Query 030453
Match_columns 177
No_of_seqs 108 out of 358
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 13:57:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030453.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030453hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04398 DUF538: Protein of un 100.0 2.2E-44 4.8E-49 275.7 6.5 108 27-137 1-110 (110)
2 PF15284 PAGK: Phage-encoded v 69.3 1.6 3.5E-05 30.8 0.1 23 1-23 1-23 (61)
3 PRK10523 lipoprotein involved 59.5 9.4 0.0002 33.2 3.0 61 1-61 2-73 (234)
4 PF03207 OspD: Borrelia outer 51.4 11 0.00025 32.1 2.1 21 1-21 1-21 (254)
5 PRK11657 dsbG disulfide isomer 44.7 62 0.0013 27.7 5.7 67 1-69 1-71 (251)
6 PF07494 Reg_prop: Two compone 39.1 36 0.00078 18.9 2.3 19 42-60 2-21 (24)
7 cd03697 EFTU_II EFTU_II: Elong 39.1 86 0.0019 22.1 4.9 34 76-111 15-52 (87)
8 COG2143 Thioredoxin-related pr 33.7 44 0.00095 28.2 2.9 35 1-35 1-35 (182)
9 PRK15348 type III secretion sy 33.7 48 0.001 29.0 3.4 23 81-104 110-132 (249)
10 COG5510 Predicted small secret 33.3 32 0.00069 22.8 1.7 21 1-21 2-22 (44)
11 PF14060 DUF4252: Domain of un 29.0 75 0.0016 24.5 3.4 31 3-36 2-32 (155)
12 PRK12442 translation initiatio 28.9 1.2E+02 0.0026 22.8 4.3 54 53-122 18-71 (87)
13 TIGR02503 type_III_SycN type I 26.6 1.7E+02 0.0037 23.0 5.1 43 25-67 2-44 (119)
14 smart00540 LEM in nuclear memb 25.5 51 0.0011 21.6 1.6 19 24-42 7-25 (44)
15 COG5567 Predicted small peripl 25.3 63 0.0014 22.6 2.1 20 1-21 1-20 (58)
16 PRK13792 lysozyme inhibitor; P 24.8 1.2E+02 0.0026 24.1 3.9 28 35-62 34-62 (127)
17 KOG2455 Delta-1-pyrroline-5-ca 23.4 49 0.0011 32.0 1.7 16 27-42 241-256 (561)
18 PF11853 DUF3373: Protein of u 23.1 78 0.0017 30.5 3.0 24 1-24 1-24 (489)
19 PRK09455 rseB anti-sigma E fac 23.0 67 0.0014 28.8 2.4 22 15-36 14-36 (319)
20 PF09949 DUF2183: Uncharacteri 22.7 57 0.0012 24.5 1.6 18 25-42 13-30 (100)
21 COG3495 Uncharacterized protei 22.5 63 0.0014 26.8 1.9 24 1-24 1-24 (166)
22 PRK09859 multidrug efflux syst 21.6 2.9E+02 0.0062 24.6 6.2 25 71-97 60-84 (385)
23 PF01454 MAGE: MAGE family; I 21.0 95 0.002 25.0 2.8 33 8-40 106-138 (195)
24 COG4856 Uncharacterized protei 20.8 73 0.0016 30.0 2.3 21 1-21 1-27 (403)
25 cd03700 eEF2_snRNP_like_II EF2 20.7 3.2E+02 0.0069 19.3 6.0 55 70-124 15-82 (93)
26 COG3026 RseB Negative regulato 20.1 88 0.0019 28.6 2.5 34 1-35 1-34 (320)
27 cd03690 Tet_II Tet_II: This su 20.0 2.4E+02 0.0051 19.8 4.4 53 71-123 18-73 (85)
No 1
>PF04398 DUF538: Protein of unknown function, DUF538; InterPro: IPR007493 This family consists of several plant proteins of unknown function.; PDB: 1YDU_A.
Probab=100.00 E-value=2.2e-44 Score=275.72 Aligned_cols=108 Identities=42% Similarity=0.823 Sum_probs=81.9
Q ss_pred cHHHHHHhcCCCCCCCCCCceeEEecCc-ceEEEEEcCeEEEEEe-ceEEeeeeeeeeecccccccccceeEEEEeecce
Q 030453 27 SIYEILKEHGLPMGLLPKGIDEFSIDGT-GNFEVFLEQACNAKFE-SELHYDRNVSGTLSYGQMGSLSGISAQELFLWFP 104 (177)
Q Consensus 27 tayelL~~~GLP~GLLP~~V~~y~l~~t-G~f~V~l~~~C~~~f~-~~v~Y~~~ItG~i~~G~I~~L~GVk~K~lflWv~ 104 (177)
||||+|++||||+||||++|++|++|++ |+|||+|+++|+|+|+ ++|+|+++|||+|++|+|++|+||++|++|+|++
T Consensus 1 tayelL~~~glP~GLLP~~v~~y~l~~~tG~f~v~l~~~C~~~~~~~~v~Y~~~ItG~i~~g~i~~L~GVk~k~l~~W~~ 80 (110)
T PF04398_consen 1 TAYELLEEYGLPRGLLPLGVTEYGLNRDTGFFWVKLKSPCEFRFEGYLVSYDSEITGYIEKGKIKNLTGVKVKELFLWVP 80 (110)
T ss_dssp --HHHHHHHS-TT-TTTSSS-EEEE-TTT-SEEEE-SS-EEEESTTSEEEE-SEEEEEE-SS-EEEEES-EEE-SSSEES
T ss_pred CHHHhHHHcCCCCCcCCCCceEEEEecCCcEEEEEecCCEEEEEEEEEEEEcCeEEEEECCCcCccccCEEEEEEEEEee
Confidence 7999999999999999999999999986 9999999999999997 4999999999999999999999999999999999
Q ss_pred eeEEEEcCCCCCeEEEEEceeeeeeccccccCC
Q 030453 105 VKGIRVDIPSSGLIYFDVGVVRKQFSLSLFETP 137 (177)
Q Consensus 105 V~eI~vd~~~~g~I~F~vg~isksFP~s~F~~~ 137 (177)
|+||.+ ++++|+|++|.++++||+++|++|
T Consensus 81 v~~i~~---~~~~i~F~~g~~s~sfp~~~F~~s 110 (110)
T PF04398_consen 81 VTEISV---DGDKIYFKVGGISKSFPVSAFEES 110 (110)
T ss_dssp ---BEE----SSSEE-TTSSSS----TTTTSS-
T ss_pred EEEEEE---cCCEEEEEEeeEeccCCHHHhccC
Confidence 999999 489999999999999999999985
No 2
>PF15284 PAGK: Phage-encoded virulence factor
Probab=69.31 E-value=1.6 Score=30.80 Aligned_cols=23 Identities=26% Similarity=0.203 Sum_probs=12.0
Q ss_pred CcchhHHHHHHHHHHHhhccCCC
Q 030453 1 MKNMILPVLLLSFLTLSISNVNS 23 (177)
Q Consensus 1 ~~~~~~~~~~~~~~~l~~s~~~~ 23 (177)
||++=++++-+++.+.++.++++
T Consensus 1 Mkk~ksifL~l~~~LsA~~FSas 23 (61)
T PF15284_consen 1 MKKFKSIFLALVFILSAAGFSAS 23 (61)
T ss_pred ChHHHHHHHHHHHHHHHhhhhHH
Confidence 67665555555444444444433
No 3
>PRK10523 lipoprotein involved with copper homeostasis and adhesion; Provisional
Probab=59.53 E-value=9.4 Score=33.21 Aligned_cols=61 Identities=21% Similarity=0.252 Sum_probs=32.7
Q ss_pred CcchhHHHHHHHHHHHhhccCCCcc------ccHHHHHHhcCCCCCCCC-C---Cce-eEEecCcceEEEEE
Q 030453 1 MKNMILPVLLLSFLTLSISNVNSKQ------ESIYEILKEHGLPMGLLP-K---GID-EFSIDGTGNFEVFL 61 (177)
Q Consensus 1 ~~~~~~~~~~~~~~~l~~s~~~~~~------~tayelL~~~GLP~GLLP-~---~V~-~y~l~~tG~f~V~l 61 (177)
|||++..+++++.++..++-....+ +..-++..-.|-=.|.|| . ||+ .-+|++||.|.++.
T Consensus 2 mkk~~~~~~~a~~l~~l~gC~~~~~~~~~~~~~~~~l~p~~gtY~G~LPCADC~GI~ttLtL~~DgTY~L~~ 73 (234)
T PRK10523 2 MKKAIITALAAAGLFTLMGCNNRAEVDTLSPAQAAELKPMQQSWRGVLPCADCEGIETSLFLEKDGTWVMNE 73 (234)
T ss_pred chHHHHHHHHHHHHHHhhccCCcccccccccccccccCccccEEeEEEECCCCCCceEEEEEcCCCCEEEEE
Confidence 8888766666555544443222222 111222222444479999 4 343 23678899887743
No 4
>PF03207 OspD: Borrelia outer surface protein D (OspD); InterPro: IPR004894 This is a family of outer surface proteins from Borrelia. The function of these proteins is unknown.
Probab=51.42 E-value=11 Score=32.06 Aligned_cols=21 Identities=57% Similarity=0.630 Sum_probs=17.4
Q ss_pred CcchhHHHHHHHHHHHhhccC
Q 030453 1 MKNMILPVLLLSFLTLSISNV 21 (177)
Q Consensus 1 ~~~~~~~~~~~~~~~l~~s~~ 21 (177)
|+++|.++++-++|+|++|..
T Consensus 1 mkklikill~slflllsisc~ 21 (254)
T PF03207_consen 1 MKKLIKILLLSLFLLLSISCV 21 (254)
T ss_pred ChhHHHHHHHHHHHHHhhhhc
Confidence 899999988888888877754
No 5
>PRK11657 dsbG disulfide isomerase/thiol-disulfide oxidase; Provisional
Probab=44.71 E-value=62 Score=27.69 Aligned_cols=67 Identities=21% Similarity=0.383 Sum_probs=42.5
Q ss_pred CcchhHHHHHHHHHHHhhccCCCccccHHHHHHhcCCCC-CC--CCCCceeEEecCc-ceEEEEEcCeEEEEE
Q 030453 1 MKNMILPVLLLSFLTLSISNVNSKQESIYEILKEHGLPM-GL--LPKGIDEFSIDGT-GNFEVFLEQACNAKF 69 (177)
Q Consensus 1 ~~~~~~~~~~~~~~~l~~s~~~~~~~tayelL~~~GLP~-GL--LP~~V~~y~l~~t-G~f~V~l~~~C~~~f 69 (177)
|.++++.++.+.++.++.. +.+.+.+.+-|++.|+.. .. -|.++.+|....+ ..-.+|......+-+
T Consensus 1 ~~~~~~~~~~~~~~~~~~~--~~~~p~~~~~l~~~g~~v~~~~~~p~~l~g~~~~~~~~~~i~Y~t~dg~y~i 71 (251)
T PRK11657 1 MKRMLKLILLLALLPLSAA--AEELPAPVKALEKQGITIIKTFDAPGGLKGYAAKYQDMGVTIYLTPDGKHAI 71 (251)
T ss_pred ChhHHHHHHHHHHHHhhhh--hhcccHHHHHHHhCCCEEEEeecCCCCceEEEEEeCCCceEEEEcCCCCEEE
Confidence 4566666655544444433 356778889999999987 44 3788888765544 333567666665544
No 6
>PF07494 Reg_prop: Two component regulator propeller; InterPro: IPR011110 A large group of two component regulator proteins appear to have the same N-terminal structure of 14 tandem repeats. These repeats show homology to members of IPR002372 from INTERPRO and IPR001680 from INTERPRO indicating that they are likely to form a beta-propeller. This family has been built with artificially high cut-offs in order to avoid overlaps with other beta-propeller families. The fourteen repeats are likely to form two propellers; it is not clear if these structures are likely to recruit other proteins or interact with DNA.; PDB: 3V9F_D 3VA6_B 3OTT_B 4A2M_D 4A2L_B.
Probab=39.08 E-value=36 Score=18.92 Aligned_cols=19 Identities=32% Similarity=0.382 Sum_probs=12.8
Q ss_pred CC-CCceeEEecCcceEEEE
Q 030453 42 LP-KGIDEFSIDGTGNFEVF 60 (177)
Q Consensus 42 LP-~~V~~y~l~~tG~f~V~ 60 (177)
|| ..|...--|++|.+||-
T Consensus 2 L~~n~I~~i~~D~~G~lWig 21 (24)
T PF07494_consen 2 LPNNNIYSIYEDSDGNLWIG 21 (24)
T ss_dssp BSSSCEEEEEE-TTSCEEEE
T ss_pred CCCCeEEEEEEcCCcCEEEE
Confidence 45 56666666778999984
No 7
>cd03697 EFTU_II EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the catalytic or G-domain. The G-domain is composed of about 200 amino acid residues, arranged into a predominantly parallel six-stranded beta-sheet core surrounded by seven a-helices. Non-catalytic domains II and III are beta-barrels of seven and six, respectively, antiparallel beta-strands that share an extended interface. Either non-catalytic domain is composed of about 100 amino acid residues. EF-Tu proteins exist in two principal conformations: in a compact one, EF-Tu*GTP, with tight interfaces between all three domains and a high affinity for aminoacyl-tRNA, and in an open one, EF-Tu*GDP, with essentially no G-domain-domain II interactions and a low affinity for aminoacyl-tRNA. EF-Tu has approximately a 100-fold higher
Probab=39.06 E-value=86 Score=22.12 Aligned_cols=34 Identities=24% Similarity=0.285 Sum_probs=22.7
Q ss_pred eeeeeeeecccccccccceeEEEE----eecceeeEEEEc
Q 030453 76 DRNVSGTLSYGQMGSLSGISAQEL----FLWFPVKGIRVD 111 (177)
Q Consensus 76 ~~~ItG~i~~G~I~~L~GVk~K~l----flWv~V~eI~vd 111 (177)
++.++|+|+.|.|+ .|-++..+ .....|..|.+.
T Consensus 15 G~vv~G~v~~G~v~--~gd~v~~~p~~~~~~~~V~si~~~ 52 (87)
T cd03697 15 GTVVTGRIERGTIK--VGDEVEIVGFGETLKTTVTGIEMF 52 (87)
T ss_pred EEEEEEEECCCCCc--cCCEEEEeCCCCCceEEEEEEEEC
Confidence 46799999999998 44444433 345666666664
No 8
>COG2143 Thioredoxin-related protein [Posttranslational modification, protein turnover, chaperones]
Probab=33.71 E-value=44 Score=28.15 Aligned_cols=35 Identities=26% Similarity=0.398 Sum_probs=22.3
Q ss_pred CcchhHHHHHHHHHHHhhccCCCccccHHHHHHhc
Q 030453 1 MKNMILPVLLLSFLTLSISNVNSKQESIYEILKEH 35 (177)
Q Consensus 1 ~~~~~~~~~~~~~~~l~~s~~~~~~~tayelL~~~ 35 (177)
|.|++.+++|++++.++.-.+.....+-.++-+++
T Consensus 1 ~mRvl~i~Lliis~fl~a~~s~~ek~s~~~~~~d~ 35 (182)
T COG2143 1 VMRVLLIVLLIISLFLSACKSNNEKRSNIDVFDDN 35 (182)
T ss_pred CcchHHHHHHHHHHHHHHHhCCchhhhhhhhHHHH
Confidence 67888888887777666655554555555544443
No 9
>PRK15348 type III secretion system lipoprotein SsaJ; Provisional
Probab=33.66 E-value=48 Score=29.00 Aligned_cols=23 Identities=13% Similarity=0.447 Sum_probs=14.8
Q ss_pred eeecccccccccceeEEEEeecce
Q 030453 81 GTLSYGQMGSLSGISAQELFLWFP 104 (177)
Q Consensus 81 G~i~~G~I~~L~GVk~K~lflWv~ 104 (177)
|.++ ..|+.+.||+.-..-+=+|
T Consensus 110 gELa-rTI~~idgV~~ArVhL~lP 132 (249)
T PRK15348 110 QRIE-GMLSQMEGVINAKVTIALP 132 (249)
T ss_pred HHHH-HHHHhCCCeeEeEEEEECC
Confidence 4443 4688999998766544444
No 10
>COG5510 Predicted small secreted protein [Function unknown]
Probab=33.30 E-value=32 Score=22.83 Aligned_cols=21 Identities=24% Similarity=0.343 Sum_probs=13.8
Q ss_pred CcchhHHHHHHHHHHHhhccC
Q 030453 1 MKNMILPVLLLSFLTLSISNV 21 (177)
Q Consensus 1 ~~~~~~~~~~~~~~~l~~s~~ 21 (177)
|+|.|.+++++++....++.+
T Consensus 2 mk~t~l~i~~vll~s~llaaC 22 (44)
T COG5510 2 MKKTILLIALVLLASTLLAAC 22 (44)
T ss_pred chHHHHHHHHHHHHHHHHHHh
Confidence 788786666666665555544
No 11
>PF14060 DUF4252: Domain of unknown function (DUF4252)
Probab=28.98 E-value=75 Score=24.46 Aligned_cols=31 Identities=23% Similarity=0.264 Sum_probs=15.1
Q ss_pred chhHHHHHHHHHHHhhccCCCccccHHHHHHhcC
Q 030453 3 NMILPVLLLSFLTLSISNVNSKQESIYEILKEHG 36 (177)
Q Consensus 3 ~~~~~~~~~~~~~l~~s~~~~~~~tayelL~~~G 36 (177)
|+|.+++|+++.+++++ ....++-.++++|.
T Consensus 2 k~i~~l~l~~~~~~~~a---q~~~~~~~~~~~~~ 32 (155)
T PF14060_consen 2 KIILILLLLLACLASCA---QQGQSLQKYFDKYS 32 (155)
T ss_pred hhHHHHHHHHHHHHHhc---ccchhHHHHHHHhC
Confidence 44544444444444433 23455556666553
No 12
>PRK12442 translation initiation factor IF-1; Reviewed
Probab=28.87 E-value=1.2e+02 Score=22.80 Aligned_cols=54 Identities=26% Similarity=0.301 Sum_probs=39.6
Q ss_pred CcceEEEEEcCeEEEEEeceEEeeeeeeeeecccccccccceeEEEEeecceeeEEEEcCCCCCeEEEEE
Q 030453 53 GTGNFEVFLEQACNAKFESELHYDRNVSGTLSYGQMGSLSGISAQELFLWFPVKGIRVDIPSSGLIYFDV 122 (177)
Q Consensus 53 ~tG~f~V~l~~~C~~~f~~~v~Y~~~ItG~i~~G~I~~L~GVk~K~lflWv~V~eI~vd~~~~g~I~F~v 122 (177)
+++.|+|.|...+... +.|+|.+...+|+=+.|=+|++. +| + -| .+.|.|.|.-
T Consensus 18 p~~~frV~LenG~~vl--------a~isGKmR~~rIrIl~GD~V~VE-~s-p-----YD-ltkGRIiyR~ 71 (87)
T PRK12442 18 PDSRFRVTLENGVEVG--------AYASGRMRKHRIRILAGDRVTLE-LS-P-----YD-LTKGRINFRH 71 (87)
T ss_pred CCCEEEEEeCCCCEEE--------EEeccceeeeeEEecCCCEEEEE-EC-c-----cc-CCceeEEEEe
Confidence 3678888877655443 67899999999999999998886 44 1 12 3467888876
No 13
>TIGR02503 type_III_SycN type III secretion chaperone SycN. Members of this protein family are part of the machinery of bacterial type III secretion in a number of bacteria that target animal cells. In the well-studied system from Yersinia, a complex of this protein (SycN) and YscB (pfam07329) acts as a chaperone for the export of YopN (PubMed:10094626). YopN then acts to control effector protein secretion, in response to calcium levels, so that secretion occurs only after contact with the targeted eukaryotic cell.
Probab=26.62 E-value=1.7e+02 Score=23.02 Aligned_cols=43 Identities=14% Similarity=0.237 Sum_probs=34.9
Q ss_pred cccHHHHHHhcCCCCCCCCCCceeEEecCcceEEEEEcCeEEE
Q 030453 25 QESIYEILKEHGLPMGLLPKGIDEFSIDGTGNFEVFLEQACNA 67 (177)
Q Consensus 25 ~~tayelL~~~GLP~GLLP~~V~~y~l~~tG~f~V~l~~~C~~ 67 (177)
+.++.+..+..|+|..-.|.++..+.+...|.+.+...+.|-.
T Consensus 2 ~~~l~qF~q~mG~~~~~~~~~~i~l~~e~~gtL~iE~~~~~L~ 44 (119)
T TIGR02503 2 DRALAQFCQDLGLPTPAPLPRLAQLSMEQSGRLYVEQHDGTLL 44 (119)
T ss_pred cHHHHHHHHHcCCCCCCCCCcceEEEecCCcEEEEEecCCEEE
Confidence 3567899999999998877888888888778888887766654
No 14
>smart00540 LEM in nuclear membrane-associated proteins. LEM, domain in nuclear membrane-associated proteins, including lamino-associated polypeptide 2 and emerin.
Probab=25.53 E-value=51 Score=21.60 Aligned_cols=19 Identities=32% Similarity=0.511 Sum_probs=15.0
Q ss_pred ccccHHHHHHhcCCCCCCC
Q 030453 24 KQESIYEILKEHGLPMGLL 42 (177)
Q Consensus 24 ~~~tayelL~~~GLP~GLL 42 (177)
+.....+.|.+||+|.|=+
T Consensus 7 Sd~eL~~~L~~~G~~~gPI 25 (44)
T smart00540 7 SDAELRAELKQYGLPPGPI 25 (44)
T ss_pred CHHHHHHHHHHcCCCCCCc
Confidence 3566788999999999843
No 15
>COG5567 Predicted small periplasmic lipoprotein [Cell motility and secretion]
Probab=25.27 E-value=63 Score=22.59 Aligned_cols=20 Identities=35% Similarity=0.468 Sum_probs=14.3
Q ss_pred CcchhHHHHHHHHHHHhhccC
Q 030453 1 MKNMILPVLLLSFLTLSISNV 21 (177)
Q Consensus 1 ~~~~~~~~~~~~~~~l~~s~~ 21 (177)
|+|.+++++.+.+|. +++.+
T Consensus 1 mk~~~~s~~ala~l~-sLA~C 20 (58)
T COG5567 1 MKNVFKSLLALATLF-SLAGC 20 (58)
T ss_pred ChhHHHHHHHHHHHH-HHHhc
Confidence 889998877776665 55544
No 16
>PRK13792 lysozyme inhibitor; Provisional
Probab=24.76 E-value=1.2e+02 Score=24.07 Aligned_cols=28 Identities=14% Similarity=0.111 Sum_probs=19.2
Q ss_pred cCCCCCCCC-CCceeEEecCcceEEEEEc
Q 030453 35 HGLPMGLLP-KGIDEFSIDGTGNFEVFLE 62 (177)
Q Consensus 35 ~GLP~GLLP-~~V~~y~l~~tG~f~V~l~ 62 (177)
..+|.|..+ .....|.=+..-.|.|...
T Consensus 34 l~ip~~~~~~~~tv~YqC~~~~~~tV~y~ 62 (127)
T PRK13792 34 LALPGDAKLDTRSVDYKCENGRKFTVQYL 62 (127)
T ss_pred eecCCCcccccceEEEECCCCCEEEEEEe
Confidence 358888888 4667787764444888655
No 17
>KOG2455 consensus Delta-1-pyrroline-5-carboxylate dehydrogenase [Amino acid transport and metabolism]
Probab=23.37 E-value=49 Score=32.02 Aligned_cols=16 Identities=56% Similarity=1.059 Sum_probs=14.4
Q ss_pred cHHHHHHhcCCCCCCC
Q 030453 27 SIYEILKEHGLPMGLL 42 (177)
Q Consensus 27 tayelL~~~GLP~GLL 42 (177)
-+|++|+|-|||.|.+
T Consensus 241 ii~~il~EAGlP~Gvi 256 (561)
T KOG2455|consen 241 IIYRILREAGLPPGVI 256 (561)
T ss_pred HHHHHHHHcCCCccce
Confidence 4689999999999987
No 18
>PF11853 DUF3373: Protein of unknown function (DUF3373); InterPro: IPR021803 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.
Probab=23.07 E-value=78 Score=30.50 Aligned_cols=24 Identities=29% Similarity=0.325 Sum_probs=16.4
Q ss_pred CcchhHHHHHHHHHHHhhccCCCc
Q 030453 1 MKNMILPVLLLSFLTLSISNVNSK 24 (177)
Q Consensus 1 ~~~~~~~~~~~~~~~l~~s~~~~~ 24 (177)
|++.|.+++.++++.++.++.+.+
T Consensus 1 Mkk~~~l~l~aall~~s~~~~a~~ 24 (489)
T PF11853_consen 1 MKKLISLSLAAALLFLSLPAAAMA 24 (489)
T ss_pred CchhHHHHHHHHHHHhccchhhhh
Confidence 899998887777755555554333
No 19
>PRK09455 rseB anti-sigma E factor; Provisional
Probab=23.00 E-value=67 Score=28.81 Aligned_cols=22 Identities=27% Similarity=0.169 Sum_probs=12.9
Q ss_pred HHhhccCCCcc-ccHHHHHHhcC
Q 030453 15 TLSISNVNSKQ-ESIYEILKEHG 36 (177)
Q Consensus 15 ~l~~s~~~~~~-~tayelL~~~G 36 (177)
.|++++..+++ +++.++|++.+
T Consensus 14 ~l~~~~~~~~~~~~a~~~L~~M~ 36 (319)
T PRK09455 14 SLLFSANASAQPLSSGALLQQMN 36 (319)
T ss_pred hhcccccccccccCHHHHHHHHH
Confidence 34444444444 46888888754
No 20
>PF09949 DUF2183: Uncharacterized conserved protein (DUF2183); InterPro: IPR019236 This domain, found in various bacterial and fungal proteins, has no known function.
Probab=22.68 E-value=57 Score=24.53 Aligned_cols=18 Identities=28% Similarity=0.589 Sum_probs=15.4
Q ss_pred cccHHHHHHhcCCCCCCC
Q 030453 25 QESIYEILKEHGLPMGLL 42 (177)
Q Consensus 25 ~~tayelL~~~GLP~GLL 42 (177)
.+...+.|+.+|||.|=+
T Consensus 13 y~~l~~Fl~~~~~P~G~~ 30 (100)
T PF09949_consen 13 YPFLRDFLRRNGFPAGPL 30 (100)
T ss_pred HHHHHHHHHhcCCCCCce
Confidence 667888999999999964
No 21
>COG3495 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.46 E-value=63 Score=26.75 Aligned_cols=24 Identities=29% Similarity=0.254 Sum_probs=17.2
Q ss_pred CcchhHHHHHHHHHHHhhccCCCc
Q 030453 1 MKNMILPVLLLSFLTLSISNVNSK 24 (177)
Q Consensus 1 ~~~~~~~~~~~~~~~l~~s~~~~~ 24 (177)
|+||..+.+|+..++|+.+..+.+
T Consensus 1 M~rf~~i~lL~~A~lls~plva~e 24 (166)
T COG3495 1 MNRFTSITLLAAALLLSAPLVAAE 24 (166)
T ss_pred CchhHHHHHHHHHHHhcchhhhcc
Confidence 899998777777777766655443
No 22
>PRK09859 multidrug efflux system protein MdtE; Provisional
Probab=21.63 E-value=2.9e+02 Score=24.64 Aligned_cols=25 Identities=12% Similarity=0.104 Sum_probs=14.5
Q ss_pred ceEEeeeeeeeeecccccccccceeEE
Q 030453 71 SELHYDRNVSGTLSYGQMGSLSGISAQ 97 (177)
Q Consensus 71 ~~v~Y~~~ItG~i~~G~I~~L~GVk~K 97 (177)
..+.-.++++|+|.. +.--.|=++|
T Consensus 60 ~~~~l~~~v~G~V~~--i~v~~G~~Vk 84 (385)
T PRK09859 60 EVAEIRPQVGGIIIK--RNFIEGDKVN 84 (385)
T ss_pred EEEEEeccCcEEEEE--EEcCCcCEec
Confidence 456667778888753 3333444444
No 23
>PF01454 MAGE: MAGE family; InterPro: IPR002190 The first mammalian members of the MAGE (melanoma-associated antigen) gene family were originally described as completely silent in normal adult tissues, with the exception of male germ cells and, for some of them, placenta. By contrast, these genes were expressed in various kinds of tumors. However, other members of the family were recently found to be expressed in normal cells, indicating that the family is larger and more disparate than initially expected. MAGE-like genes have also been identified in non-mammalian species, including Drosophila melanogaster (Fruit fly) and Danio rerio (Zebrafish). Although no MAGE homologous sequences have been identified in Caenorhabditis elegans, Saccharomyces cerevisiae (Baker's yeast) or Schizosaccharomyces pombe (Fission yeast), MAGE sequences have been found in several vegetal species, including Arabidopsis thaliana (Mouse-ear cress) []. The only region of homology shared by all of the members of the family is a stretch of about 200 amino acids which has been named the MAGE conserved domain. The MAGE conserved domain is usually located close to the C-terminal, although it can also be found in a more central position in some proteins. The MAGE conserved domain is generally present as a single copy but it is duplicated in some proteins. It has been proposed that the MAGE conserved domain of MAGE-D proteins might interact with p75 neurotrophin or related receptors [].; PDB: 3NW0_B 2WA0_A 1I4F_C.
Probab=21.04 E-value=95 Score=25.01 Aligned_cols=33 Identities=15% Similarity=0.380 Sum_probs=20.4
Q ss_pred HHHHHHHHHhhccCCCccccHHHHHHhcCCCCC
Q 030453 8 VLLLSFLTLSISNVNSKQESIYEILKEHGLPMG 40 (177)
Q Consensus 8 ~~~~~~~~l~~s~~~~~~~tayelL~~~GLP~G 40 (177)
++++.|.+++++--....+.+.+.|+++|++.+
T Consensus 106 ll~~IL~lI~~~g~~i~E~~L~~~L~~lgi~~~ 138 (195)
T PF01454_consen 106 LLMLILSLIFMSGNSISEDDLWKFLRRLGIDED 138 (195)
T ss_dssp HHHHHHHHHHHCTT-EEHHHHHHHHHHTT--TT
T ss_pred HHHHHHHHHHhcCCccCHHHHHHHHHhcCCCcc
Confidence 344444455555434458899999999999977
No 24
>COG4856 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.83 E-value=73 Score=29.97 Aligned_cols=21 Identities=14% Similarity=0.123 Sum_probs=15.1
Q ss_pred Ccc------hhHHHHHHHHHHHhhccC
Q 030453 1 MKN------MILPVLLLSFLTLSISNV 21 (177)
Q Consensus 1 ~~~------~~~~~~~~~~~~l~~s~~ 21 (177)
|+| ++|++.|++.++|+++..
T Consensus 1 MdK~lns~W~irIiaff~A~~Lfl~vn 27 (403)
T COG4856 1 MDKFLNSPWLIRIIAFFFAILLFLYVN 27 (403)
T ss_pred CcchhcCcHhHHHHHHHHHHHhheeec
Confidence 777 668887777777777754
No 25
>cd03700 eEF2_snRNP_like_II EF2_snRNP_like_II: this subfamily represents domain II of elongation factor (EF) EF-2 found eukaryotes and archaea and, the C-terminal portion of the spliceosomal human 116kD U5 small nuclear ribonucleoprotein (snRNP) protein (U5-116 kD) and, its yeast counterpart Snu114p. During the process of peptide synthesis and tRNA site changes, the ribosome is moved along the mRNA a distance equal to one codon with the addition of each amino acid. This translocation step is catalyzed by EF-2_GTP, which is hydrolyzed to provide the required energy. Thus, this action releases the uncharged tRNA from the P site and transfers the newly formed peptidyl-tRNA from the A site to the P site. Yeast Snu114p is essential for cell viability and for splicing in vivo. U5-116 kD binds GTP. Experiments suggest that GTP binding and probably GTP hydrolysis is important for the function of the U5-116 kD/Snu114p.
Probab=20.75 E-value=3.2e+02 Score=19.34 Aligned_cols=55 Identities=29% Similarity=0.312 Sum_probs=37.8
Q ss_pred eceEEeeeeeeeeecccccccc-------------cceeEEEEeecceeeEEEEcCCCCCeEEEEEce
Q 030453 70 ESELHYDRNVSGTLSYGQMGSL-------------SGISAQELFLWFPVKGIRVDIPSSGLIYFDVGV 124 (177)
Q Consensus 70 ~~~v~Y~~~ItG~i~~G~I~~L-------------~GVk~K~lflWv~V~eI~vd~~~~g~I~F~vg~ 124 (177)
..++.|.+-.+|.++.|.--.. ...+++.++.+..-..+.++....|+|.--.|.
T Consensus 15 ~g~la~~RV~sGtl~~g~~v~~~~~~~~~~~~~~~~~~~v~~l~~~~g~~~~~v~~a~aGdIv~i~g~ 82 (93)
T cd03700 15 GGFIAFGRVFSGTIRKGQKVRVLGPNYSPEDEEDLSKKTIQRLYLMMGRYREPVDEVPAGNIVLIVGL 82 (93)
T ss_pred CEEEEEEEEeeCeEeCCCEEEEECCCCCCCccCcEEEEEEeEEEEEcCCCEEEccccCCCCEEEEECC
Confidence 3467888888888888843321 226677788887777777777677777766553
No 26
>COG3026 RseB Negative regulator of sigma E activity [Signal transduction mechanisms]
Probab=20.07 E-value=88 Score=28.59 Aligned_cols=34 Identities=24% Similarity=0.238 Sum_probs=16.1
Q ss_pred CcchhHHHHHHHHHHHhhccCCCccccHHHHHHhc
Q 030453 1 MKNMILPVLLLSFLTLSISNVNSKQESIYEILKEH 35 (177)
Q Consensus 1 ~~~~~~~~~~~~~~~l~~s~~~~~~~tayelL~~~ 35 (177)
|+...++++|++.-+++.+..+++..++ .+|.+.
T Consensus 1 mk~l~~s~~ll~~sl~~s~~a~ae~~s~-~~L~km 34 (320)
T COG3026 1 MKQLWFSLLLLLGSLLLSAAASAESASA-AWLQKM 34 (320)
T ss_pred CchHHHHHHHHHHHHhhhhhhhccCccH-HHHHHH
Confidence 5555555555444443333333333343 566554
No 27
>cd03690 Tet_II Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a GTP-dependent manner thereby mediating Tc resistance. Tcs are broad-spectrum antibiotics. Typical Tcs bind to the ribosome and inhibit the elongation phase of protein synthesis, by inhibiting the occupation of site A by aminoacyl-tRNA.
Probab=20.05 E-value=2.4e+02 Score=19.82 Aligned_cols=53 Identities=26% Similarity=0.210 Sum_probs=34.0
Q ss_pred ceEEeeeeeeeeecccccc-cccc--eeEEEEeecceeeEEEEcCCCCCeEEEEEc
Q 030453 71 SELHYDRNVSGTLSYGQMG-SLSG--ISAQELFLWFPVKGIRVDIPSSGLIYFDVG 123 (177)
Q Consensus 71 ~~v~Y~~~ItG~i~~G~I~-~L~G--Vk~K~lflWv~V~eI~vd~~~~g~I~F~vg 123 (177)
-++.|..-.+|.|..|..- +..+ .+++.++.+..-....++....|.|.=-.|
T Consensus 18 G~la~~RV~sG~l~~g~~v~~~~~~~~~v~~l~~~~g~~~~~v~~~~aGdI~ai~g 73 (85)
T cd03690 18 ERLAYLRLYSGTLRLRDSVRVNREEKIKITELRVFNNGEVVTADTVTAGDIAILTG 73 (85)
T ss_pred CeEEEEEEccCEEcCCCEEEeCCCcEEEeceeEEEeCCCeEECcEECCCCEEEEEC
Confidence 4688999999999888433 2222 455577777666666666555666654333
Done!