Query 033541
Match_columns 117
No_of_seqs 121 out of 1162
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 03:29:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033541.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033541hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1708 Mitochondrial/chloropl 100.0 2.6E-29 5.5E-34 194.8 6.4 106 2-110 102-211 (236)
2 TIGR01079 rplX_bact ribosomal 99.9 2.5E-26 5.5E-31 161.7 7.6 70 2-74 33-104 (104)
3 PRK00004 rplX 50S ribosomal pr 99.9 3.6E-25 7.7E-30 155.9 7.6 71 1-74 33-104 (105)
4 COG0198 RplX Ribosomal protein 99.9 5.3E-24 1.1E-28 150.1 7.1 69 3-74 33-103 (104)
5 CHL00141 rpl24 ribosomal prote 99.6 1E-15 2.2E-20 104.0 4.0 45 1-45 37-82 (83)
6 PRK12281 rplX 50S ribosomal pr 99.5 2.5E-14 5.5E-19 95.8 3.2 40 1-40 35-75 (76)
7 PTZ00194 60S ribosomal protein 98.8 1.6E-09 3.6E-14 80.3 2.2 36 2-47 76-111 (143)
8 PRK01191 rpl24p 50S ribosomal 98.7 5.9E-09 1.3E-13 75.4 2.2 35 2-46 75-109 (120)
9 TIGR01080 rplX_A_E ribosomal p 98.4 1.3E-07 2.8E-12 67.8 1.9 35 2-46 71-105 (114)
10 PF09526 DUF2387: Probable met 63.7 13 0.00029 24.4 3.7 36 40-76 10-45 (71)
11 PF12353 eIF3g: Eukaryotic tra 61.8 17 0.00038 26.2 4.3 29 40-68 7-35 (128)
12 TIGR02443 conserved hypothetic 52.7 39 0.00085 21.7 4.3 32 40-72 11-42 (59)
13 KOG0122 Translation initiation 39.6 28 0.00062 28.5 2.6 33 44-76 27-59 (270)
14 PRK02935 hypothetical protein; 39.4 15 0.00033 26.3 1.0 20 34-53 66-85 (110)
15 PF14803 Nudix_N_2: Nudix N-te 36.1 34 0.00073 19.4 1.9 25 40-66 2-27 (34)
16 PF14205 Cys_rich_KTR: Cystein 32.6 34 0.00075 21.7 1.7 30 39-68 5-35 (55)
17 PF11784 DUF3320: Protein of u 31.2 5.1 0.00011 24.5 -2.3 14 24-37 19-32 (52)
18 PF11178 DUF2963: Protein of u 29.9 1.3E+02 0.0029 18.2 4.8 38 36-74 10-47 (51)
19 KOG3361 Iron binding protein i 29.6 76 0.0017 23.9 3.3 40 41-80 60-99 (157)
20 PRK00750 lysK lysyl-tRNA synth 27.4 95 0.0021 27.1 4.1 46 29-74 166-212 (510)
21 CHL00112 rpl28 ribosomal prote 25.4 69 0.0015 20.6 2.2 19 54-72 40-60 (63)
22 PF11023 DUF2614: Protein of u 23.6 38 0.00083 24.5 0.8 19 35-53 66-84 (114)
23 PF06872 EspG: EspG protein; 21.7 2E+02 0.0042 24.8 4.7 29 37-66 68-96 (383)
24 PRK00241 nudC NADH pyrophospha 20.7 71 0.0015 25.4 1.9 28 40-72 101-128 (256)
25 PF14599 zinc_ribbon_6: Zinc-r 20.6 76 0.0016 20.3 1.7 33 23-55 13-47 (61)
26 COG1384 LysS Lysyl-tRNA synthe 20.5 1.7E+02 0.0037 26.2 4.3 74 30-104 163-256 (521)
27 cd00674 LysRS_core_class_I cat 20.2 1.7E+02 0.0037 24.5 4.2 47 29-75 160-206 (353)
No 1
>KOG1708 consensus Mitochondrial/chloroplast ribosomal protein L24 [Translation, ribosomal structure and biogenesis]
Probab=99.96 E-value=2.6e-29 Score=194.85 Aligned_cols=106 Identities=35% Similarity=0.513 Sum_probs=98.9
Q ss_pred cceEEeeeeEEEeecCCC-CCCCceEEEeecccccc-eeeecCCCCCceeEEEEEccCCcEEEEEeecCCCCceecCccc
Q 033541 2 TPLIWICVQVKKHIKGGE-GHEGGIFTVEAPIHASN-VQVLDPVTGKPCKVGTKYLEDGTKVRVARGIGASGSIIPRPEI 79 (117)
Q Consensus 2 ~~~v~GvN~vkKHvK~~~-~~~GgIi~~E~PIhiSN-V~Lvdp~~~k~tRV~~r~~edG~KvRv~k~~~~sg~~ip~P~~ 79 (117)
.|||+|+|.-.||++... +.+|.|+..|||||+|| |||+||.+.++|+++|+|+++|.||||+. +||++||+|..
T Consensus 102 ~VvV~gln~k~r~~gsekeg~pgtivk~EaPlhvsk~VmLvdp~d~q~te~~wr~~e~GekVRvst---rSG~iIpipe~ 178 (236)
T KOG1708|consen 102 WVVVKGLNTKYRHMGSEKEGEPGTIVKSEAPLHVSKQVMLVDPEDDQPTEVEWRFTEDGEKVRVST---RSGRIIPIPEK 178 (236)
T ss_pred eEEEcccchhhhhhcccccCCCceEEeecCCceecceeEEECccccCCceeeEEEcCCCcEEEEEe---cccccccCccc
Confidence 589999999999999986 58999999999999999 99999999999999999999999999999 89999999999
Q ss_pred ccccc-CCCCCCCCC-CCCCHHHhhhhccccCC
Q 033541 80 LKIRT-TPRPTVAGP-KDTPVDLVMKKTYDAKS 110 (117)
Q Consensus 80 ~~~~~-~p~~~~~g~-kDT~~e~v~~~Ty~p~~ 110 (117)
+.... .|+.|.|.+ |||++++|+++||.|.+
T Consensus 179 ~t~dy~~pe~yiE~e~KdTp~~av~erTy~pkl 211 (236)
T KOG1708|consen 179 WTADYIKPELYIEAEDKDTPQVAVLERTYVPKL 211 (236)
T ss_pred ccccccCchheeecccCCCcHhhhhhhhcchhH
Confidence 62222 899999997 99999999999999986
No 2
>TIGR01079 rplX_bact ribosomal protein L24, bacterial/organelle. This model recognizes bacterial and organellar forms of ribosomal protein L24. It excludes eukaryotic and archaeal forms, designated L26 in eukaryotes.
Probab=99.93 E-value=2.5e-26 Score=161.71 Aligned_cols=70 Identities=47% Similarity=0.709 Sum_probs=64.1
Q ss_pred cceEEeeeeEEEeecCCCC-C-CCceEEEeecccccceeeecCCCCCceeEEEEEccCCcEEEEEeecCCCCcee
Q 033541 2 TPLIWICVQVKKHIKGGEG-H-EGGIFTVEAPIHASNVQVLDPVTGKPCKVGTKYLEDGTKVRVARGIGASGSII 74 (117)
Q Consensus 2 ~~~v~GvN~vkKHvK~~~~-~-~GgIi~~E~PIhiSNV~Lvdp~~~k~tRV~~r~~edG~KvRv~k~~~~sg~~i 74 (117)
+++|||+||+++|+|+++. . +|||+++|+|||+|||||+||+|++|+||+|++++||+|+|+|++ ||++|
T Consensus 33 ~V~VegvN~~kkh~k~~~~~~~~g~i~~~e~pI~~SnV~lv~p~~~k~~rv~~~~~~~g~kvRv~k~---~g~~i 104 (104)
T TIGR01079 33 KVIVEGVNMVKKHVKPKPTQRSQGGIIEKEAPIHISNVMLFDPKTGKATRVGIRFEEDGKKVRVFKK---TGEII 104 (104)
T ss_pred EEEECCcEEEEEecCcccCCCCCCceEEEEccCCHHHeEEEcCcCCCCeEEEEEEccCCcEEEEEec---cCCcC
Confidence 6899999999999999874 4 799999999999999999999999999999999999999999995 55543
No 3
>PRK00004 rplX 50S ribosomal protein L24; Reviewed
Probab=99.92 E-value=3.6e-25 Score=155.91 Aligned_cols=71 Identities=51% Similarity=0.728 Sum_probs=65.4
Q ss_pred CcceEEeeeeEEEeecCCC-CCCCceEEEeecccccceeeecCCCCCceeEEEEEccCCcEEEEEeecCCCCcee
Q 033541 1 MTPLIWICVQVKKHIKGGE-GHEGGIFTVEAPIHASNVQVLDPVTGKPCKVGTKYLEDGTKVRVARGIGASGSII 74 (117)
Q Consensus 1 ~~~~v~GvN~vkKHvK~~~-~~~GgIi~~E~PIhiSNV~Lvdp~~~k~tRV~~r~~edG~KvRv~k~~~~sg~~i 74 (117)
.+++|||||++++|+|+++ +.+|||+++|+|||+|||||+||.+++|+||+|++++||+|+|+|++ ||+.|
T Consensus 33 ~~V~Vegvn~~k~h~k~~~~~~~G~i~~~e~pI~~SnV~lv~p~~~~~~rv~~~~~~~g~kvRv~k~---~g~~i 104 (105)
T PRK00004 33 NKVIVEGVNIVKKHQKPNQENPQGGIIEKEAPIHISNVALVDPKTGKATRVGFKFLEDGKKVRVAKK---SGEVI 104 (105)
T ss_pred CEEEEcCcEEEEEecCCCCCCCCCceEEEECCcCHHHEEEEeCcCCCCeEEEEEEccCCcEEEEEec---CCCCc
Confidence 3689999999999999987 67899999999999999999999999999999999999999999995 55554
No 4
>COG0198 RplX Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]
Probab=99.90 E-value=5.3e-24 Score=150.14 Aligned_cols=69 Identities=57% Similarity=0.791 Sum_probs=62.7
Q ss_pred ceEEeeeeEEEeecCC-CCCCCceEEEeecccccceeeecC-CCCCceeEEEEEccCCcEEEEEeecCCCCcee
Q 033541 3 PLIWICVQVKKHIKGG-EGHEGGIFTVEAPIHASNVQVLDP-VTGKPCKVGTKYLEDGTKVRVARGIGASGSII 74 (117)
Q Consensus 3 ~~v~GvN~vkKHvK~~-~~~~GgIi~~E~PIhiSNV~Lvdp-~~~k~tRV~~r~~edG~KvRv~k~~~~sg~~i 74 (117)
++|||||++|+|+|++ ++++|||+++|+|||+|||||+|+ ++++++|++|++.+||+|+|++++ ||..|
T Consensus 33 V~VEGvnv~kkh~k~~~~~~~ggii~~EapIh~SnV~i~~~~~~~~~~Rv~~~~~~~~kkvr~~Kk---~g~~i 103 (104)
T COG0198 33 VVVEGVNVVKKHIKPSQENPEGGIINKEAPIHISNVAIIDPNKTGKPTRVGYKVEEDGKKVRVAKK---SGEVI 103 (104)
T ss_pred EEEECcEEEEecCCCCCcCCCCceeeeeecccHHHeEEeccccCCCcceEEEEEecCCcEEEEEec---cCccc
Confidence 7999999999999965 467899999999999999999999 799999999999889999999994 55554
No 5
>CHL00141 rpl24 ribosomal protein L24; Validated
Probab=99.59 E-value=1e-15 Score=103.98 Aligned_cols=45 Identities=31% Similarity=0.315 Sum_probs=41.4
Q ss_pred CcceEEeeeeEEEeecCCC-CCCCceEEEeecccccceeeecCCCC
Q 033541 1 MTPLIWICVQVKKHIKGGE-GHEGGIFTVEAPIHASNVQVLDPVTG 45 (117)
Q Consensus 1 ~~~~v~GvN~vkKHvK~~~-~~~GgIi~~E~PIhiSNV~Lvdp~~~ 45 (117)
.+++|||+|++++|+|+++ +.+||++++|+|||+|||+|+||+|+
T Consensus 37 ~~V~Vegvn~~~k~~k~~~~~~~g~i~~~e~pI~~SnV~lvdp~~~ 82 (83)
T CHL00141 37 NKVIVKGINIKFKHIKPNKENEVGEIKQFEAPIHSSNVMLYNEESN 82 (83)
T ss_pred CEEEEcCcEEEEEEcCCccCCCCCCEEEEECCCCHHHEEEeCcccC
Confidence 3689999999999999986 56899999999999999999999885
No 6
>PRK12281 rplX 50S ribosomal protein L24; Reviewed
Probab=99.47 E-value=2.5e-14 Score=95.77 Aligned_cols=40 Identities=33% Similarity=0.393 Sum_probs=36.7
Q ss_pred CcceEEeeeeEEEeecCCC-CCCCceEEEeecccccceeee
Q 033541 1 MTPLIWICVQVKKHIKGGE-GHEGGIFTVEAPIHASNVQVL 40 (117)
Q Consensus 1 ~~~~v~GvN~vkKHvK~~~-~~~GgIi~~E~PIhiSNV~Lv 40 (117)
++++|||||+++||+||++ +.+|||+++|+|||+|||||+
T Consensus 35 ~~V~Vegvn~~kkh~kp~~~~~~G~i~~~e~pI~~SnV~l~ 75 (76)
T PRK12281 35 NRVIVEGVKIAKKAIKPSQKNPNGGFIEKEMPIHISNVKKV 75 (76)
T ss_pred CEEEEcCcEEEEEEcCCCccCCCCCEEEEEcCcCHHHceec
Confidence 3689999999999999997 457999999999999999996
No 7
>PTZ00194 60S ribosomal protein L26; Provisional
Probab=98.82 E-value=1.6e-09 Score=80.30 Aligned_cols=36 Identities=25% Similarity=0.105 Sum_probs=32.5
Q ss_pred cceEEeeeeEEEeecCCCCCCCceEEEeecccccceeeecCCCCCc
Q 033541 2 TPLIWICVQVKKHIKGGEGHEGGIFTVEAPIHASNVQVLDPVTGKP 47 (117)
Q Consensus 2 ~~~v~GvN~vkKHvK~~~~~~GgIi~~E~PIhiSNV~Lvdp~~~k~ 47 (117)
+++|||||++|+|.++ +|+|||+|||||+|+..+..
T Consensus 76 ~ViVEgvn~~Kk~gk~----------~e~PIh~SNV~iv~l~l~~~ 111 (143)
T PTZ00194 76 VIHIEKITREKANGEP----------VQIGIHPSNVIITKLKLNKD 111 (143)
T ss_pred EEEEeCeEEEecCCCE----------eecCcCchheEEEccccCch
Confidence 6899999999999876 79999999999999977655
No 8
>PRK01191 rpl24p 50S ribosomal protein L24P; Validated
Probab=98.72 E-value=5.9e-09 Score=75.39 Aligned_cols=35 Identities=26% Similarity=0.225 Sum_probs=29.8
Q ss_pred cceEEeeeeEEEeecCCCCCCCceEEEeecccccceeeecCCCCC
Q 033541 2 TPLIWICVQVKKHIKGGEGHEGGIFTVEAPIHASNVQVLDPVTGK 46 (117)
Q Consensus 2 ~~~v~GvN~vkKHvK~~~~~~GgIi~~E~PIhiSNV~Lvdp~~~k 46 (117)
+++|||||++|+ +| +++|+|||+|||||+|..-+.
T Consensus 75 ~V~VeGvn~~k~--------~G--~~~e~pIh~SNV~l~~l~l~~ 109 (120)
T PRK01191 75 RIYVEGVTVKKA--------DG--TEVPRPIHPSNVMITKLDLSD 109 (120)
T ss_pred EEEEeCcEEECC--------CC--eEEEcccchhHeEEEeCccCC
Confidence 689999999983 35 799999999999999986543
No 9
>TIGR01080 rplX_A_E ribosomal protein L24p/L26e, archaeal/eukaryotic. This model represents the archaeal and eukaryotic branch of the ribosomal protein L24p/L26e family. Bacterial and organellar forms are represented by the related TIGR01079.
Probab=98.40 E-value=1.3e-07 Score=67.83 Aligned_cols=35 Identities=26% Similarity=0.217 Sum_probs=29.1
Q ss_pred cceEEeeeeEEEeecCCCCCCCceEEEeecccccceeeecCCCCC
Q 033541 2 TPLIWICVQVKKHIKGGEGHEGGIFTVEAPIHASNVQVLDPVTGK 46 (117)
Q Consensus 2 ~~~v~GvN~vkKHvK~~~~~~GgIi~~E~PIhiSNV~Lvdp~~~k 46 (117)
+++|||||++| + .| ++.|+|||+|||||+|-.-+.
T Consensus 71 ~V~Vegvn~~k----~----~G--~~~e~pIh~SnV~l~~l~l~~ 105 (114)
T TIGR01080 71 RIYVEGVTKEK----V----NG--TEVPVPIHPSNVMITKLNLDD 105 (114)
T ss_pred EEEEcCeEEEC----C----CC--eEEEeeechHHeEEEeccCCh
Confidence 58999999998 2 14 799999999999999875543
No 10
>PF09526 DUF2387: Probable metal-binding protein (DUF2387); InterPro: IPR012658 Members of this family are small proteins, about 70 residues in length, with a basic triplet near the N terminus and a probable metal-binding motif CPXCX(18)CXXC. Members are found in various proteobacteria.
Probab=63.70 E-value=13 Score=24.38 Aligned_cols=36 Identities=11% Similarity=-0.027 Sum_probs=27.1
Q ss_pred ecCCCCCceeEEEEEccCCcEEEEEeecCCCCceecC
Q 033541 40 LDPVTGKPCKVGTKYLEDGTKVRVARGIGASGSIIPR 76 (117)
Q Consensus 40 vdp~~~k~tRV~~r~~edG~KvRv~k~~~~sg~~ip~ 76 (117)
+||+|+.-.++.+- .++|.-.|-|.+||=+...-+.
T Consensus 10 ~CP~C~~~D~i~~~-~e~~ve~vECV~CGy~e~~~~~ 45 (71)
T PF09526_consen 10 VCPKCQAMDTIMMW-RENGVEYVECVECGYTERQPDQ 45 (71)
T ss_pred cCCCCcCccEEEEE-EeCCceEEEecCCCCeeccCCc
Confidence 59999998888874 4788889999977655444443
No 11
>PF12353 eIF3g: Eukaryotic translation initiation factor 3 subunit G ; InterPro: IPR024675 At least eleven different protein factors are involved in initiation of protein synthesis in eukaryotes. Binding of initiator tRNA and mRNA to the 40S subunit requires the presence of the translation initiation factors eIF-2 and eIF-3, with eIF-3 being particularly important for 80S ribosome dissociation and mRNA binding []. eIF-3 is the most complex translation inititation factor, consisting of about 13 putative subunits and having a molecular weight of between 550 - 700 kDa in mammalian cells. Subunits are designated eIF-3a - eIF-3m; the large number of subunits means that the interactions between the individual subunits that make up the eIF-3 complex are complex and varied. Subunit G is required for eIF3 integrity. This entry represents a domain of approximately 130 amino acids in length found at the N terminus of eukaryotic translation initiation factor 3 subunit G. This domain is commonly found in association with the RNA recognition domain PF00076 from PFAM.
Probab=61.77 E-value=17 Score=26.19 Aligned_cols=29 Identities=28% Similarity=0.447 Sum_probs=22.7
Q ss_pred ecCCCCCceeEEEEEccCCcEEEEEeecC
Q 033541 40 LDPVTGKPCKVGTKYLEDGTKVRVARGIG 68 (117)
Q Consensus 40 vdp~~~k~tRV~~r~~edG~KvRv~k~~~ 68 (117)
....+|..+=|.|++++||+|+.+.++-.
T Consensus 7 ~~~~~G~KtViey~~n~dGkkvKvtk~~k 35 (128)
T PF12353_consen 7 IPDEDGIKTVIEYKFNDDGKKVKVTKKIK 35 (128)
T ss_pred ccCCCCcEEEEEEEECCCCCEEEEEEEEE
Confidence 34566778889999999999988876543
No 12
>TIGR02443 conserved hypothetical metal-binding protein. Members of this family are small proteins, about 70 residues in length, with a basic triplet near the N-terminus and a probable metal-binding motif CPXCX(18)CXXC. Members are found in various Proteobacteria.
Probab=52.70 E-value=39 Score=21.69 Aligned_cols=32 Identities=9% Similarity=0.122 Sum_probs=25.0
Q ss_pred ecCCCCCceeEEEEEccCCcEEEEEeecCCCCc
Q 033541 40 LDPVTGKPCKVGTKYLEDGTKVRVARGIGASGS 72 (117)
Q Consensus 40 vdp~~~k~tRV~~r~~edG~KvRv~k~~~~sg~ 72 (117)
+||+|+.-.++.+ +.+++.-.|-|..|+-+..
T Consensus 11 ~CP~C~~~Dtl~~-~~e~~~e~vECv~Cg~~~~ 42 (59)
T TIGR02443 11 VCPACSAQDTLAM-WKENNIELVECVECGYQEQ 42 (59)
T ss_pred cCCCCcCccEEEE-EEeCCceEEEeccCCCccc
Confidence 5999998888876 3588888999997764443
No 13
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=39.57 E-value=28 Score=28.47 Aligned_cols=33 Identities=30% Similarity=0.478 Sum_probs=23.5
Q ss_pred CCCceeEEEEEccCCcEEEEEeecCCCCceecC
Q 033541 44 TGKPCKVGTKYLEDGTKVRVARGIGASGSIIPR 76 (117)
Q Consensus 44 ~~k~tRV~~r~~edG~KvRv~k~~~~sg~~ip~ 76 (117)
+|..+-+.|++++||+|+.|.+.....-...|+
T Consensus 27 ~g~ktvieyk~n~dgkK~Kvt~~~kv~k~~v~K 59 (270)
T KOG0122|consen 27 DGTKTVIEYKINEDGKKVKVTRTFKVEKRAVPK 59 (270)
T ss_pred CCcEEEEEEEEcCCCcEEEEEEEEEEEEEeccH
Confidence 677889999999999998776644333344333
No 14
>PRK02935 hypothetical protein; Provisional
Probab=39.44 E-value=15 Score=26.28 Aligned_cols=20 Identities=35% Similarity=0.453 Sum_probs=16.2
Q ss_pred ccceeeecCCCCCceeEEEE
Q 033541 34 ASNVQVLDPVTGKPCKVGTK 53 (117)
Q Consensus 34 iSNV~Lvdp~~~k~tRV~~r 53 (117)
-+-|++.||+|+|+|++-=|
T Consensus 66 tkavqV~CP~C~K~TKmLGr 85 (110)
T PRK02935 66 TKAVQVICPSCEKPTKMLGR 85 (110)
T ss_pred ccceeeECCCCCchhhhccc
Confidence 35688999999999987544
No 15
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=36.12 E-value=34 Score=19.37 Aligned_cols=25 Identities=24% Similarity=0.412 Sum_probs=10.2
Q ss_pred ecCCCCCceeEEEEEccCCcEEE-EEee
Q 033541 40 LDPVTGKPCKVGTKYLEDGTKVR-VARG 66 (117)
Q Consensus 40 vdp~~~k~tRV~~r~~edG~KvR-v~k~ 66 (117)
+||.||.+ +.+++-++..+.| ||-.
T Consensus 2 fC~~CG~~--l~~~ip~gd~r~R~vC~~ 27 (34)
T PF14803_consen 2 FCPQCGGP--LERRIPEGDDRERLVCPA 27 (34)
T ss_dssp B-TTT--B---EEE--TT-SS-EEEETT
T ss_pred ccccccCh--hhhhcCCCCCccceECCC
Confidence 57888766 5666544444444 6663
No 16
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=32.55 E-value=34 Score=21.68 Aligned_cols=30 Identities=10% Similarity=0.041 Sum_probs=19.3
Q ss_pred eecCCCCCceeEEEEEccC-CcEEEEEeecC
Q 033541 39 VLDPVTGKPCKVGTKYLED-GTKVRVARGIG 68 (117)
Q Consensus 39 Lvdp~~~k~tRV~~r~~ed-G~KvRv~k~~~ 68 (117)
|+||.||..||+.++-+-. -+---+|.+|.
T Consensus 5 i~CP~CgnKTR~kir~DT~LkNfPlyCpKCK 35 (55)
T PF14205_consen 5 ILCPICGNKTRLKIREDTVLKNFPLYCPKCK 35 (55)
T ss_pred EECCCCCCccceeeecCceeccccccCCCCC
Confidence 6899999889999873210 11234666664
No 17
>PF11784 DUF3320: Protein of unknown function (DUF3320); InterPro: IPR021754 This family is conserved in Proteobacteria and Chlorobi families. Many members are annotated as being putative DNA helicase-related proteins.
Probab=31.23 E-value=5.1 Score=24.53 Aligned_cols=14 Identities=43% Similarity=0.745 Sum_probs=11.0
Q ss_pred ceEEEeecccccce
Q 033541 24 GIFTVEAPIHASNV 37 (117)
Q Consensus 24 gIi~~E~PIhiSNV 37 (117)
.|++.|+|||.+-+
T Consensus 19 ~Iv~~EgPI~~~~L 32 (52)
T PF11784_consen 19 QIVEVEGPIHEDEL 32 (52)
T ss_pred HHHHHcCCccHHHH
Confidence 47789999998743
No 18
>PF11178 DUF2963: Protein of unknown function (DUF2963); InterPro: IPR021348 This family of proteins with unknown function appears to be restricted to Mollicutes.
Probab=29.91 E-value=1.3e+02 Score=18.18 Aligned_cols=38 Identities=29% Similarity=0.448 Sum_probs=26.6
Q ss_pred ceeeecCCCCCceeEEEEEccCCcEEEEEeecCCCCcee
Q 033541 36 NVQVLDPVTGKPCKVGTKYLEDGTKVRVARGIGASGSII 74 (117)
Q Consensus 36 NV~Lvdp~~~k~tRV~~r~~edG~KvRv~k~~~~sg~~i 74 (117)
.+.=+||.+++..+--+ +..||+.+..-.....+|..|
T Consensus 10 ~I~eydp~Tg~~iK~t~-Y~~DGktI~~I~Eyd~t~~~i 47 (51)
T PF11178_consen 10 YITEYDPQTGKKIKKTY-YNPDGKTIKYIYEYDQTGKLI 47 (51)
T ss_pred EEEEECcccCcEeeeEE-ECCCCCEEEEEEEECCCCcEE
Confidence 34568999888666544 468998887776666677766
No 19
>KOG3361 consensus Iron binding protein involved in Fe-S cluster formation [Energy production and conversion]
Probab=29.56 E-value=76 Score=23.88 Aligned_cols=40 Identities=20% Similarity=0.192 Sum_probs=31.8
Q ss_pred cCCCCCceeEEEEEccCCcEEEEEeecCCCCceecCcccc
Q 033541 41 DPVTGKPCKVGTKYLEDGTKVRVARGIGASGSIIPRPEIL 80 (117)
Q Consensus 41 dp~~~k~tRV~~r~~edG~KvRv~k~~~~sg~~ip~P~~~ 80 (117)
-|.||--.+..++++++|.-+-+--++.-||+.|-....+
T Consensus 60 APACGDVMkLqIkvd~~g~I~dakFKTFGCGSAIASSS~a 99 (157)
T KOG3361|consen 60 APACGDVMKLQIKVDDSGVIEDAKFKTFGCGSAIASSSLA 99 (157)
T ss_pred CccccceeeEEEEECCCCcEEEeeeeecccchHhhhhHHH
Confidence 4688888999999999998776665666799999766654
No 20
>PRK00750 lysK lysyl-tRNA synthetase; Reviewed
Probab=27.44 E-value=95 Score=27.14 Aligned_cols=46 Identities=20% Similarity=0.180 Sum_probs=31.3
Q ss_pred eecccccceeeecCCCCCceeEEE-EEccCCcEEEEEeecCCCCcee
Q 033541 29 EAPIHASNVQVLDPVTGKPCKVGT-KYLEDGTKVRVARGIGASGSII 74 (117)
Q Consensus 29 E~PIhiSNV~Lvdp~~~k~tRV~~-r~~edG~KvRv~k~~~~sg~~i 74 (117)
|.+=.+|=+..+|++||+-+.+.. .++.+...|++.-.||..|..-
T Consensus 166 ~~~~~~~P~~pic~~cg~~~~~~~~~~d~~~~~v~y~~~cG~~~~~~ 212 (510)
T PRK00750 166 ERQATYSPFLPICPKCGKVLTTPVISYDAEAGTVTYDCECGHEGEVP 212 (510)
T ss_pred ccCCCeeeeeeeCCCCCccceEEEEEEeCCCCEEEEEcCCCCEEEEe
Confidence 455566778889999999555443 5566666788866666665543
No 21
>CHL00112 rpl28 ribosomal protein L28; Provisional
Probab=25.38 E-value=69 Score=20.55 Aligned_cols=19 Identities=5% Similarity=-0.025 Sum_probs=12.8
Q ss_pred EccCC--cEEEEEeecCCCCc
Q 033541 54 YLEDG--TKVRVARGIGASGS 72 (117)
Q Consensus 54 ~~edG--~KvRv~k~~~~sg~ 72 (117)
.++.+ .++|||.+|-+|+.
T Consensus 40 ~~~~~~~~kl~Vstr~Lrt~~ 60 (63)
T CHL00112 40 SNTQNRWVKLKISTKAIKTLK 60 (63)
T ss_pred ECCCCeEEEEEEEHHHhhhcc
Confidence 33445 56789998887754
No 22
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=23.55 E-value=38 Score=24.45 Aligned_cols=19 Identities=37% Similarity=0.340 Sum_probs=14.9
Q ss_pred cceeeecCCCCCceeEEEE
Q 033541 35 SNVQVLDPVTGKPCKVGTK 53 (117)
Q Consensus 35 SNV~Lvdp~~~k~tRV~~r 53 (117)
+-|++.||+|+++|++-=|
T Consensus 66 kav~V~CP~C~K~TKmLGr 84 (114)
T PF11023_consen 66 KAVQVECPNCGKQTKMLGR 84 (114)
T ss_pred cceeeECCCCCChHhhhch
Confidence 4588899999999876433
No 23
>PF06872 EspG: EspG protein; InterPro: IPR009669 This entry represents a family of bacterial virulence proteins, including EspG from Citrobacter rodentium and Escherichia coli and VirA from Shigella flexneri. Both EspG and VirA are delivered into infected host epithelial cells by a type III secretory system [, ]. These proteins function through the disruption of the host cell microtubule network []. VirA acts as a cysteine protease (3.4.22 from EC) on alpha-tubulin, a major component of microtubules, in order to destabilise surrounding microtubules and invade the cytoplasm of their target host cells []. VirA also promotes the formation of membrane ruffles through the activation of host rac1, which is associated with the destruction of microtubule networks []. In this way, VirA creates a tunnel inside the host cell cytoplasm by breaking down the microtubule infrastructure, which facilitates the bacterium's movement through the cytoplasm and also helps other bacteria move faster during the invasion of the eukaryotic cell.; GO: 0004197 cysteine-type endopeptidase activity, 0009405 pathogenesis; PDB: 3EB8_A 3EE1_A 3PCS_D 3PCR_A 3Q1C_A.
Probab=21.67 E-value=2e+02 Score=24.75 Aligned_cols=29 Identities=21% Similarity=0.416 Sum_probs=23.9
Q ss_pred eeeecCCCCCceeEEEEEccCCcEEEEEee
Q 033541 37 VQVLDPVTGKPCKVGTKYLEDGTKVRVARG 66 (117)
Q Consensus 37 V~Lvdp~~~k~tRV~~r~~edG~KvRv~k~ 66 (117)
+.-+-|+++..-|+..+| .||.+.|+|..
T Consensus 68 l~Pv~p~~ne~Gr~~a~f-~DgssLrIsvt 96 (383)
T PF06872_consen 68 LEPVLPQSNELGRVYAKF-SDGSSLRISVT 96 (383)
T ss_dssp EEEE-STTTEEEEEEEEE-TTSEEEEEEEE
T ss_pred cCCCCCCccccchhhhhc-cCCceEEEEEc
Confidence 445678889999999997 89999999985
No 24
>PRK00241 nudC NADH pyrophosphatase; Reviewed
Probab=20.70 E-value=71 Score=25.36 Aligned_cols=28 Identities=7% Similarity=-0.060 Sum_probs=18.5
Q ss_pred ecCCCCCceeEEEEEccCCcEEEEEeecCCCCc
Q 033541 40 LDPVTGKPCKVGTKYLEDGTKVRVARGIGASGS 72 (117)
Q Consensus 40 vdp~~~k~tRV~~r~~edG~KvRv~k~~~~sg~ 72 (117)
+||.||.++... ++...|+|-+|+....
T Consensus 101 fC~~CG~~~~~~-----~~~~~~~C~~c~~~~y 128 (256)
T PRK00241 101 FCGYCGHPMHPS-----KTEWAMLCPHCRERYY 128 (256)
T ss_pred cccccCCCCeec-----CCceeEECCCCCCEEC
Confidence 699998877652 3455688887764433
No 25
>PF14599 zinc_ribbon_6: Zinc-ribbon; PDB: 2K2D_A.
Probab=20.59 E-value=76 Score=20.25 Aligned_cols=33 Identities=21% Similarity=0.182 Sum_probs=12.9
Q ss_pred CceEEEeecccccc--eeeecCCCCCceeEEEEEc
Q 033541 23 GGIFTVEAPIHASN--VQVLDPVTGKPCKVGTKYL 55 (117)
Q Consensus 23 GgIi~~E~PIhiSN--V~Lvdp~~~k~tRV~~r~~ 55 (117)
-.|....+|-.+.| |.++|..|++.+.|.|.+.
T Consensus 13 ~~i~~~pmP~~Y~~~~v~IlCNDC~~~s~v~fH~l 47 (61)
T PF14599_consen 13 AEIAATPMPEEYRNKKVWILCNDCNAKSEVPFHFL 47 (61)
T ss_dssp ---------------EEEEEESSS--EEEEE--TT
T ss_pred HHHHhCCCCHHHhCCEEEEECCCCCCccceeeeHh
Confidence 35667778999865 8889999999899988764
No 26
>COG1384 LysS Lysyl-tRNA synthetase (class I) [Translation, ribosomal structure and biogenesis]
Probab=20.47 E-value=1.7e+02 Score=26.21 Aligned_cols=74 Identities=16% Similarity=0.107 Sum_probs=38.9
Q ss_pred ecccccceeeecCCCCCceeEE-EEEccCCcEEEEEeecCCCCceecC--ccccccc-cCC----------------CCC
Q 033541 30 APIHASNVQVLDPVTGKPCKVG-TKYLEDGTKVRVARGIGASGSIIPR--PEILKIR-TTP----------------RPT 89 (117)
Q Consensus 30 ~PIhiSNV~Lvdp~~~k~tRV~-~r~~edG~KvRv~k~~~~sg~~ip~--P~~~~~~-~~p----------------~~~ 89 (117)
.+=..+=.|.+|++||+-..+. ..++.+ ..+++.=.||-.|.+-.. .....|| .+| -..
T Consensus 163 ~~e~~~P~~piC~kcGri~~t~v~~~d~~-~~v~Y~Ce~Gh~g~v~ir~g~~KL~WRvdWp~RW~~lgVd~EPfGKDH~a 241 (521)
T COG1384 163 LEEDWSPFMPICEKCGRILTTPVIEWDGE-GTVEYRCECGHEGEVDIRGGEGKLPWRVDWPMRWAALGVDFEPFGKDHAA 241 (521)
T ss_pred ccCCceeccccccccCCcceeEEEEecCC-ceEEEEecCCccceeeccccCcccccCcCccchhhccCcccccCCccccc
Confidence 3334567889999999833222 223322 256666556655554432 2222222 111 123
Q ss_pred CCCCCCCCHHHhhhh
Q 033541 90 VAGPKDTPVDLVMKK 104 (117)
Q Consensus 90 ~~g~kDT~~e~v~~~ 104 (117)
..|..||..+.+-++
T Consensus 242 ~ggSydtg~~I~~ei 256 (521)
T COG1384 242 AGGSYDTGKRIAREI 256 (521)
T ss_pred ccCchHHHHHHHHHh
Confidence 447788887776654
No 27
>cd00674 LysRS_core_class_I catalytic core domain of class I lysyl tRNA synthetase. Class I lysyl tRNA synthetase (LysRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. The class I LysRS is found only in archaea and some bacteria and has evolved separately from class II LysRS, as the two do not share structural or sequence similarity.
Probab=20.24 E-value=1.7e+02 Score=24.51 Aligned_cols=47 Identities=13% Similarity=-0.041 Sum_probs=29.8
Q ss_pred eecccccceeeecCCCCCceeEEEEEccCCcEEEEEeecCCCCceec
Q 033541 29 EAPIHASNVQVLDPVTGKPCKVGTKYLEDGTKVRVARGIGASGSIIP 75 (117)
Q Consensus 29 E~PIhiSNV~Lvdp~~~k~tRV~~r~~edG~KvRv~k~~~~sg~~ip 75 (117)
|.+=.+|=.+.+|++||+-+-.-..++.+...|++.-.||..|.+-.
T Consensus 160 ~~~~~~~P~~p~c~~cg~~~~~v~~~d~~~~~v~y~c~cG~~g~~~~ 206 (353)
T cd00674 160 ELQETWYPFMPYCEKCGKDTTTVEAYDAKAGTVTYKCECGHEETVDI 206 (353)
T ss_pred ccCCCceeeeeecCCcCcceeEEEEEeCCCCeEEEEcCCCCEEEEee
Confidence 44555667888999999643222245666677888656666665543
Done!