Query 025636
Match_columns 250
No_of_seqs 117 out of 337
Neff 4.6
Searched_HMMs 29240
Date Mon Mar 25 14:22:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025636.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/025636hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 4dgl_A Casein kinase II subuni 100.0 4.1E-95 1.4E-99 640.4 12.4 193 57-249 2-194 (215)
2 1qf8_A Casein kinase II; casei 100.0 5.3E-88 1.8E-92 583.1 9.9 179 58-236 3-181 (182)
3 4esj_A Type-2 restriction enzy 71.9 0.81 2.8E-05 41.1 0.1 60 161-227 34-105 (257)
4 2kxe_A DNA polymerase II small 63.5 3.3 0.00011 30.5 1.9 29 134-162 8-36 (75)
5 2jmo_A Parkin; IBR, E3 ligase, 33.9 31 0.0011 24.9 3.0 36 163-201 27-70 (80)
6 2con_A RUH-035 protein, NIN on 32.2 13 0.00044 27.7 0.7 13 185-197 26-38 (79)
7 3vk8_A Probable formamidopyrim 30.6 31 0.0011 30.9 3.1 36 159-198 251-288 (295)
8 2kep_A General secretion pathw 24.2 32 0.0011 26.6 1.8 28 126-154 18-45 (110)
9 1f62_A Transcription factor WS 23.4 23 0.0008 23.1 0.7 8 189-196 41-48 (51)
10 3m7n_A Putative uncharacterize 22.8 42 0.0014 27.7 2.3 32 157-200 136-167 (179)
11 3v2d_6 50S ribosomal protein L 21.1 41 0.0014 23.2 1.6 17 181-197 29-45 (54)
12 3r8s_1 50S ribosomal protein L 20.6 39 0.0013 22.9 1.3 17 181-197 26-42 (50)
No 1
>4dgl_A Casein kinase II subunit beta; protein kinase, transferase; 3.00A {Homo sapiens} PDB: 2r6m_A 1jwh_C 1ds5_E*
Probab=100.00 E-value=4.1e-95 Score=640.38 Aligned_cols=193 Identities=58% Similarity=1.125 Sum_probs=174.6
Q ss_pred CCCCCCchHHHHhCCCCCeeEEecCcccccCCCccCCCCCCCCCHHHHHHHHcCCCCCCCCCCChhhHHHHHHHHHHHhc
Q 025636 57 SDGDDTSWISWFCNLRGNEFFCEVDDEYIQDDFNLCGLSSQVPYYDYALDLILDVESSHGDMFTEEQNELVESAAEMLYG 136 (250)
Q Consensus 57 ~~~e~~sWI~wFcs~~gneff~eVdedyI~D~FNL~GL~~~V~~y~~AL~~ILd~~~~~~~~~~d~~~~~ie~~A~~LYG 136 (250)
|++++.+||+|||+++||+||||||+|||+|+|||+||+++||+|++||+||||.+++++.+.++++.+.++++|++|||
T Consensus 2 s~s~~~sWI~wFc~~~gneffceVd~dyI~D~FNL~GL~~~Vp~y~~aLd~Ild~~~~~~~~~~~~~~~~ie~~A~~LYG 81 (215)
T 4dgl_A 2 SSSEEVSWISWFCGLRGNEFFCEVDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPDEELEDNPNQSDLIEQAAEMLYG 81 (215)
T ss_dssp ------CHHHHHHTSTTCTTCCCCCHHHHHSTTTTTTGGGTSSSHHHHHHHHTTC--------CTTHHHHHHHHHHHHHH
T ss_pred CCcccCcHHHHHhCCCCCeEEEEeCHHHhcCcccccCchhccccHHHHHHHHcCCCCcchhcccchhHHHHHHHHHHHhh
Confidence 34566799999999999999999999999999999999999999999999999998765444445567789999999999
Q ss_pred cccceeeeChHHHHHHHHhhccCccCCCCCcCCCCCCccccccCCCCCCccceeecCCCCccccCCCCCCCcccccccCC
Q 025636 137 LIHVRYILTSKGMAAMLEKYKNYDFGRCPRVYCCGQPCLPVGQSDIPRSSTVKIYCPKCEDIYYPRSKYQGNIDGAYFGT 216 (250)
Q Consensus 137 LIHARYIlT~~Gl~~M~eKy~~g~FG~CPRv~C~~q~lLPiGlSd~pg~s~VKlyCP~C~DvY~P~s~~~~~iDGAyFGt 216 (250)
|||||||+|++||++|++||++|+||+||||+|++|+|||+|+||+||+++||||||+|+|||+|+++++++||||||||
T Consensus 82 LIHARYIlT~~Gl~~M~eKY~~g~FG~CPRv~C~~q~~LPvGlSD~pg~~~VKlyCP~C~DvY~P~s~r~~~iDGAyFGt 161 (215)
T 4dgl_A 82 LIHARYILTNRGIAQMLEKYQQGDFGYCPRVYCENQPMLPIGLSDIPGEAMVKLYCPKCMDVYTPKSSRHHHTDGAYFGT 161 (215)
T ss_dssp HHHHHHTTSHHHHHHHHHHHHTTTTCBCCBGGGTSCBCEEEESCSSTTSCBEEEECTTTCCEECCSSTTSTTSBGGGTTT
T ss_pred hhhHhheecHHHHHHHHHHHhcCCCCcCCccccCCCceeccccCCCCCccceeEeCCCcccccCCCcccccccccceecC
Confidence 99999999999999999999999999999999999999999999999999999999999999999998888999999999
Q ss_pred chhhHHHHHhCCCCCCCCCCccceeeeeeeecC
Q 025636 217 TFPHLFLMTYGHLKPQKATQSYVPRVFGFKLHK 249 (250)
Q Consensus 217 sFph~Fl~~yP~l~p~~~~~~Y~PrIfGFkI~~ 249 (250)
||||||+|+||+++|+++.++|+|||||||||+
T Consensus 162 sFph~f~~~~p~l~p~~~~~~yvPrifGFkih~ 194 (215)
T 4dgl_A 162 GFPHMLFMVHPEYRPKRPANQFVPRLYGFKIHP 194 (215)
T ss_dssp THHHHHHHHCGGGCCCSCSCCCCCEETTEEECT
T ss_pred cchHHHHHHcccccCCCCCCcccCeEeEEEecH
Confidence 999999999999999999999999999999996
No 2
>1qf8_A Casein kinase II; casein kinase beta subunit (1-182), Ser/Thr protein kinase, Zn finger, transferase; HET: MSE; 1.74A {Homo sapiens} SCOP: g.41.4.1 PDB: 3eed_A 1rqf_A
Probab=100.00 E-value=5.3e-88 Score=583.11 Aligned_cols=179 Identities=58% Similarity=1.111 Sum_probs=162.1
Q ss_pred CCCCCchHHHHhCCCCCeeEEecCcccccCCCccCCCCCCCCCHHHHHHHHcCCCCCCCCCCChhhHHHHHHHHHHHhcc
Q 025636 58 DGDDTSWISWFCNLRGNEFFCEVDDEYIQDDFNLCGLSSQVPYYDYALDLILDVESSHGDMFTEEQNELVESAAEMLYGL 137 (250)
Q Consensus 58 ~~e~~sWI~wFcs~~gneff~eVdedyI~D~FNL~GL~~~V~~y~~AL~~ILd~~~~~~~~~~d~~~~~ie~~A~~LYGL 137 (250)
++++.+||+|||+++||+||||||+|||+|+|||+||+++||+|++||+||||.+++++.+.++++.+.++++|++||||
T Consensus 3 ~~~~~sWI~wF~~~~gneffceVd~dyI~D~FNL~GL~~~vp~y~~aLd~Ild~~~~~~~~~~~~~~~~ie~~a~~LYGL 82 (182)
T 1qf8_A 3 SSEEVSWISWFCGLRGNEFFCEVDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPDEELEDNPNQSDLIEQAAEMLYGL 82 (182)
T ss_dssp ----CCHHHHHHHSTTCTTCCCCCHHHHHSGGGGTTGGGTSTTHHHHHHHHTTCCCC------CHHHHHHHHHHHHHHHH
T ss_pred CCccCcHHHHHhCCCCCeEEEEeCHHHhcCcchhhCccccccCHHHHHHHHhCCCCccccccchhhhHHHHHHHHHHhch
Confidence 45567899999999999999999999999999999999999999999999999987655444455678899999999999
Q ss_pred ccceeeeChHHHHHHHHhhccCccCCCCCcCCCCCCccccccCCCCCCccceeecCCCCccccCCCCCCCcccccccCCc
Q 025636 138 IHVRYILTSKGMAAMLEKYKNYDFGRCPRVYCCGQPCLPVGQSDIPRSSTVKIYCPKCEDIYYPRSKYQGNIDGAYFGTT 217 (250)
Q Consensus 138 IHARYIlT~~Gl~~M~eKy~~g~FG~CPRv~C~~q~lLPiGlSd~pg~s~VKlyCP~C~DvY~P~s~~~~~iDGAyFGts 217 (250)
||||||+|++||++|++||++|+||+||||+|++|+|||+|+||+||+++||+|||+|+|||+|++.++++|||||||||
T Consensus 83 IHaRyIlT~~Gl~~M~eKy~~g~FG~CPRv~C~~q~~LPvGlSd~pg~~~VKlyCP~C~DvY~p~s~~~~~iDGAyFGts 162 (182)
T 1qf8_A 83 IHARYILTNRGIAQMLEKYQQGDFGYCPRVYCENQPMLPIGLSDIPGEAMVKLYCPKCMDVYTPKSSRHHHTDGAYFGTG 162 (182)
T ss_dssp HHHHHTTSHHHHHHHHHHHHTTTTCBCCBGGGTTCBCEEECSCSSTTSCBCEEECTTTCCEECCSSGGGTTSBGGGTCSS
T ss_pred hhhhhcccHHHHHHHHHhhhcCcCCCCCccccCCCcccCCccCCCCCCCceEEECCCccceeCCCcccccccccceecCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999988878999999999
Q ss_pred hhhHHHHHhCCCCCCCCCC
Q 025636 218 FPHLFLMTYGHLKPQKATQ 236 (250)
Q Consensus 218 Fph~Fl~~yP~l~p~~~~~ 236 (250)
|||||+|+||++.|+++.+
T Consensus 163 Fph~f~~~~p~l~p~~~~~ 181 (182)
T 1qf8_A 163 FPHMLFMVHPEYRPKRPAN 181 (182)
T ss_dssp HHHHHHHHCGGGSCSCC--
T ss_pred hHHHHHHHcccccCCCCCC
Confidence 9999999999999987654
No 3
>4esj_A Type-2 restriction enzyme DPNI; restriction endonuclease-DNA complex, type IIM, type IIE, RE enzyme, DPNI; HET: DNA 6MA; 2.05A {Streptococcus pneumoniae}
Probab=71.88 E-value=0.81 Score=41.13 Aligned_cols=60 Identities=30% Similarity=0.619 Sum_probs=36.4
Q ss_pred cCCCCCcCCCCCCccccccCCCCCCccce-eecCCCCccccCCCCC--CC--cccccccC-------CchhhHHHHHhC
Q 025636 161 FGRCPRVYCCGQPCLPVGQSDIPRSSTVK-IYCPKCEDIYYPRSKY--QG--NIDGAYFG-------TTFPHLFLMTYG 227 (250)
Q Consensus 161 FG~CPRv~C~~q~lLPiGlSd~pg~s~VK-lyCP~C~DvY~P~s~~--~~--~iDGAyFG-------tsFph~Fl~~yP 227 (250)
-+-||+ |..-++- .-++..+|. .|||.|++-|.-+|.. .+ -.||||-- .+=|.+|+|+|.
T Consensus 34 n~yCPn--CG~~~l~-----~f~nN~PVaDF~C~~C~EeyELKSk~~~~~~~I~dGAY~Tmi~Ri~s~~NPnFffL~Y~ 105 (257)
T 4esj_A 34 QSYCPN--CGNNPLN-----HFENNRPVADFYCNHCSEEFELKSKKGNFSSTINDGAYATMMKRVQADNNPNFFFLTYT 105 (257)
T ss_dssp HCCCTT--TCCSSCE-----EC----CCCEEECTTTCCEEEEEEEESSCCSEEEEEEHHHHHHHHHTTCCCEEEEEEEC
T ss_pred CCcCCC--CCChhhh-----hccCCCcccccccCCcchhheeccccCccCccccCchHHHHHHHHhccCCCCEEEEEec
Confidence 356775 4443332 234455665 8999999999976543 22 34999963 255777778775
No 4
>2kxe_A DNA polymerase II small subunit; D-family, archara, helical BU transferase; HET: DNA; NMR {Pyrococcus horikoshii}
Probab=63.49 E-value=3.3 Score=30.52 Aligned_cols=29 Identities=17% Similarity=0.445 Sum_probs=26.3
Q ss_pred HhccccceeeeChHHHHHHHHhhccCccC
Q 025636 134 LYGLIHVRYILTSKGMAAMLEKYKNYDFG 162 (250)
Q Consensus 134 LYGLIHARYIlT~~Gl~~M~eKy~~g~FG 162 (250)
.=+|+-++|++||..--.+.+-|++|+|-
T Consensus 8 Vk~L~~n~YLiTPsAYyLL~~~ykkg~Fs 36 (75)
T 2kxe_A 8 VKGLMKNGYLITPSAYYLLVGHFNEGKFS 36 (75)
T ss_dssp HHHHHTTTCEECHHHHHHHHHHHHTTSSC
T ss_pred HHHHHHCCceeCchHHHHHHHHhhccccc
Confidence 45789999999999999999999999985
No 5
>2jmo_A Parkin; IBR, E3 ligase, zinc binding domain, RBR; NMR {Homo sapiens}
Probab=33.88 E-value=31 Score=24.90 Aligned_cols=36 Identities=22% Similarity=0.457 Sum_probs=20.7
Q ss_pred CCCCcCCCCCCccccccCCCCCC--------ccceeecCCCCccccC
Q 025636 163 RCPRVYCCGQPCLPVGQSDIPRS--------STVKIYCPKCEDIYYP 201 (250)
Q Consensus 163 ~CPRv~C~~q~lLPiGlSd~pg~--------s~VKlyCP~C~DvY~P 201 (250)
-||+..|...-..+ + +.... +-=..||.+|+.-||.
T Consensus 27 ~CP~p~C~~~v~~~-~--~~~~v~C~~~~~~~C~~~FC~~C~~~wH~ 70 (80)
T 2jmo_A 27 LCPRPGCGAGLLPE-P--DQRKVTCEGGNGLGCGFAFCRECKEAYHE 70 (80)
T ss_dssp CCCSSSCCCCCCCC-S--CTTSBCTTSSSTTCCSCCEETTTTEECCS
T ss_pred ECCCCCCCcccEEC-C--CCCcCCCCCCCCCCCCCeeccccCccccC
Confidence 49999998753332 1 11111 1114577888888876
No 6
>2con_A RUH-035 protein, NIN one binding protein; ribosome, RNA binding protein, unknown function, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.41.15.1
Probab=32.18 E-value=13 Score=27.74 Aligned_cols=13 Identities=23% Similarity=0.876 Sum_probs=10.5
Q ss_pred CccceeecCCCCc
Q 025636 185 SSTVKIYCPKCED 197 (250)
Q Consensus 185 ~s~VKlyCP~C~D 197 (250)
..+-|.|||+|.-
T Consensus 26 ~~~~k~FCp~CGn 38 (79)
T 2con_A 26 SDMNRVFCGHCGN 38 (79)
T ss_dssp SCSSCCSCSSSCC
T ss_pred CCcccccccccCc
Confidence 4466999999994
No 7
>3vk8_A Probable formamidopyrimidine-DNA glycosylase; DNA glycosylase, hneil1 ortholog, DNA lesion, thymine glycol zincless finger; HET: DNA CTG; 2.00A {Acanthamoeba polyphaga mimivirus} PDB: 3vk7_A* 3a42_A 3a46_A* 3a45_A*
Probab=30.55 E-value=31 Score=30.90 Aligned_cols=36 Identities=8% Similarity=0.223 Sum_probs=20.0
Q ss_pred CccCC--CCCcCCCCCCccccccCCCCCCccceeecCCCCcc
Q 025636 159 YDFGR--CPRVYCCGQPCLPVGQSDIPRSSTVKIYCPKCEDI 198 (250)
Q Consensus 159 g~FG~--CPRv~C~~q~lLPiGlSd~pg~s~VKlyCP~C~Dv 198 (250)
.+||+ || | |.++.=+-+-+..+.++---|||+|+..
T Consensus 251 ~VYgR~g~P---C-G~~I~~~~~~~~~~~~R~t~~CP~CQ~~ 288 (295)
T 3vk8_A 251 LVYRKKKDP---N-GNKVIADKIIGSGKNKRTTYWAPAIQKL 288 (295)
T ss_dssp SSTTCSBCT---T-SCBCEEEECSCCTTCCCEEEECTTTCBC
T ss_pred EEeCCCCCC---C-CCcEEEEEecCCCCCCCccEECCCCCCC
Confidence 56775 55 4 5544322221112245667899999954
No 8
>2kep_A General secretion pathway protein G; methylation, transport, transport protein; NMR {Pseudomonas aeruginosa}
Probab=24.21 E-value=32 Score=26.63 Aligned_cols=28 Identities=29% Similarity=0.432 Sum_probs=24.0
Q ss_pred HHHHHHHHHhccccceeeeChHHHHHHHH
Q 025636 126 LVESAAEMLYGLIHVRYILTSKGMAAMLE 154 (250)
Q Consensus 126 ~ie~~A~~LYGLIHARYIlT~~Gl~~M~e 154 (250)
.++ .|-.+|-|=|-||=.|++||+++.+
T Consensus 18 ~l~-~Al~~Y~lD~G~YPtt~qgL~aLv~ 45 (110)
T 2kep_A 18 AIA-AALDMYKLDNFAYPSTQQGLEALVK 45 (110)
T ss_dssp HHH-HHHHHHHHHTSSCCCTTHHHHHHHS
T ss_pred HHH-HHHHHHHHHhCCCCCcHHHHHHHHh
Confidence 344 4667999999999999999999987
No 9
>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2
Probab=23.41 E-value=23 Score=23.06 Aligned_cols=8 Identities=38% Similarity=1.232 Sum_probs=4.4
Q ss_pred eeecCCCC
Q 025636 189 KIYCPKCE 196 (250)
Q Consensus 189 KlyCP~C~ 196 (250)
..|||.|.
T Consensus 41 ~W~C~~C~ 48 (51)
T 1f62_A 41 EWQCPACQ 48 (51)
T ss_dssp CCSCTTTS
T ss_pred cEECcCcc
Confidence 45566554
No 10
>3m7n_A Putative uncharacterized protein AF_0206; exosome, RNA, exonuclease, hydrolase, nuclease, hydrolase-RN; 2.40A {Archaeoglobus fulgidus} PDB: 2ba1_A 3m85_A
Probab=22.77 E-value=42 Score=27.67 Aligned_cols=32 Identities=19% Similarity=0.458 Sum_probs=23.1
Q ss_pred ccCccCCCCCcCCCCCCccccccCCCCCCccceeecCCCCcccc
Q 025636 157 KNYDFGRCPRVYCCGQPCLPVGQSDIPRSSTVKIYCPKCEDIYY 200 (250)
Q Consensus 157 ~~g~FG~CPRv~C~~q~lLPiGlSd~pg~s~VKlyCP~C~DvY~ 200 (250)
.-..+..||+ | |.++.|++ . .+.||.|.-+-.
T Consensus 136 lGvv~a~~~~--~-g~~m~~~~-~--------~~~cp~~g~~e~ 167 (179)
T 3m7n_A 136 MGVLRALCSN--C-KTEMVREG-D--------ILKCPECGRVEK 167 (179)
T ss_dssp CEEEECBCTT--T-CCBCEECS-S--------SEECSSSCCEEC
T ss_pred CCEEEecccc--c-CCceEECC-C--------EEECCCCCCEEE
Confidence 4455667884 4 56889977 2 799999997653
No 11
>3v2d_6 50S ribosomal protein L33; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2hgq_5 2hgj_5 2hgu_5 2j03_6 2jl6_6 2jl8_6 2v47_6 2v49_6 2wdi_6 2wdj_6 2wdl_6 2wdn_6 2wh2_6 2wh4_6 2wrj_6 2wrl_6 2wro_6 2wrr_6 2x9s_6 2x9u_6 ...
Probab=21.06 E-value=41 Score=23.18 Aligned_cols=17 Identities=29% Similarity=0.894 Sum_probs=13.6
Q ss_pred CCCCCccceeecCCCCc
Q 025636 181 DIPRSSTVKIYCPKCED 197 (250)
Q Consensus 181 d~pg~s~VKlyCP~C~D 197 (250)
..|..-.+|-|||.|+.
T Consensus 29 n~p~rLelkKycp~c~k 45 (54)
T 3v2d_6 29 NTPNKLELRKYCPWCRK 45 (54)
T ss_dssp TSCSCCEEEEEETTTTE
T ss_pred CCCcccEEeeeCCCCCC
Confidence 45667788999999984
No 12
>3r8s_1 50S ribosomal protein L33; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 3fik_1 3j19_1 2wwq_4 3oat_1* 3oas_1* 3ofd_1 3ofc_1 3ofr_1* 3ofz_1* 3og0_1 3ofq_1 3r8t_1 3i1n_1 1vs8_1 1vs6_1 1vt2_1 3i1p_1 3i1r_1 3i1t_1 3i20_1 ...
Probab=20.65 E-value=39 Score=22.95 Aligned_cols=17 Identities=18% Similarity=0.311 Sum_probs=13.2
Q ss_pred CCCCCccceeecCCCCc
Q 025636 181 DIPRSSTVKIYCPKCED 197 (250)
Q Consensus 181 d~pg~s~VKlyCP~C~D 197 (250)
..|..-.+|-|||.|+.
T Consensus 26 ~~~~rLelkKycp~~~k 42 (50)
T 3r8s_1 26 TKPEKLELKKFDPVVRQ 42 (50)
T ss_dssp GCCSCCCEEEEETTTTE
T ss_pred CCCccceEeeeCcCCCC
Confidence 34666678999999984
Done!