Query psy3317
Match_columns 173
No_of_seqs 141 out of 940
Neff 4.2
Searched_HMMs 46136
Date Fri Aug 16 21:53:18 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3317.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3317hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01302 CAP_GLY: CAP-Gly doma 99.9 8.6E-27 1.9E-31 164.5 8.5 67 85-151 1-69 (69)
2 KOG3206|consensus 99.9 1.6E-22 3.4E-27 170.8 7.0 71 83-153 149-222 (234)
3 KOG0971|consensus 99.8 2.3E-19 5E-24 174.5 8.9 73 80-152 3-75 (1243)
4 COG5244 NIP100 Dynactin comple 99.8 3.1E-19 6.7E-24 165.3 7.3 69 82-152 3-71 (669)
5 KOG3207|consensus 99.7 9.4E-17 2E-21 147.8 7.1 74 82-157 2-77 (505)
6 KOG4568|consensus 99.6 4E-16 8.7E-21 148.8 4.6 74 82-156 17-90 (664)
7 KOG0241|consensus 99.6 1.7E-15 3.6E-20 148.9 5.9 124 32-162 1559-1703(1714)
8 KOG3556|consensus 99.2 1.5E-11 3.2E-16 115.7 7.3 80 82-161 235-323 (724)
9 KOG4568|consensus 99.1 2E-11 4.4E-16 116.9 0.3 72 82-154 154-225 (664)
10 PTZ00243 ABC transporter; Prov 94.0 0.061 1.3E-06 56.5 4.4 56 83-138 125-197 (1560)
11 PF10781 DSRB: Dextransucrase 92.9 0.45 9.9E-06 33.6 5.9 56 83-148 1-61 (62)
12 PRK10708 hypothetical protein; 92.5 0.55 1.2E-05 33.2 5.9 56 83-148 1-61 (62)
13 PF09926 DUF2158: Uncharacteri 85.4 3.2 7E-05 28.3 5.4 47 83-129 1-47 (53)
14 PF13403 Hint_2: Hint domain 48.0 15 0.00031 29.2 2.2 26 82-108 20-45 (147)
15 PF07238 PilZ: PilZ domain; I 39.7 65 0.0014 21.6 4.2 37 82-120 44-87 (102)
16 PF14001 YdfZ: YdfZ protein 39.3 39 0.00084 24.2 3.0 22 82-103 9-30 (64)
17 PF02559 CarD_CdnL_TRCF: CarD- 38.4 85 0.0018 22.6 4.8 52 83-154 2-55 (98)
18 TIGR02266 gmx_TIGR02266 Myxoco 33.1 1.1E+02 0.0023 21.3 4.5 41 81-121 35-83 (96)
19 COG3350 Uncharacterized conser 32.8 19 0.0004 25.0 0.5 29 113-141 7-35 (53)
20 PF00924 MS_channel: Mechanose 31.9 35 0.00075 27.0 2.0 24 82-107 60-83 (206)
21 COG4831 Roadblock/LC7 domain [ 31.6 15 0.00033 28.5 -0.0 34 128-161 74-108 (109)
22 TIGR00739 yajC preprotein tran 28.8 1.3E+02 0.0029 21.9 4.5 33 80-119 35-67 (84)
23 PF02211 NHase_beta: Nitrile h 28.2 28 0.0006 29.9 0.9 18 76-93 128-145 (222)
24 PF15290 Syntaphilin: Golgi-lo 27.7 27 0.00058 31.7 0.8 23 123-145 21-53 (305)
25 PRK00321 rdgC recombination as 27.6 1.4E+02 0.0031 26.6 5.3 59 78-136 183-256 (303)
26 PRK05886 yajC preprotein trans 26.0 1.6E+02 0.0034 22.9 4.7 32 81-119 37-68 (109)
27 PF13437 HlyD_3: HlyD family s 24.0 1.9E+02 0.0041 20.3 4.6 27 82-108 49-81 (105)
28 smart00739 KOW KOW (Kyprides, 23.1 95 0.0021 16.9 2.3 12 83-94 2-13 (28)
29 PF04319 NifZ: NifZ domain; I 22.8 2.6E+02 0.0056 20.4 5.0 25 95-120 36-60 (75)
30 PRK05585 yajC preprotein trans 21.6 1.9E+02 0.0042 22.0 4.4 33 80-119 50-82 (106)
31 PF14801 GCD14_N: tRNA methylt 21.2 40 0.00087 23.4 0.5 44 82-129 5-52 (54)
32 KOG0552|consensus 20.8 5.2E+02 0.011 22.5 7.3 31 78-108 117-151 (226)
No 1
>PF01302 CAP_GLY: CAP-Gly domain; InterPro: IPR000938 Cytoskeleton-associated proteins (CAP) are made of three distinct parts, an N-terminal section that is most probably globular and contains the CAP-Gly domain, a large central region predicted to be in an alpha-helical coiled-coil conformation and, finally, a short C-terminal globular domain. The CAP-Gly domain is a conserved, glycine-rich domain of about 42 residues found in some CAPs []. Proteins known to contain this domain include restin (also known as cytoplasmic linker protein-170 or CLIP-170), a 160 kDa protein associated with intermediate filaments and that links endocytic vesicles to microtubules; vertebrate dynactin (150 kDa dynein-associated polypeptide; DAP) and Drosophila glued, a major component of activator I; yeast protein BIK1, which seems to be required for the formation or stabilisation of microtubules during mitosis and for spindle pole body fusion during conjugation; yeast protein NIP100 (NIP80); human protein CKAP1/TFCB; Schizosaccharomyces pombe protein alp11 and Caenorhabditis elegans hypothetical protein F53F4.3. The latter proteins contain a N-terminal ubiquitin domain and a C-terminal CAP-Gly domain. The crystal structure of the CAP-Gly domain of C. elegans F53F4.3 protein, solved by single wavelength sulphur-anomalous phasing, revealed a novel protein fold containing three beta-sheets. The most conserved sequence, GKNDG, is located in two consecutive sharp turns on the surface, forming the entrance to a groove. Residues in the groove are highly conserved as measured from the information content of the aligned sequences. The C-terminal tail of another molecule in the crystal is bound in this groove []. ; PDB: 2CP6_A 2E4H_A 2E3H_A 3E2U_B 2HL3_B 3TQ7_Q 2HKQ_B 2HQH_A 2HKN_B 2HL5_C ....
Probab=99.94 E-value=8.6e-27 Score=164.53 Aligned_cols=67 Identities=57% Similarity=1.093 Sum_probs=59.8
Q ss_pred ccceEEEe-CCCceEEEEEEeecC-CCCceEEEEEEcCCCCCCCcEECCEEeeeeCCCCeeeEecCccc
Q psy3317 85 IGESVLIR-PYNSSGVIAYIGPTE-FAAGTWVGVELDAPTGKNDGTVQGTRYFESRPKHGIFVRADKLI 151 (173)
Q Consensus 85 VGdRV~V~-~~~~~GtVRYIG~l~-~~~GiwvGVELDep~GknDGtv~G~rYF~C~p~~GiFVk~~kV~ 151 (173)
||+||.|. .....|||||+|+++ +..|+|+|||||+|.|+|||+++|+|||+|+|+||+||++++|+
T Consensus 1 VG~rV~v~~~~~~~G~vryiG~~~~~~~g~~vGVEld~~~G~~dGt~~G~rYF~c~~~~G~Fv~~~~v~ 69 (69)
T PF01302_consen 1 VGDRVRVDDPGGRRGTVRYIGPVPGFKSGIWVGVELDEPRGKNDGTVKGKRYFECPPNHGIFVRPSKVE 69 (69)
T ss_dssp TTSEEEESSTTTEEEEEEEEEE-SSSSSSEEEEEEESSSTSSBSSEETTEESS-SSTTTEEEEEGGGE-
T ss_pred CCCEEEEeeCCCCEEEEEEEeeCCCCCCCEEEEEEEcCCCCCCCcEECCEEEeeeCCCCEEEecHHHCC
Confidence 79999992 247999999999999 77889999999999999999999999999999999999999974
No 2
>KOG3206|consensus
Probab=99.87 E-value=1.6e-22 Score=170.79 Aligned_cols=71 Identities=45% Similarity=0.896 Sum_probs=67.2
Q ss_pred ccccceEEEe-CC--CceEEEEEEeecCCCCceEEEEEEcCCCCCCCcEECCEEeeeeCCCCeeeEecCccccc
Q psy3317 83 VCIGESVLIR-PY--NSSGVIAYIGPTEFAAGTWVGVELDAPTGKNDGTVQGTRYFESRPKHGIFVRADKLIQD 153 (173)
Q Consensus 83 l~VGdRV~V~-~~--~~~GtVRYIG~l~~~~GiwvGVELDep~GknDGtv~G~rYF~C~p~~GiFVk~~kV~~d 153 (173)
+.||.||.|. +. .++|+|||+|++++++|+|+|||+|||.|||||+++|++||+|+|+||.||+|..|+..
T Consensus 149 i~vG~rCeVtv~G~~~Rrg~vrYvG~~~~k~G~wiGVeydEplGKnDGsv~G~ryF~c~p~yGgfVrP~~V~Vg 222 (234)
T KOG3206|consen 149 IAVGRRCEVTVPGQAPRRGTVRYVGPLEFKPGYWIGVEYDEPLGKNDGSVNGKRYFECAPKYGGFVRPRAVTVG 222 (234)
T ss_pred cccCCeeEEecCCCCCcceEEEEecccCCCCceEEEEecCCccccCCCcccceEeeecCCccCCccccceeeec
Confidence 8999999998 32 48999999999999999999999999999999999999999999999999999999874
No 3
>KOG0971|consensus
Probab=99.79 E-value=2.3e-19 Score=174.47 Aligned_cols=73 Identities=45% Similarity=0.871 Sum_probs=69.4
Q ss_pred CCcccccceEEEeCCCceEEEEEEeecCCCCceEEEEEEcCCCCCCCcEECCEEeeeeCCCCeeeEecCcccc
Q psy3317 80 PEWVCIGESVLIRPYNSSGVIAYIGPTEFAAGTWVGVELDAPTGKNDGTVQGTRYFESRPKHGIFVRADKLIQ 152 (173)
Q Consensus 80 ~~~l~VGdRV~V~~~~~~GtVRYIG~l~~~~GiwvGVELDep~GknDGtv~G~rYF~C~p~~GiFVk~~kV~~ 152 (173)
|..|+||.||.+.+.+..|+|.|+|.+.|..|.||||-||+|.|||||+++|++||+|++|||+||+...|..
T Consensus 3 ~r~lkvG~RVevtgknl~G~VayvG~T~FA~G~WvGVvLDep~GKNnGsVqg~qYF~Cd~ncG~FVr~sq~r~ 75 (1243)
T KOG0971|consen 3 PRSLKVGTRVEVTGKNLQGTVAYVGQTQFAEGKWVGVVLDEPKGKNNGSVQGVQYFECDENCGVFVRSSQVRE 75 (1243)
T ss_pred CccccccceEEeccCCccceEEEecccccccCceEEEEeccccCCCCCcccceeeEecCCCcceEeehhhhHH
Confidence 4579999999999888999999999999999999999999999999999999999999999999999999654
No 4
>COG5244 NIP100 Dynactin complex subunit involved in mitotic spindle partitioning in anaphase B [Cell division and chromosome partitioning]
Probab=99.78 E-value=3.1e-19 Score=165.34 Aligned_cols=69 Identities=43% Similarity=0.931 Sum_probs=64.1
Q ss_pred cccccceEEEeCCCceEEEEEEeecCCCCceEEEEEEcCCCCCCCcEECCEEeeeeCCCCeeeEecCcccc
Q psy3317 82 WVCIGESVLIRPYNSSGVIAYIGPTEFAAGTWVGVELDAPTGKNDGTVQGTRYFESRPKHGIFVRADKLIQ 152 (173)
Q Consensus 82 ~l~VGdRV~V~~~~~~GtVRYIG~l~~~~GiwvGVELDep~GknDGtv~G~rYF~C~p~~GiFVk~~kV~~ 152 (173)
.+.|||+|.+. +..|+|||+|.+.|..|+|+|||||+|.|+|||+++|+|||.|..+||+|++++.=.+
T Consensus 3 ~lSv~D~Vll~--~~~g~VrfiG~t~f~~GiW~GlELd~p~GkNDGSvnGvRYF~Ckk~~giFir~~~~~l 71 (669)
T COG5244 3 LLSVNDRVLLG--DKFGTVRFIGKTKFKDGIWIGLELDDPVGKNDGSVNGVRYFHCKKRHGIFIRPDDDSL 71 (669)
T ss_pred eeecCCEEEec--cccceEEEeeecccccceEEEEEecCCCCCCCCccCceEEEEecCCcceEEecCchhh
Confidence 36899999997 5789999999999999999999999999999999999999999999999999876544
No 5
>KOG3207|consensus
Probab=99.67 E-value=9.4e-17 Score=147.82 Aligned_cols=74 Identities=36% Similarity=0.632 Sum_probs=68.4
Q ss_pred cccccceEEEeCCCceEEEEEEeecCCCCceEEEEEEcCCC-CCCCcEECCEEeeeeC-CCCeeeEecCcccccCCCc
Q psy3317 82 WVCIGESVLIRPYNSSGVIAYIGPTEFAAGTWVGVELDAPT-GKNDGTVQGTRYFESR-PKHGIFVRADKLIQDRRGR 157 (173)
Q Consensus 82 ~l~VGdRV~V~~~~~~GtVRYIG~l~~~~GiwvGVELDep~-GknDGtv~G~rYF~C~-p~~GiFVk~~kV~~d~~~~ 157 (173)
.++||+||.|. +..+||||+|.+++..+.|+|||||+|. |||||+++|++||.|. |+.|+|+++.+|.....+.
T Consensus 2 ~~~IG~RvkI~--~~~~Tvr~iG~V~g~~~~w~GvEWDd~~RGKH~G~vdgk~YF~~q~P~GGSFik~~kV~~p~d~~ 77 (505)
T KOG3207|consen 2 TMEIGTRVKIG--GEIATVRYIGEVEGNNSKWYGVEWDDPVRGKHDGIVDGKRYFQTQHPNGGSFIKPGKVKFPTDLL 77 (505)
T ss_pred ceeccceEEEc--CEEEEEEEEEEEcCCCCcceeeEecCCCccccCceecceeeeeeecCCCccccCCccCCCCccHH
Confidence 36899999997 6889999999999999999999999996 9999999999999999 9999999999999866543
No 6
>KOG4568|consensus
Probab=99.61 E-value=4e-16 Score=148.82 Aligned_cols=74 Identities=43% Similarity=0.807 Sum_probs=67.9
Q ss_pred cccccceEEEeCCCceEEEEEEeecCCCCceEEEEEEcCCCCCCCcEECCEEeeeeCCCCeeeEecCcccccCCC
Q psy3317 82 WVCIGESVLIRPYNSSGVIAYIGPTEFAAGTWVGVELDAPTGKNDGTVQGTRYFESRPKHGIFVRADKLIQDRRG 156 (173)
Q Consensus 82 ~l~VGdRV~V~~~~~~GtVRYIG~l~~~~GiwvGVELDep~GknDGtv~G~rYF~C~p~~GiFVk~~kV~~d~~~ 156 (173)
.+.||.+|+|. ....|.|||+|++++..|+|+||+|++|.|||||+|+|++||.|.+++|+|+++-+....+..
T Consensus 17 ~~~ig~~v~v~-~~~~G~v~y~G~t~f~~G~w~GveL~~p~GKNdGsv~G~rYF~ce~~kgif~~~~~~t~~~~~ 90 (664)
T KOG4568|consen 17 QFIIGRRVWVN-NVELGFVRYAGETDFAKGIWAGVELLEPKGKNDGSVHGKRYFQCEPKKGIFFRQGRGTASKNE 90 (664)
T ss_pred hhhhcceEEec-CCcceeeeeccCcccccceeeceeeccccCCCCcccchhhhhccccccceeeccccccccccc
Confidence 57999999998 468999999999999999999999999999999999999999999999999988887764443
No 7
>KOG0241|consensus
Probab=99.58 E-value=1.7e-15 Score=148.92 Aligned_cols=124 Identities=33% Similarity=0.439 Sum_probs=105.5
Q ss_pred cccCCCCCCccccCchhhhhhhcccccccccCCCCCCCCCC-----------------C----CcccCCCCcccccceEE
Q psy3317 32 LDKRSSSSSLSSHDENKVVRRKSSTRRSSQSRASYPMSGDQ-----------------S----FDDVTLPEWVCIGESVL 90 (173)
Q Consensus 32 ~d~~~~~~~~~~~~~~~~~~~k~s~~~~~~~~a~~~~~~~~-----------------~----~~~~~l~~~l~VGdRV~ 90 (173)
-|-|+++++|+.+++..++++|+--+.+.++++..++.|.. . .....+|+|+..|.+|.
T Consensus 1559 ~~gr~ssd~e~~~~e~~l~~d~i~~~el~~~s~~~~g~p~~qp~~egns~~~~~~gs~~e~d~e~~~~~pew~~~ge~v~ 1638 (1714)
T KOG0241|consen 1559 HDGRPSSDKELTEVEKGLVKDKIIVVELKENSALAKGSPSSQPIPEGNSKSLCRTGSCSELDAEPSKISPEWRGFGERVV 1638 (1714)
T ss_pred CCCCCCccccccCccccccccceEEEeccccchhhcCCCCCCCCCCCCCCCCCCCCcccccccchhhcCchhhhcCceeE
Confidence 37899999999999999999999888888888766665211 1 12344899999999999
Q ss_pred EeCCCceEEEEEEeecCCCCceEEEEEEcCCCCCCCcEECCEEeeeeCCCCeeeEecCcccccCCCccccCC
Q psy3317 91 IRPYNSSGVIAYIGPTEFAAGTWVGVELDAPTGKNDGTVQGTRYFESRPKHGIFVRADKLIQDRRGRAMRSG 162 (173)
Q Consensus 91 V~~~~~~GtVRYIG~l~~~~GiwvGVELDep~GknDGtv~G~rYF~C~p~~GiFVk~~kV~~d~~~~a~~~~ 162 (173)
+.. ..+++|||+|+.+|.+ |||||.|.|+|||+..|++||+|.|+||.||+++++..+++ +||.+
T Consensus 1639 ~~~-h~t~v~r~vg~tefq~----gveld~p~gkndgs~gg~qyfrc~p~~g~~vr~s~~~~~~~--~~r~~ 1703 (1714)
T KOG0241|consen 1639 TVE-HTTNVLRDVGFTEFQG----GVELDDPDGKNDGSAGGLQYFRCLPNKGGGVRVSDGLHHPS--QLRSK 1703 (1714)
T ss_pred Eee-cccceeeecchhhccC----cccccCCCCCcCccccceeEEeecCCCCCcccchhhccCcH--hhhhh
Confidence 985 4678999999999977 99999999999999999999999999999999999998776 56554
No 8
>KOG3556|consensus
Probab=99.24 E-value=1.5e-11 Score=115.70 Aligned_cols=80 Identities=28% Similarity=0.360 Sum_probs=73.4
Q ss_pred cccccceEEEeCC----CceEEEEEEeecCCCCceEEEEEEcCCC-----CCCCcEECCEEeeeeCCCCeeeEecCcccc
Q psy3317 82 WVCIGESVLIRPY----NSSGVIAYIGPTEFAAGTWVGVELDAPT-----GKNDGTVQGTRYFESRPKHGIFVRADKLIQ 152 (173)
Q Consensus 82 ~l~VGdRV~V~~~----~~~GtVRYIG~l~~~~GiwvGVELDep~-----GknDGtv~G~rYF~C~p~~GiFVk~~kV~~ 152 (173)
.|+||+.|.|... .++|+|||||.-|...|+|+|||+++.. +..||++.|.|||+|-++..+||+...+..
T Consensus 235 ~L~IGslveV~np~~~~~~ygvVrWIG~pP~~~~Vl~gve~edet~~~~~~~~dgs~~g~Rlftc~d~~a~Fv~~~scs~ 314 (724)
T KOG3556|consen 235 NLKIGSLVEVENPETMRRVYGVVRWIGEPPEASGVLYGVEFEDETSQWPSSNQDGSSSGDRLFTCFDTNANFVMSGSCSV 314 (724)
T ss_pred cceecceEEecCCccccccceeeEecccCCcccCceEeeeecCccccCccccccCcccCceeeeeccccceeeEcCCCCc
Confidence 5899999999843 6899999999999999999999998764 889999999999999999999999999999
Q ss_pred cCCCccccC
Q psy3317 153 DRRGRAMRS 161 (173)
Q Consensus 153 d~~~~a~~~ 161 (173)
|.+|..+.+
T Consensus 315 d~rfa~l~~ 323 (724)
T KOG3556|consen 315 DPRFARLYY 323 (724)
T ss_pred Ccccchhcc
Confidence 999997753
No 9
>KOG4568|consensus
Probab=99.08 E-value=2e-11 Score=116.93 Aligned_cols=72 Identities=44% Similarity=0.837 Sum_probs=68.4
Q ss_pred cccccceEEEeCCCceEEEEEEeecCCCCceEEEEEEcCCCCCCCcEECCEEeeeeCCCCeeeEecCcccccC
Q psy3317 82 WVCIGESVLIRPYNSSGVIAYIGPTEFAAGTWVGVELDAPTGKNDGTVQGTRYFESRPKHGIFVRADKLIQDR 154 (173)
Q Consensus 82 ~l~VGdRV~V~~~~~~GtVRYIG~l~~~~GiwvGVELDep~GknDGtv~G~rYF~C~p~~GiFVk~~kV~~d~ 154 (173)
.+.+|+||.+. ....|++||.|...+..|-|+|||||+|.|+|||++.+++||.|+|.+|+|.+..++....
T Consensus 154 ~l~v~dr~l~~-gq~~~~~r~~~~t~fa~g~w~~~elde~~~~~d~sv~k~~~~~~k~ky~~f~~v~kv~~~~ 225 (664)
T KOG4568|consen 154 GLRVGDRVLVG-GQKSGTLRYSGHTKFASGSWLGVELDEPVGKNDGSVGKVRYFQCKPKYGKFAPVQKVFKIE 225 (664)
T ss_pred ccccccceeec-CcccchhhhhccccccCCcccchhcccccccccccccccccccCcchhcchhHHHHHhhcc
Confidence 68999999997 5789999999999999999999999999999999999999999999999999999998753
No 10
>PTZ00243 ABC transporter; Provisional
Probab=94.03 E-value=0.061 Score=56.53 Aligned_cols=56 Identities=23% Similarity=0.399 Sum_probs=45.6
Q ss_pred ccccceEEEeC-CCceEEEEEEeecC--CCCceEEEEEEcCC-----------C---CCCCcEECCEEeeeeC
Q psy3317 83 VCIGESVLIRP-YNSSGVIAYIGPTE--FAAGTWVGVELDAP-----------T---GKNDGTVQGTRYFESR 138 (173)
Q Consensus 83 l~VGdRV~V~~-~~~~GtVRYIG~l~--~~~GiwvGVELDep-----------~---GknDGtv~G~rYF~C~ 138 (173)
-.||.+|-+.. ..-.|++||+|.++ +.++.++||||.-| . +=|+|.++|.+.|...
T Consensus 125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 197 (1560)
T PTZ00243 125 CMVGAEVVSTLDASSRGVLRWVGVPQQGGYTRMMAGVEWSVPPALRTAARSDDSGASPFFNGVAHGEHLFTPE 197 (1560)
T ss_pred cccccEEEeeccccccceEEeecccccCCCcceeeeeeeccCchhhhcccCCCCCCccccccccccccccCcc
Confidence 47899988873 35789999999997 45789999999865 1 2389999999999854
No 11
>PF10781 DSRB: Dextransucrase DSRB; InterPro: IPR019717 DSRB is a novel dextransucrase which produces a dextran different from the typical dextran, as it contains (1-6) and (1-2) linkages, when this strain is grown in the presence of sucrose [].
Probab=92.87 E-value=0.45 Score=33.59 Aligned_cols=56 Identities=27% Similarity=0.504 Sum_probs=42.0
Q ss_pred ccccceEEEeC---CCceEEEEEEeecCCCCceEEEEEEcC-CCCCCCcEECCEEeee-eCCCCeeeEecC
Q psy3317 83 VCIGESVLIRP---YNSSGVIAYIGPTEFAAGTWVGVELDA-PTGKNDGTVQGTRYFE-SRPKHGIFVRAD 148 (173)
Q Consensus 83 l~VGdRV~V~~---~~~~GtVRYIG~l~~~~GiwvGVELDe-p~GknDGtv~G~rYF~-C~p~~GiFVk~~ 148 (173)
++|.|||.|.. ..+.|+|.-+ =+|..|+++-|.|++ |.| +-||. ....-|+||.+.
T Consensus 1 MkvnD~VtVKTDG~~rR~G~ilav--E~F~EG~MYLvaL~dYP~G--------iWFFNE~~~~dG~FVep~ 61 (62)
T PF10781_consen 1 MKVNDRVTVKTDGGPRREGVILAV--EPFNEGTMYLVALEDYPAG--------IWFFNEKDSPDGTFVEPR 61 (62)
T ss_pred CccccEEEEecCCcccccceEEEE--eeccCcEEEEEEcCcCCcc--------eEEEecCCCCCcEEeeec
Confidence 36899999973 3577888777 357889999999976 333 44887 457889999764
No 12
>PRK10708 hypothetical protein; Provisional
Probab=92.53 E-value=0.55 Score=33.18 Aligned_cols=56 Identities=29% Similarity=0.551 Sum_probs=41.9
Q ss_pred ccccceEEEeC---CCceEEEEEEeecCCCCceEEEEEEcC-CCCCCCcEECCEEeee-eCCCCeeeEecC
Q psy3317 83 VCIGESVLIRP---YNSSGVIAYIGPTEFAAGTWVGVELDA-PTGKNDGTVQGTRYFE-SRPKHGIFVRAD 148 (173)
Q Consensus 83 l~VGdRV~V~~---~~~~GtVRYIG~l~~~~GiwvGVELDe-p~GknDGtv~G~rYF~-C~p~~GiFVk~~ 148 (173)
++|.|||.|.. ..+.|+|.-+ =+|..|+++-|.|++ |.| +-||. -...-|+||.+.
T Consensus 1 MkvnD~VtVKTDG~~rR~G~iLav--E~F~EG~MyLvaL~dYP~G--------iWFFNE~~~~~G~FVep~ 61 (62)
T PRK10708 1 MKVNDRVTVKTDGGPRRPGVVLAV--EEFSEGTMYLVSLEDYPLG--------IWFFNEAGHQDGIFVEKA 61 (62)
T ss_pred CccccEEEEecCCCccccceEEEE--eeccCcEEEEEEcCcCCCc--------eEEEeccCCCCceEeccc
Confidence 36899999973 3577888877 457889999999976 333 44887 447789999763
No 13
>PF09926 DUF2158: Uncharacterized small protein (DUF2158); InterPro: IPR019226 This entry represents a family of predominantly prokaryotic proteins with no known function.
Probab=85.42 E-value=3.2 Score=28.26 Aligned_cols=47 Identities=23% Similarity=0.385 Sum_probs=38.7
Q ss_pred ccccceEEEeCCCceEEEEEEeecCCCCceEEEEEEcCCCCCCCcEE
Q psy3317 83 VCIGESVLIRPYNSSGVIAYIGPTEFAAGTWVGVELDAPTGKNDGTV 129 (173)
Q Consensus 83 l~VGdRV~V~~~~~~GtVRYIG~l~~~~GiwvGVELDep~GknDGtv 129 (173)
+++||.|++...+..=||.++|+..+..+.|+=-.|.+..|...++|
T Consensus 1 f~~GDvV~LKSGGp~MTV~~v~~~~~~~~~~v~C~WFd~~~~~~~~F 47 (53)
T PF09926_consen 1 FKIGDVVQLKSGGPRMTVTEVGPNAGASGGWVECQWFDGHGEQRETF 47 (53)
T ss_pred CCCCCEEEEccCCCCeEEEEccccccCCCCeEEEEeCCCCCcccccc
Confidence 57999999997778889999999988888888888888766655444
No 14
>PF13403 Hint_2: Hint domain
Probab=48.04 E-value=15 Score=29.17 Aligned_cols=26 Identities=23% Similarity=0.270 Sum_probs=21.7
Q ss_pred cccccceEEEeCCCceEEEEEEeecCC
Q psy3317 82 WVCIGESVLIRPYNSSGVIAYIGPTEF 108 (173)
Q Consensus 82 ~l~VGdRV~V~~~~~~GtVRYIG~l~~ 108 (173)
.|++||+|.-. .+..-.|+|+|....
T Consensus 20 ~L~~GD~V~T~-dgg~~~V~wig~~~~ 45 (147)
T PF13403_consen 20 DLRPGDRVLTR-DGGFQPVRWIGRRTV 45 (147)
T ss_pred ccCCCCEEEec-CCCEEEEEEEEEEEe
Confidence 69999999987 467789999998754
No 15
>PF07238 PilZ: PilZ domain; InterPro: IPR009875 The ubiquitous bacterial second messenger cyclic-di-GMP (c-di-GMP) is associated with the regulation of biofilm formation, the control of exopolysaccharide synthesis, flagellar- and pili-based motility, gene expression, interactions of bacteria with eukaryotic hosts and multicellular behaviour in diverse bacteria. With the exception of bacterial cellulose synthases, the identities of c-di-GMP receptors and end targets of the proteins having one or more PilZ domains are mostly uncharacterised. However it was suggested that the PilZ domains present in the BcsA subunits of bacterial cellulose synthases function in c-di-GMP binding []. More recently YcgR (see IPR023787 from INTERPRO) was found to bind c-di-GMP tightly and specifically; also isolated PilZ domains from YcgR and BcsA bound c-di-GMP indicating that the PilZ domain was sufficient for binding of c-di-GMP and significantly that site-directed mutagenesis performed on YcgR implicated the most conserved residues in the PilZ domain directly in c-di-GMP binding []. It was suggested that c-di-GMP binding to PilZ brings about conformational changes in the protein that stabilise the bound ligand and probability initiates the downstream signal transduction cascade. In the case of YcgR, c-di-GMP binding regulates flagellum-based motility in a c-di-GMP-dependent manner (see IPR023787 from INTERPRO) []. The association of the PilZ domain with a variety of other domains, including likely components of bacterial multidrug secretion system, could provide clues to multiple functions of the c-di-GMP in bacterial pathogenesis and cell development. Binding and mutagenesis studies of several PilZ domain proteins have confirmed this observation and demonstrated that c-di-GMP binding depends on residues in RxxxR and D/NxSxxG sequence motifs. The crystal structure, at 1.7 A, of a PilZ domain::c-di-GMP complex from Vibrio cholerae shows c-di-GMP contacting seven of nine strongly conserved residues. Binding of c-di-GMP causes a conformational switch whereby the C- and N-terminal domains are brought into close opposition forming a new allosteric interaction surface that spans these domains and the c-di-GMP at their interface []. ; GO: 0035438 cyclic-di-GMP binding; PDB: 2RDE_B 1YLN_A 3KYG_A 3DSG_B 2GJG_A 3KYF_A 1YWU_A 2L74_A 2L1T_A 3CNR_A ....
Probab=39.67 E-value=65 Score=21.64 Aligned_cols=37 Identities=24% Similarity=0.218 Sum_probs=25.1
Q ss_pred cccccceEEEeC----C--C-ceEEEEEEeecCCCCceEEEEEEcC
Q psy3317 82 WVCIGESVLIRP----Y--N-SSGVIAYIGPTEFAAGTWVGVELDA 120 (173)
Q Consensus 82 ~l~VGdRV~V~~----~--~-~~GtVRYIG~l~~~~GiwvGVELDe 120 (173)
.+.+|+.|.+.- . . ..|.|+++-+. ..+.++|+++++
T Consensus 44 ~~~~~~~v~l~~~~~~~~~~~~~~~V~~~~~~--~~~~~~g~~f~~ 87 (102)
T PF07238_consen 44 PLEPGDRVRLSFSLPGGGFPIVTGRVVRIQKD--SDGYRVGVEFVD 87 (102)
T ss_dssp G--TTSEEEEEEECTTTSCEEEEEEEEEEEEE--SSEEEEEEEECH
T ss_pred CCCCCCEEEEEEEeCCCCeeEEEEEEEEEECC--CCceEEEEEEee
Confidence 578888766641 1 1 67888888666 667899999854
No 16
>PF14001 YdfZ: YdfZ protein
Probab=39.25 E-value=39 Score=24.23 Aligned_cols=22 Identities=32% Similarity=0.448 Sum_probs=19.2
Q ss_pred cccccceEEEeCCCceEEEEEE
Q psy3317 82 WVCIGESVLIRPYNSSGVIAYI 103 (173)
Q Consensus 82 ~l~VGdRV~V~~~~~~GtVRYI 103 (173)
.|..|+||.+...+..|+|+-|
T Consensus 9 ~i~~G~rVMiagtG~~gvikAi 30 (64)
T PF14001_consen 9 AITTGSRVMIAGTGATGVIKAI 30 (64)
T ss_pred cCCCCCEEEEcCCCcccEEeee
Confidence 4789999999987888999877
No 17
>PF02559 CarD_CdnL_TRCF: CarD-like/TRCF domain; InterPro: IPR003711 The bacterium Myxococcus xanthus responds to blue light by producing carotenoids. It also responds to starvation conditions by developing fruiting bodies, where the cells differentiate into myxospores. Each response entails the transcriptional activation of a separate set of genes. A single gene, carD, is required for the activation of both light- and starvation-inducible genes []. The predicted protein contains four repeats of a DNA-binding domain present in mammalian high mobility group I(Y) proteins and other nuclear proteins from animals and plants. Other peptide stretches on CarD also resemble functional domains typical of eukaryotic transcription factors, including a very acidic region and a leucine zipper. High mobility group yI(Y) proteins are known to bind the minor groove of A+T-rich DNA [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3MLQ_H 2EYQ_A.
Probab=38.36 E-value=85 Score=22.56 Aligned_cols=52 Identities=23% Similarity=0.249 Sum_probs=30.1
Q ss_pred ccccceEEEeCCCceEEEEEEeecCCCCceEEEEEEcCCCCCCCcEECCEEeeeeC--CCCeeeEecCcccccC
Q psy3317 83 VCIGESVLIRPYNSSGVIAYIGPTEFAAGTWVGVELDAPTGKNDGTVQGTRYFESR--PKHGIFVRADKLIQDR 154 (173)
Q Consensus 83 l~VGdRV~V~~~~~~GtVRYIG~l~~~~GiwvGVELDep~GknDGtv~G~rYF~C~--p~~GiFVk~~kV~~d~ 154 (173)
|++||.|... .+|+-+|.| |+-.+. .|.- +.|+.-. .+.-+|||.+++..-.
T Consensus 2 f~~GD~VVh~---~~Gv~~i~~-----------i~~~~~----~~~~--~~yy~L~~~~~~~i~vPv~~~~~i~ 55 (98)
T PF02559_consen 2 FKIGDYVVHP---NHGVGRIEG-----------IEEIEF----GGEK--QEYYVLEYADDDTIYVPVDNADKIG 55 (98)
T ss_dssp --TTSEEEET---TTEEEEEEE-----------EEEEEC----TTEE--EEEEEEEECCCEEEEEECCCGGGEE
T ss_pred CCCCCEEEEC---CCceEEEEE-----------EEEEee----CCee--EEEEEEEECCCCEEEEEcCChhhcc
Confidence 7899999885 346655553 333222 2222 5677654 3336999999977544
No 18
>TIGR02266 gmx_TIGR02266 Myxococcus xanthus paralogous domain TIGR02266. This domain is related to Type IV pilus assembly protein PilZ (Pfam model pfam07238). It is found in at least 12 copies in Myxococcus xanthus DK 1622.
Probab=33.09 E-value=1.1e+02 Score=21.27 Aligned_cols=41 Identities=20% Similarity=0.340 Sum_probs=24.5
Q ss_pred CcccccceEEEeC---C-----CceEEEEEEeecCCCCceEEEEEEcCC
Q psy3317 81 EWVCIGESVLIRP---Y-----NSSGVIAYIGPTEFAAGTWVGVELDAP 121 (173)
Q Consensus 81 ~~l~VGdRV~V~~---~-----~~~GtVRYIG~l~~~~GiwvGVELDep 121 (173)
..+.+|++|.+.- . ...|.|+|+-+.......++||++.+.
T Consensus 35 ~~~~~g~~v~l~l~l~~~~~~i~~~g~Vv~~~~~~~~~~~~~Gv~F~~~ 83 (96)
T TIGR02266 35 KPLAVGTRVELKLTLPGGERPVELKGVVAWVRPAADGGPPGMGVRFEDL 83 (96)
T ss_pred CCcCCCCEEEEEEEcCCCCeEEEEEEEEEEeCCCCCCCCCeeEEEeccC
Confidence 3467788776651 1 246777777433222225789998653
No 19
>COG3350 Uncharacterized conserved protein [Function unknown]
Probab=32.76 E-value=19 Score=24.95 Aligned_cols=29 Identities=14% Similarity=0.328 Sum_probs=22.3
Q ss_pred EEEEEEcCCCCCCCcEECCEEeeeeCCCC
Q psy3317 113 WVGVELDAPTGKNDGTVQGTRYFESRPKH 141 (173)
Q Consensus 113 wvGVELDep~GknDGtv~G~rYF~C~p~~ 141 (173)
.+|-.+|...-..--+|+|+-||.|.+.+
T Consensus 7 Vcgm~v~~~~a~~k~~Y~GktYYFcse~~ 35 (53)
T COG3350 7 VCGMKVDNENAEYKSSYGGKTYYFCSEEC 35 (53)
T ss_pred CcCccccccccceeEEeCCEEEEEeCHHH
Confidence 46667776666777789999999997654
No 20
>PF00924 MS_channel: Mechanosensitive ion channel; InterPro: IPR006685 Mechanosensitive (MS) channels provide protection against hypo-osmotic shock, responding both to stretching of the cell membrane and to membrane depolarisation. They are present in the membranes of organisms from the three domains of life: bacteria, archaea, and eukarya []. There are two families of MS channels: large-conductance MS channels (MscL) and small-conductance MS channels (MscS or YGGB). The pressure threshold for MscS opening is 50% that of MscL []. The MscS family is much larger and more variable in size and sequence than the MscL family. Much of the diversity in MscS proteins occurs in the size of the transmembrane regions, which ranges from three to eleven transmembrane helices, although the three C-terminal helices are conserved. This family contains sequences form the MscS family of proteins. MscS folds as a homo-heptamer with a cylindrical shape, and can be divided into transmembrane and extramembrane regions: an N-terminal periplasmic region, a transmembrane region, and a C-terminal cytoplasmic region (middle and C-terminal domains). The transmembrane region forms a channel through the membrane that opens into a chamber enclosed by the extramembrane portion, the latter connecting to the cytoplasm through distinct portals [].; GO: 0055085 transmembrane transport, 0016020 membrane; PDB: 2OAU_E 2VV5_F.
Probab=31.89 E-value=35 Score=27.04 Aligned_cols=24 Identities=21% Similarity=0.289 Sum_probs=17.3
Q ss_pred cccccceEEEeCCCceEEEEEEeecC
Q psy3317 82 WVCIGESVLIRPYNSSGVIAYIGPTE 107 (173)
Q Consensus 82 ~l~VGdRV~V~~~~~~GtVRYIG~l~ 107 (173)
.+++||+|.+. +..|.|..+|...
T Consensus 60 pf~vGD~I~i~--~~~G~V~~I~l~~ 83 (206)
T PF00924_consen 60 PFKVGDRIEIG--GVEGRVEEIGLRS 83 (206)
T ss_dssp SS-TT-EEESS--S-EEEEEEE-SSE
T ss_pred CccCCCEEEEE--EeehHHHhcCcce
Confidence 58999999997 6899999998773
No 21
>COG4831 Roadblock/LC7 domain [Function unknown]
Probab=31.64 E-value=15 Score=28.54 Aligned_cols=34 Identities=26% Similarity=0.378 Sum_probs=28.2
Q ss_pred EECCEEeeeeC-CCCeeeEecCcccccCCCccccC
Q psy3317 128 TVQGTRYFESR-PKHGIFVRADKLIQDRRGRAMRS 161 (173)
Q Consensus 128 tv~G~rYF~C~-p~~GiFVk~~kV~~d~~~~a~~~ 161 (173)
.+-|-+|--|- -|.|+||+.++...+.-|..+|.
T Consensus 74 a~agg~yavci~Gn~GVFVe~~kadf~kIfk~L~~ 108 (109)
T COG4831 74 AVAGGKYAVCIMGNVGVFVELDKADFNKIFKTLRE 108 (109)
T ss_pred EEecCceEEEEecceeEEEEcchhhHHHHHHHHhc
Confidence 46777899997 89999999999988877776654
No 22
>TIGR00739 yajC preprotein translocase, YajC subunit. While this protein is part of the preprotein translocase in Escherichia coli, it is not essential for viability or protein secretion. The N-terminus region contains a predicted membrane-spanning region followed by a region consisting almost entirely of residues with charged (acidic, basic, or zwitterionic) side chains. This small protein is about 100 residues in length, and is restricted to bacteria; however, this protein is absent from some lineages, including spirochetes and Mycoplasmas.
Probab=28.80 E-value=1.3e+02 Score=21.86 Aligned_cols=33 Identities=24% Similarity=0.235 Sum_probs=24.2
Q ss_pred CCcccccceEEEeCCCceEEEEEEeecCCCCceEEEEEEc
Q psy3317 80 PEWVCIGESVLIRPYNSSGVIAYIGPTEFAAGTWVGVELD 119 (173)
Q Consensus 80 ~~~l~VGdRV~V~~~~~~GtVRYIG~l~~~~GiwvGVELD 119 (173)
-+.|++||+|... .+..|+|.-++. .++-||..
T Consensus 35 ~~~L~~Gd~VvT~-gGi~G~V~~i~d------~~v~vei~ 67 (84)
T TIGR00739 35 IESLKKGDKVLTI-GGIIGTVTKIAE------NTIVIELN 67 (84)
T ss_pred HHhCCCCCEEEEC-CCeEEEEEEEeC------CEEEEEEC
Confidence 3468999999987 479999998863 24555554
No 23
>PF02211 NHase_beta: Nitrile hydratase beta subunit; InterPro: IPR024690 Nitrile hydratases (EC:4.2.1.84) are unusual metalloenzymes that catalyse the hydration of nitriles to their corresponding amides. They are used as biocatalysts in acrylamide production, one of the few commercial scale bioprocesses, as well as in environmental remediation for the removal of nitriles from waste streams. Nitrile hydratases are composed of two subunits, alpha and beta, and they contain one iron atom per alpha beta unit []. This entry represents the structural domain of nitrile hydratase beta subunit which contains irregular array of helices in the N-terminal extension.; GO: 0018822 nitrile hydratase activity; PDB: 2DXB_H 2DD5_K 2DD4_H 2ZZD_B 2DXC_H 1AHJ_F 2ZPE_B 2ZCF_B 2D0Q_B 2CZ7_B ....
Probab=28.18 E-value=28 Score=29.94 Aligned_cols=18 Identities=28% Similarity=0.518 Sum_probs=9.9
Q ss_pred ccCCCCcccccceEEEeC
Q psy3317 76 DVTLPEWVCIGESVLIRP 93 (173)
Q Consensus 76 ~~~l~~~l~VGdRV~V~~ 93 (173)
....+..|.|||+|.|..
T Consensus 128 ~~~~~~~F~vGd~Vrv~~ 145 (222)
T PF02211_consen 128 PVDAPPRFAVGDRVRVRN 145 (222)
T ss_dssp TTSSS-SS-TT-EEEE--
T ss_pred CCCCCCCCCCCCEEEECC
Confidence 344456799999999974
No 24
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=27.73 E-value=27 Score=31.68 Aligned_cols=23 Identities=35% Similarity=0.651 Sum_probs=17.2
Q ss_pred CCCCcEECC----------EEeeeeCCCCeeeE
Q psy3317 123 GKNDGTVQG----------TRYFESRPKHGIFV 145 (173)
Q Consensus 123 GknDGtv~G----------~rYF~C~p~~GiFV 145 (173)
-.|.|+++| .||-.|.+||||==
T Consensus 21 SsnSgS~KgSd~Sp~~rr~~rY~~C~dNHGikP 53 (305)
T PF15290_consen 21 SSNSGSCKGSDSSPTMRRSGRYMSCGDNHGIKP 53 (305)
T ss_pred cCCCccccCCCCCCCCCCCCceeecccCCCCCC
Confidence 345666665 68999999999843
No 25
>PRK00321 rdgC recombination associated protein; Reviewed
Probab=27.56 E-value=1.4e+02 Score=26.64 Aligned_cols=59 Identities=12% Similarity=0.195 Sum_probs=42.3
Q ss_pred CCCCcccccceEEEeC-CCceEEEEEEeecCCC--------Cc---eEEEEEEcCCC---CCCCcEECCEEeee
Q psy3317 78 TLPEWVCIGESVLIRP-YNSSGVIAYIGPTEFA--------AG---TWVGVELDAPT---GKNDGTVQGTRYFE 136 (173)
Q Consensus 78 ~l~~~l~VGdRV~V~~-~~~~GtVRYIG~l~~~--------~G---iwvGVELDep~---GknDGtv~G~rYF~ 136 (173)
++|.++.+|+.|.+.. ....|+|||.+.--.. .| .=.++.|++.. =..|+++...+|-.
T Consensus 183 ~~P~~f~l~~~~eL~~~~e~~~~vr~k~~~L~~~Ei~~hl~~Gk~vtkLaL~w~~~isFvL~~~~~iKrlkf~d 256 (303)
T PRK00321 183 EAPAGFTLDDECELKSALEDGAVVRCKRQDLDSDEIRQHIEAGKQVTKLALTWQDRLSFVLTDDLTIKRLKFLD 256 (303)
T ss_pred CCCCCcEecceeEEecCCCCccEEEEeCCCCCcHHHHHHHHCCCEEEEEEEEEcCceEEEEcCCceEeeeecch
Confidence 6789999999999974 3455799999755221 23 35688887764 45668887777755
No 26
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=26.03 E-value=1.6e+02 Score=22.86 Aligned_cols=32 Identities=22% Similarity=0.150 Sum_probs=24.5
Q ss_pred CcccccceEEEeCCCceEEEEEEeecCCCCceEEEEEEc
Q psy3317 81 EWVCIGESVLIRPYNSSGVIAYIGPTEFAAGTWVGVELD 119 (173)
Q Consensus 81 ~~l~VGdRV~V~~~~~~GtVRYIG~l~~~~GiwvGVELD 119 (173)
..|++||+|... .+..|+|.-++. -++-||+.
T Consensus 37 ~~Lk~GD~VvT~-gGi~G~V~~I~d------~~v~leia 68 (109)
T PRK05886 37 ESLQPGDRVHTT-SGLQATIVGITD------DTVDLEIA 68 (109)
T ss_pred HhcCCCCEEEEC-CCeEEEEEEEeC------CEEEEEEC
Confidence 358999999987 579999998863 35666664
No 27
>PF13437 HlyD_3: HlyD family secretion protein
Probab=23.98 E-value=1.9e+02 Score=20.32 Aligned_cols=27 Identities=22% Similarity=0.305 Sum_probs=20.4
Q ss_pred ccc-ccceEEEeC-----CCceEEEEEEeecCC
Q psy3317 82 WVC-IGESVLIRP-----YNSSGVIAYIGPTEF 108 (173)
Q Consensus 82 ~l~-VGdRV~V~~-----~~~~GtVRYIG~l~~ 108 (173)
.++ +|+.|.+.. ....|+|.+|.+...
T Consensus 49 ~i~~~g~~v~v~~~~~~~~~~~g~V~~I~~~~~ 81 (105)
T PF13437_consen 49 RIKDPGQKVTVRLDPGPEKTIEGKVSSISPSPD 81 (105)
T ss_pred ceEeCCCEEEEEECCCCCcEEEEEEEEEeCccc
Confidence 677 999988873 256899999988643
No 28
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=23.13 E-value=95 Score=16.87 Aligned_cols=12 Identities=17% Similarity=0.257 Sum_probs=9.6
Q ss_pred ccccceEEEeCC
Q psy3317 83 VCIGESVLIRPY 94 (173)
Q Consensus 83 l~VGdRV~V~~~ 94 (173)
+.+|+.|.|...
T Consensus 2 ~~~G~~V~I~~G 13 (28)
T smart00739 2 FEVGDTVRVIAG 13 (28)
T ss_pred CCCCCEEEEeEC
Confidence 578999999853
No 29
>PF04319 NifZ: NifZ domain; InterPro: IPR007415 NifZ is a short protein is found in the nif (nitrogen fixation) operon. It is required for the maturation of the nitrogenase MoFe protein. In the absence of NifZ, only one of the two P-clusters of the MoFe protein is matured to the ultimate [8Fe-7S] structure. The other P-cluster site in the protein contains a [4Fe-4S] cluster pair, suggesting that NifZ is specifically required for the formation of the second P-cluster [, , ].; GO: 0009399 nitrogen fixation
Probab=22.84 E-value=2.6e+02 Score=20.42 Aligned_cols=25 Identities=16% Similarity=-0.028 Sum_probs=16.1
Q ss_pred CceEEEEEEeecCCCCceEEEEEEcC
Q psy3317 95 NSSGVIAYIGPTEFAAGTWVGVELDA 120 (173)
Q Consensus 95 ~~~GtVRYIG~l~~~~GiwvGVELDe 120 (173)
+-.|.|+-+|......- .+.|++.+
T Consensus 36 G~~G~V~~iG~flq~~~-IY~V~F~~ 60 (75)
T PF04319_consen 36 GDVGYVVSIGTFLQDFY-IYLVHFLE 60 (75)
T ss_pred CCcEEEEEeeEEcceeE-EEEEEEcC
Confidence 56788888887754332 56777733
No 30
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=21.55 E-value=1.9e+02 Score=21.96 Aligned_cols=33 Identities=18% Similarity=0.273 Sum_probs=24.1
Q ss_pred CCcccccceEEEeCCCceEEEEEEeecCCCCceEEEEEEc
Q psy3317 80 PEWVCIGESVLIRPYNSSGVIAYIGPTEFAAGTWVGVELD 119 (173)
Q Consensus 80 ~~~l~VGdRV~V~~~~~~GtVRYIG~l~~~~GiwvGVELD 119 (173)
=..|++||+|... .+.+|+|.-+.. ..+-||..
T Consensus 50 ~~~Lk~Gd~VvT~-gGi~G~Vv~i~~------~~v~lei~ 82 (106)
T PRK05585 50 LSSLAKGDEVVTN-GGIIGKVTKVSE------DFVIIELN 82 (106)
T ss_pred HHhcCCCCEEEEC-CCeEEEEEEEeC------CEEEEEEC
Confidence 3469999999887 478999987753 35556554
No 31
>PF14801 GCD14_N: tRNA methyltransferase complex GCD14 subunit N-term; PDB: 1I9G_A.
Probab=21.22 E-value=40 Score=23.40 Aligned_cols=44 Identities=18% Similarity=0.197 Sum_probs=19.7
Q ss_pred cccccceEEEeC-CCceEEEEEEeecCCCC---ceEEEEEEcCCCCCCCcEE
Q psy3317 82 WVCIGESVLIRP-YNSSGVIAYIGPTEFAA---GTWVGVELDAPTGKNDGTV 129 (173)
Q Consensus 82 ~l~VGdRV~V~~-~~~~GtVRYIG~l~~~~---GiwvGVELDep~GknDGtv 129 (173)
.|..|+||++.. .++.=||. |.... -.+-.|.-|+-+|..+|++
T Consensus 5 pf~~GdrVQlTD~Kgr~~Ti~----L~~G~~fhThrG~i~HDdlIG~~eGsV 52 (54)
T PF14801_consen 5 PFRAGDRVQLTDPKGRKHTIT----LEPGGEFHTHRGAIRHDDLIGRPEGSV 52 (54)
T ss_dssp S--TT-EEEEEETT--EEEEE------TT-EEEETTEEEEHHHHTT--TTEE
T ss_pred CCCCCCEEEEccCCCCeeeEE----ECCCCeEEcCccccchhheecCCCcEE
Confidence 378999999983 23333432 22111 1233456666678887775
No 32
>KOG0552|consensus
Probab=20.77 E-value=5.2e+02 Score=22.50 Aligned_cols=31 Identities=19% Similarity=0.114 Sum_probs=19.6
Q ss_pred CCCCcccccceEEEeC----CCceEEEEEEeecCC
Q psy3317 78 TLPEWVCIGESVLIRP----YNSSGVIAYIGPTEF 108 (173)
Q Consensus 78 ~l~~~l~VGdRV~V~~----~~~~GtVRYIG~l~~ 108 (173)
+++-.+.+-|++.-.+ .+.+=.|+|+|.|..
T Consensus 117 tl~~Gl~y~D~~vG~G~~a~~G~rV~v~Y~Gkl~~ 151 (226)
T KOG0552|consen 117 TLPGGLRYEDLRVGSGPSAKKGKRVSVRYIGKLKG 151 (226)
T ss_pred ecCCCcEEEEEEecCCCCCCCCCEEEEEEEEEecC
Confidence 4555555555444432 256678899999986
Done!