 194 (272)
T ss_pred eecccceeecCCCCCc
Confidence 5999999999999885
No 8
>PF07908 D-aminoacyl_C: D-aminoacylase, C-terminal region; InterPro: IPR012855 D-aminoacylase (Q9AGH8 from SWISSPROT, 3.5.1.81 from EC) hydrolyses a wide variety of N-acyl derivatives of neutral D-amino acids, in a zinc-dependent manner. The enzyme is composed of a small beta-barrel domain and a larger catalytic alpha/beta-barrel that contains a short alpha/beta insert. The overall structure shares significant similarity to the alpha/beta-barrel amidohydrolase superfamily, in which the beta-strands in both barrels superimpose well []. The C-terminal region featured in this entry forms part of the beta-barrel domain, together with a short N-terminal segment. This domain does not seem to contribute to the substrate-binding site or to be involved in the catalytic process.; GO: 0008270 zinc ion binding, 0016811 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides; PDB: 3GIQ_B 3GIP_B 1V4Y_A 1M7J_A 1RK5_A 1RJP_A 1RJR_A 1RJQ_A 1RK6_A 1V51_A.
Probab=6.93 E-value=2.6e+02 Score=19.96 Aligned_cols=24 Identities=33% Similarity=0.576 Sum_probs=16.6
Q ss_pred CCCCCCCCCCCCCcceEEeCcccchHH
Q 021942 34 STRSSVRGQPSDGISKVVFGGQVTDEE 60 (305)
Q Consensus 34 ~~R~~~~~Qp~~giS~i~fg~~~T~e~ 60 (305)
-.++ +|++.||..|.-.|++.-+.
T Consensus 10 ~~~p---~~~~~GI~~V~VNG~~vv~~ 33 (48)
T PF07908_consen 10 YEDP---NQPAEGIDYVFVNGQIVVED 33 (48)
T ss_dssp SSST---T---BSEEEEEETTEEEECT
T ss_pred cccc---cccCCCEEEEEECCEEEEEC
Confidence 3477 89999999999999886543
No 9
>cd08001 WGR_PARP1_like WGR domain of poly(ADP-ribose) polymerase 1 and similar proteins. The WGR domain is found in a variety of eukaryotic poly(ADP-ribose) polymerases (PARPs). It has been called WGR after the most conserved central motif of the domain. The domain typically occurs together with a catalytic PARP domain, and is between 70 and 80 residues in length. It has been proposed to function as a nucleic acid binding domain. PARPs catalyze the NAD(+)-dependent synthesis of ADP-ribose polymers and their addition to various nuclear proteins. Higher eukaryotes contain several PARPs and and there may be up to 17 human PARP-like proteins, with three of them (PARP-1, PARP-2, and PARP-3) containing a WGR domain. The synthesis of poly-ADP-ribose requires multiple enzymatic activities for initiation, trans-ADP-ribosylation, elongation, branching, and release of the polymer from the enzyme. This subfamily is composed of vertebrate PARP-1 and similar proteins, including Arabidopsis thaliana
Probab=6.20 E-value=3.1e+02 Score=22.13 Aligned_cols=22 Identities=23% Similarity=0.519 Sum_probs=18.7
Q ss_pred hhhhhhhhhhhhccccCCCCCC
Q 021942 231 MKTSKKIYDKKFSELSGNDIFK 252 (305)
Q Consensus 231 ~kt~kki~~~K~~el~Gn~Ifk 252 (305)
...|++.-.+||.+.|||+--.
T Consensus 65 ~~~A~~~F~k~f~~KTgn~w~~ 86 (104)
T cd08001 65 LEEAKMAFEELYEEKTGNDFEN 86 (104)
T ss_pred HHHHHHHHHHHHHHHhCCCCcc
Confidence 5789999999999999996544
No 10
>PF03020 LEM: LEM domain; InterPro: IPR003887 The LEM domain is found in nuclear membrane-associated proteins, including lamino-associated polypeptide 2 and emerin []. Defects in the emerin gene are a cause of Emery-Dreifuss muscular dystrophy, an X-linked disorder characterised by early contractures, muscle wasting, weakness and cardiomyopathy.; GO: 0005635 nuclear envelope; PDB: 2ODG_C 2ODC_I 1JEI_A 1H9F_A 1GJJ_A.
Probab=5.55 E-value=2.3e+02 Score=20.48 Aligned_cols=19 Identities=37% Similarity=0.824 Sum_probs=13.5
Q ss_pred ccchhhhhhhhhhhhcccc
Q 021942 228 EPVMKTSKKIYDKKFSELS 246 (305)
Q Consensus 228 ~~~~kt~kki~~~K~~el~ 246 (305)
-|+..|.++++-+|++.|.
T Consensus 23 GPIt~tTR~vY~kkL~kl~ 41 (43)
T PF03020_consen 23 GPITPTTRKVYEKKLAKLK 41 (43)
T ss_dssp ----CCCHHHHHHHCHHHC
T ss_pred CCCCcccHHHHHHHHHHHH
Confidence 4888999999999998875
Done!