Query 028780
Match_columns 204
No_of_seqs 111 out of 188
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 16:53:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028780.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028780hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00224 Mog1 homolog to Ran-Bi 100.0 2.9E-60 6.4E-65 389.4 16.7 173 9-199 1-173 (173)
2 PF04603 Mog1: Ran-interacting 100.0 2.1E-56 4.5E-61 355.7 9.1 140 9-151 2-141 (141)
3 KOG3329 RAN guanine nucleotide 100.0 7.4E-49 1.6E-53 316.0 0.9 182 4-199 2-185 (185)
4 PRK11615 hypothetical protein; 74.3 6.7 0.00014 32.8 4.8 47 6-52 40-87 (185)
5 KOG0429 Ubiquitin-conjugating 30.4 27 0.00058 30.3 1.2 36 6-41 56-94 (258)
6 COG5554 NifU Nitrogen fixation 29.2 35 0.00076 23.6 1.4 24 8-35 30-53 (69)
7 TIGR02276 beta_rpt_yvtn 40-res 23.9 87 0.0019 18.2 2.4 16 34-49 1-16 (42)
8 TIGR01376 POMP_repeat Chlamydi 22.8 46 0.001 18.6 0.9 9 11-19 14-22 (27)
9 PF08786 DUF1795: Domain of un 18.8 91 0.002 23.6 2.1 28 17-52 3-33 (130)
10 PF07824 Chaperone_III: Type I 17.5 1.1E+02 0.0023 23.6 2.1 18 122-141 72-89 (112)
No 1
>cd00224 Mog1 homolog to Ran-Binding Protein Mog1p; binds to the small GTPase Ran, which plays an important role in nuclear import. Binding is independent of Ran's nucleotide state (RanGTP/RanGDP)
Probab=100.00 E-value=2.9e-60 Score=389.45 Aligned_cols=173 Identities=35% Similarity=0.467 Sum_probs=139.8
Q ss_pred cccccceeEeecCCCCccccCccccCCcceEEecCCCCceEEEEeecccCCCCchhHHHHHHHhhhccccCCCceEEeee
Q 028780 9 RPLFGGAISSSFPHRFQDVSNIRQVPDHQEVFVDPSRDESLIFELLDFKLDVGDNGSAAWFLQDLATEQDAEGCTLLEQS 88 (204)
Q Consensus 9 ~~LyGGAIt~~lP~~fiDvS~lRqVPDnQEVFv~~~~d~SiIiElLE~v~~~~d~~A~~~Hf~dla~~N~~~~~~~i~~~ 88 (204)
|+||||||++.||++|+|+|+|||||||||||+++++|+|||||||||+++++|.+|++|||+|||++|++.+ ..+++.
T Consensus 1 ~~LfGGAI~~~lP~~f~DvS~lRqVPDnQEVF~~~~~d~SiIiElLe~~~~~~d~~a~~~h~~dla~~n~~~~-~~v~~~ 79 (173)
T cd00224 1 CPLFGGAFSAILPPGFIDVSDLRPVPDNQEVFCHPSTDQSLIVELLELQAHVRDEEAARYHFEDLASVNDAEG-VEVLSV 79 (173)
T ss_pred CCccCceEEEeCCCcccchhcceeCCCCcEEEEcCCCCeEEEEEeeccccCCChHHHHHHHHHHHhccccCcc-eEEeec
Confidence 6899999999999999999999999999999999999999999999999999999999999999999999976 556776
Q ss_pred eeeccCCCCCCCCCceEEEEEeeeEeecCCCCcCCcceEEEEEEEEEcCCCCeeEEEEEeccCcCCCCcccccccCCCCC
Q 028780 89 GVVEAPGLRYKDLPATVTTAVGQMAISKGRQGREAQNIVKVYLANLRLKEVGTDVLVTAYEPLLINPLSESASTVGAGLP 168 (204)
Q Consensus 89 ~~~~~~~~~~~~~~~~~~~~~G~q~v~k~~~~~~~~~~V~i~l~liRL~~~~TDilIt~NvP~~~~~~s~~~~~~~~~~~ 168 (204)
.+++....+.... .++.+.|+| +++ +++++|.||||||||++++||||||+|+|+. .++++..++...
T Consensus 80 ~~~~~~~~~~~~~--~~~~~~g~q----~~~--~~~~~v~i~l~liRL~~~~TDilit~NvP~~---~~~~a~~~~~~~- 147 (173)
T cd00224 80 QPLSLEGTSLTGC--CAWLLSGKQ----ENQ--EVAKDVTIHVALIRLPQYQTDLLLTFNQPPP---DSRSSVGSNLLS- 147 (173)
T ss_pred cccccCcccccce--eeEEeeccc----ccc--cCcCeeEEEEEEEECCCccccEEEEEecCCc---hhhhccCccccc-
Confidence 6665533222221 146666765 333 5678899999999999999999999999964 333333332211
Q ss_pred CCCcccccccHHHHHHHhhceeeEccCCCCC
Q 028780 169 VPATQSGFMQMSEVFKLAVSSFKVNDWSLFG 199 (204)
Q Consensus 169 ~~~~~~~~~~~~~~f~~i~~sf~V~D~~LF~ 199 (204)
..+. .++.+|++++.||+|+||||||
T Consensus 148 ----~~~~-~a~~~~~~~~~sf~V~D~~LFg 173 (173)
T cd00224 148 ----PASC-WSLGDFEQLVTSLTLHDPNLFG 173 (173)
T ss_pred ----chhh-hHHHHHHHHhhEEEeecccccC
Confidence 1111 1578999999999999999997
No 2
>PF04603 Mog1: Ran-interacting Mog1 protein; InterPro: IPR007681 Segregation of nuclear and cytoplasmic processes facilitates regulation of many eukaryotic cellular functions such as gene expression and cell cycle progression. Trafficking through the nuclear pore requires a number of highly conserved soluble factors that escort macromolecular substrates into and out of the nucleus. The Mog1 protein has been shown to interact with RanGTP, which stimulates guanine nucleotide release, suggesting Mog1 regulates the nuclear transport functions of Ran []. The human homologue of Mog1 is thought to be alternatively spliced.; PDB: 1JHS_A 1EQ6_A.
Probab=100.00 E-value=2.1e-56 Score=355.71 Aligned_cols=140 Identities=43% Similarity=0.667 Sum_probs=104.0
Q ss_pred cccccceeEeecCCCCccccCccccCCcceEEecCCCCceEEEEeecccCCCCchhHHHHHHHhhhccccCCCceEEeee
Q 028780 9 RPLFGGAISSSFPHRFQDVSNIRQVPDHQEVFVDPSRDESLIFELLDFKLDVGDNGSAAWFLQDLATEQDAEGCTLLEQS 88 (204)
Q Consensus 9 ~~LyGGAIt~~lP~~fiDvS~lRqVPDnQEVFv~~~~d~SiIiElLE~v~~~~d~~A~~~Hf~dla~~N~~~~~~~i~~~ 88 (204)
|+||||||+|.||++|+|+|+|||||||||||+++++|+|||||||||+++.+|++|++|||+|||++|++.+ ..+++.
T Consensus 2 ~~LyGGAi~~~lP~~f~DvS~~RqVPD~QEVf~~~~~d~SiIielle~~~~~~d~~a~~~hf~dla~~n~a~~-~~i~~~ 80 (141)
T PF04603_consen 2 RPLYGGAITCDLPSGFIDVSDFRQVPDNQEVFVDPSTDQSIIIELLERVEEVDDEEAARFHFEDLADDNDASS-STILSV 80 (141)
T ss_dssp EEEGGGTEEEEE-TTEEEGGGTS---TTEEEEEE--S--EEEEEEEE--S--SHHHHHHHHHHHHHHCCTEEE-EE----
T ss_pred ccccCceEEEeCCCCccchhhceeCCCCCEEeEeCCCCeEEEEEEecccCCCChHHHHHHHHHhhhcccCccc-eeeecc
Confidence 7899999999999999999999999999999999999999999999999999999999999999999999875 446666
Q ss_pred eeeccCCCCCCCCCceEEEEEeeeEeecCCCCcCCcceEEEEEEEEEcCCCCeeEEEEEeccC
Q 028780 89 GVVEAPGLRYKDLPATVTTAVGQMAISKGRQGREAQNIVKVYLANLRLKEVGTDVLVTAYEPL 151 (204)
Q Consensus 89 ~~~~~~~~~~~~~~~~~~~~~G~q~v~k~~~~~~~~~~V~i~l~liRL~~~~TDilIt~NvP~ 151 (204)
.+++...++.......++++.|.|+++|+++ ++++.|.||||||||++++||||||+|+|+
T Consensus 81 ~~l~~~~~~~~~~~~~~~~l~G~q~v~K~~~--~~~~~v~i~laliRL~~~~TDilIt~N~Pl 141 (141)
T PF04603_consen 81 EPLSEDQLGLPSECPSASVLVGTQKVAKFNE--EAANTVRIYLALIRLPEVSTDILITVNVPL 141 (141)
T ss_dssp -EEEEEEEE-TTTEEEEEEEEEEETTS---T--TSS--EEEEEEEEEEGGGTEEEEEEEEEE-
T ss_pred cccccccccCCCCCccEEEEEeccccccccc--cCCCeEEEEEEEEeCCCCCCeEEEEeccCC
Confidence 6665544433333456799999999999876 467899999999999999999999999995
No 3
>KOG3329 consensus RAN guanine nucleotide release factor [Signal transduction mechanisms]
Probab=100.00 E-value=7.4e-49 Score=316.04 Aligned_cols=182 Identities=39% Similarity=0.470 Sum_probs=137.8
Q ss_pred CCCcccccccceeEeecCCCCccccCccccCCcceEEecCCCCceEEEEeecccCCCCchhHHHHHHHhhhccccCCCce
Q 028780 4 DLYSERPLFGGAISSSFPHRFQDVSNIRQVPDHQEVFVDPSRDESLIFELLDFKLDVGDNGSAAWFLQDLATEQDAEGCT 83 (204)
Q Consensus 4 ~~~~~~~LyGGAIt~~lP~~fiDvS~lRqVPDnQEVFv~~~~d~SiIiElLE~v~~~~d~~A~~~Hf~dla~~N~~~~~~ 83 (204)
++.+.+|||||||++.+|++|||||+|||||||||||+++++|+|+||||||.++++-|...+.|||+||+..+++....
T Consensus 2 e~~~~~pLfGGAisav~P~gfiDvS~LRqVPDnQEVfv~p~rDesli~eLle~~a~v~d~~~a~~~~n~~~~~q~a~e~~ 81 (185)
T KOG3329|consen 2 EPTRDVPLFGGAISAVFPPGFIDVSDLRQVPDNQEVFVHPSRDESLIVELLELQAHVRDELEAVYHFNDLAAWQDAVEDL 81 (185)
T ss_pred CcccccccccceeeeccCcccccHhhcccCCCCceEeecCCchHHHHHHHHhhhhhccchhhhhhhhhhHHHhhhhHhhh
Confidence 57788999999999999999999999999999999999999999999999999999999999999999999999865322
Q ss_pred -EEeeeeeeccCCCCCCCCCceEEEEEee-eEeecCCCCcCCcceEEEEEEEEEcCCCCeeEEEEEeccCcCCCCccccc
Q 028780 84 -LLEQSGVVEAPGLRYKDLPATVTTAVGQ-MAISKGRQGREAQNIVKVYLANLRLKEVGTDVLVTAYEPLLINPLSESAS 161 (204)
Q Consensus 84 -~i~~~~~~~~~~~~~~~~~~~~~~~~G~-q~v~k~~~~~~~~~~V~i~l~liRL~~~~TDilIt~NvP~~~~~~s~~~~ 161 (204)
.+..+..++..++... ...++...|. |.+.|.++. .++ .++.+..++||+++.||++||+|.|+. .+++..
T Consensus 82 ~~~~~sl~~e~~~l~~r--~q~a~~t~~~~q~v~k~nkr-~~~-~~t~v~v~lrlpqfqtdlviS~Nap~p---~~~~~~ 154 (185)
T KOG3329|consen 82 TESNQSLSWEALGLDGR--CQEAWVTSGKMQQVAKENKR-VAK-DVTLVQVLLRLPQFQTDLVISFNAPLP---DNSSSL 154 (185)
T ss_pred hhhccccccccccccch--hhhhhhhhhHHHHHHHcCCc-cch-hhhhhhhhhcccccccceEEEecCCCc---chhhcc
Confidence 1222223332222222 2234555555 566655442 233 334555666999999999999999984 222111
Q ss_pred ccCCCCCCCCcccccccHHHHHHHhhceeeEccCCCCC
Q 028780 162 TVGAGLPVPATQSGFMQMSEVFKLAVSSFKVNDWSLFG 199 (204)
Q Consensus 162 ~~~~~~~~~~~~~~~~~~~~~f~~i~~sf~V~D~~LF~ 199 (204)
. ++.+..+++++++|+++++||+++||+|||
T Consensus 155 ~-------pe~~S~~~~~l~~iqq~vrsl~l~D~nlFg 185 (185)
T KOG3329|consen 155 G-------PENQSPAPASLGDIQQLVRSLTLVDPNLFG 185 (185)
T ss_pred C-------cccccccchHHHHHHHHhheEEeccccccC
Confidence 1 223445566899999999999999999997
No 4
>PRK11615 hypothetical protein; Provisional
Probab=74.28 E-value=6.7 Score=32.76 Aligned_cols=47 Identities=19% Similarity=0.322 Sum_probs=35.9
Q ss_pred CcccccccceeEeecCCCCccccCc-cccCCcceEEecCCCCceEEEE
Q 028780 6 YSERPLFGGAISSSFPHRFQDVSNI-RQVPDHQEVFVDPSRDESLIFE 52 (204)
Q Consensus 6 ~~~~~LyGGAIt~~lP~~fiDvS~l-RqVPDnQEVFv~~~~d~SiIiE 52 (204)
..++.|-+|-++..||++|-|-|.- --=-.|=-||.|+.+.+.+||=
T Consensus 40 ~q~VSLLdGKl~FtLPag~sdqsgk~Gtq~nn~~vYad~tg~kavIVi 87 (185)
T PRK11615 40 GQPVSLLDGKLSFTLPADMSDQSGKLGTQANNMHVYADATGQKAVIVI 87 (185)
T ss_pred CceeEEeccEEEEEcCCccccccccccccccceEEEEcCCCCEEEEEE
Confidence 4578899999999999999999854 2222233588898888888765
No 5
>KOG0429 consensus Ubiquitin-conjugating enzyme-related protein Ft1, involved in programmed cell death [Posttranslational modification, protein turnover, chaperones]
Probab=30.41 E-value=27 Score=30.28 Aligned_cols=36 Identities=25% Similarity=0.522 Sum_probs=28.0
Q ss_pred Cccccccccee---EeecCCCCccccCccccCCcceEEe
Q 028780 6 YSERPLFGGAI---SSSFPHRFQDVSNIRQVPDHQEVFV 41 (204)
Q Consensus 6 ~~~~~LyGGAI---t~~lP~~fiDvS~lRqVPDnQEVFv 41 (204)
|...-||||-+ |+.||.+|=|.|++--|==.|+||=
T Consensus 56 Fvr~GiyaggVFRFtIliPdnfPdd~dlPrvvF~q~vfH 94 (258)
T KOG0429|consen 56 FVRKGIYAGGVFRFTILIPDNFPDDSDLPRVVFEQSVFH 94 (258)
T ss_pred EEecccccCceEEEEEEcCccCCCcCCCCeEEeeccccc
Confidence 34567899875 7899999999999966656677774
No 6
>COG5554 NifU Nitrogen fixation protein [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=29.21 E-value=35 Score=23.61 Aligned_cols=24 Identities=25% Similarity=0.627 Sum_probs=17.0
Q ss_pred ccccccceeEeecCCCCccccCccccCC
Q 028780 8 ERPLFGGAISSSFPHRFQDVSNIRQVPD 35 (204)
Q Consensus 8 ~~~LyGGAIt~~lP~~fiDvS~lRqVPD 35 (204)
+..|+||+|. |-.||-= .||++||
T Consensus 30 nedlwGG~il--L~NGWrL--~lp~lP~ 53 (69)
T COG5554 30 NEDLWGGKIL--LANGWRL--ELPELPD 53 (69)
T ss_pred ccccccceEE--eccceEE--EcccCCC
Confidence 4689999998 6677642 3566665
No 7
>TIGR02276 beta_rpt_yvtn 40-residue YVTN family beta-propeller repeat. This repeat of about 40 amino acids is found in up to 14 copies per protein. Archaea Methanosarcina mazei and Methanosarcina acetivorans each have over 10 genes that encode tandem copies of this repeat, which is also found in other species. PSIPRED predicts with high confidence that each 40-residue repeats contains four beta strands. This model overlaps somewhat with the NHL repeat (Pfam pfam01436) and also shows sequence similarity to the WD domain, G-beta repeat (Pfam pfam00400).
Probab=23.92 E-value=87 Score=18.21 Aligned_cols=16 Identities=25% Similarity=0.571 Sum_probs=10.9
Q ss_pred CCcceEEecCCCCceE
Q 028780 34 PDHQEVFVDPSRDESL 49 (204)
Q Consensus 34 PDnQEVFv~~~~d~Si 49 (204)
||++.+|+....+.+|
T Consensus 1 pd~~~lyv~~~~~~~v 16 (42)
T TIGR02276 1 PDGTKLYVTNSGSNTV 16 (42)
T ss_pred CCCCEEEEEeCCCCEE
Confidence 8899999965543333
No 8
>TIGR01376 POMP_repeat Chlamydial polymorphic outer membrane protein repeat. This repeat is observed, but is very rare, outside the Chlamydias.
Probab=22.79 E-value=46 Score=18.65 Aligned_cols=9 Identities=44% Similarity=0.486 Sum_probs=7.3
Q ss_pred cccceeEee
Q 028780 11 LFGGAISSS 19 (204)
Q Consensus 11 LyGGAIt~~ 19 (204)
-.||||.+.
T Consensus 14 ~~GGAI~~~ 22 (27)
T TIGR01376 14 GSGGAIYAT 22 (27)
T ss_pred CcccEEEEe
Confidence 389999875
No 9
>PF08786 DUF1795: Domain of unknown function (DUF1795); InterPro: IPR014894 This is a bacterial protein of unknown function. It forms an antiparallel beta sheet structure and contains some alpha helical regions. ; PDB: 1TU1_A 3LYD_A.
Probab=18.81 E-value=91 Score=23.55 Aligned_cols=28 Identities=32% Similarity=0.508 Sum_probs=17.8
Q ss_pred EeecCCCCccccCccccCCcceEEecCCC---CceEEEE
Q 028780 17 SSSFPHRFQDVSNIRQVPDHQEVFVDPSR---DESLIFE 52 (204)
Q Consensus 17 t~~lP~~fiDvS~lRqVPDnQEVFv~~~~---d~SiIiE 52 (204)
+..||.+|.|-|. -||+.++. ..|++|=
T Consensus 3 ~~~lP~~~~D~t~--------nv~~~~~~~~~~~slvIs 33 (130)
T PF08786_consen 3 SLTLPDGWQDRTM--------NVLVLPDSGGSGPSLVIS 33 (130)
T ss_dssp EEEEETTSEE--B--------EEEEE--BTTB-EEEEEE
T ss_pred eEeCCCcceeceE--------EEEEccCCCCCcceEEEE
Confidence 4678999999874 78987775 5677763
No 10
>PF07824 Chaperone_III: Type III secretion chaperone domain; InterPro: IPR013095 Type III secretion chaperones are involved in delivering virulence effector proteins from bacterial pathogens directly into eukaryotic cells. The chaperones may prevent aggregation and degradation of their substrates, may target the effector to the secretion apparatus, and may ensure a secretion-component unfolded conformation of their specific substrate. One member of this family, SigE (O30917 from SWISSPROT) forms homodimers in crystal. The monomers have a novel fold with an alpha-beta(3)-alpha-beta(2)-alpha topology []. ; PDB: 1K3S_B.
Probab=17.45 E-value=1.1e+02 Score=23.56 Aligned_cols=18 Identities=44% Similarity=0.547 Sum_probs=12.4
Q ss_pred CCcceEEEEEEEEEcCCCCe
Q 028780 122 EAQNIVKVYLANLRLKEVGT 141 (204)
Q Consensus 122 ~~~~~V~i~l~liRL~~~~T 141 (204)
++.+++ .+|+.|||+.+|
T Consensus 72 Da~~t~--L~Al~rlp~~s~ 89 (112)
T PF07824_consen 72 DAENTV--LLALYRLPQTST 89 (112)
T ss_dssp -TTSSE--EEEEEEEETTS-
T ss_pred cCCCce--eeeeeecCCCCc
Confidence 455654 899999998654
Done!