Query 029036
Match_columns 200
No_of_seqs 111 out of 190
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 06:27:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029036.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029036hhsearch_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 6E-60 1.3E-64 386.7 16.8 173 9-195 1-173 (173)
2 PF04603 Mog1: Ran-interacting 100.0 9.4E-55 2E-59 345.4 10.1 138 9-147 2-141 (141)
3 KOG3329 RAN guanine nucleotide 100.0 3.9E-49 8.5E-54 317.1 1.5 182 4-195 2-185 (185)
4 PRK11615 hypothetical protein; 75.4 5.9 0.00013 33.0 4.7 48 6-53 40-88 (185)
5 KOG0429 Ubiquitin-conjugating 32.0 24 0.00053 30.5 1.2 36 6-41 56-94 (258)
6 COG5554 NifU Nitrogen fixation 26.1 43 0.00093 23.2 1.4 24 8-35 30-53 (69)
7 TIGR02276 beta_rpt_yvtn 40-res 24.7 81 0.0018 18.3 2.4 16 34-49 1-16 (42)
8 TIGR01376 POMP_repeat Chlamydi 21.5 50 0.0011 18.4 0.9 9 11-19 14-22 (27)
9 PF08786 DUF1795: Domain of un 20.4 77 0.0017 23.9 2.0 28 17-52 3-33 (130)
10 PF02415 Chlam_PMP: Chlamydia 16.5 67 0.0014 18.2 0.7 12 8-19 17-28 (28)
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=6e-60 Score=386.69 Aligned_cols=173 Identities=36% Similarity=0.482 Sum_probs=138.7
Q ss_pred cccccceeEeeCCCCCccccCccccCCcceEeecCCCCceEEEEeeccccCCCchhHHHHHHHhhhcccCCCCceEEeec
Q 029036 9 RPLFGGAISSSFPHRFQDVSNIRQVPDHQEVFVDPSRDESLIFELLDFKLDVGDNGSAAWFLQDLATEQDAEGCTLLEQS 88 (200)
Q Consensus 9 ~~LyGGAIt~~lP~~fiDvS~lRqVPDnQEVFv~~~~d~SiIvElLE~v~~~~d~~A~~~Hf~Dla~~N~a~~~~~i~~~ 88 (200)
++||||||++.||++|+|+|+|||||||||||+++++|+|||||||||+++++|.+|++|||+|||++|++.+ ..+++.
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 6899999999999999999999999999999999999999999999999999999999999999999999876 556676
Q ss_pred eeeccCCCCCCCCCceEEEEEeeecccCccccceEEEEEEEEEcCCCCeeEEEEEeccCcCCCCcccccccCCCCCCCcc
Q 029036 89 GVVEAPGLRYKDLPATVTTAVGQMGRQGREAQNIVKVYLANLRLKEVGTDVLVTAYEPLLINPLSESASTVGAGLPVPAT 168 (200)
Q Consensus 89 ~~~~~~~~~~~~~~~~~~~~~g~~~k~~~~~~~~V~i~l~liRL~~~~TDilIt~NvP~~~~~~s~~~~~~~~~~~~~~~ 168 (200)
.+++....+.... ..+.+.|+|+++ +++++|.||||||||++++||||||+|+|+. .++++..++... +
T Consensus 80 ~~~~~~~~~~~~~--~~~~~~g~q~~~--~~~~~v~i~l~liRL~~~~TDilit~NvP~~---~~~~a~~~~~~~--~-- 148 (173)
T cd00224 80 QPLSLEGTSLTGC--CAWLLSGKQENQ--EVAKDVTIHVALIRLPQYQTDLLLTFNQPPP---DSRSSVGSNLLS--P-- 148 (173)
T ss_pred cccccCcccccce--eeEEeecccccc--cCcCeeEEEEEEEECCCccccEEEEEecCCc---hhhhccCccccc--c--
Confidence 6665433222211 134555655433 4678899999999999999999999999964 333333332211 1
Q ss_pred ccccccHHHHHHHhhheeeEecCCCCC
Q 029036 169 QSGFMQMSEVFKLAVSSFKVNDWSLFG 195 (200)
Q Consensus 169 ~~~~~~~~~~f~~~~~sf~V~D~sLF~ 195 (200)
.+. .++.+|++++.||+|+||||||
T Consensus 149 -~~~-~a~~~~~~~~~sf~V~D~~LFg 173 (173)
T cd00224 149 -ASC-WSLGDFEQLVTSLTLHDPNLFG 173 (173)
T ss_pred -hhh-hHHHHHHHHhhEEEeecccccC
Confidence 111 1578999999999999999996
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=9.4e-55 Score=345.38 Aligned_cols=138 Identities=43% Similarity=0.671 Sum_probs=100.9
Q ss_pred cccccceeEeeCCCCCccccCccccCCcceEeecCCCCceEEEEeeccccCCCchhHHHHHHHhhhcccCCCCceEEeec
Q 029036 9 RPLFGGAISSSFPHRFQDVSNIRQVPDHQEVFVDPSRDESLIFELLDFKLDVGDNGSAAWFLQDLATEQDAEGCTLLEQS 88 (200)
Q Consensus 9 ~~LyGGAIt~~lP~~fiDvS~lRqVPDnQEVFv~~~~d~SiIvElLE~v~~~~d~~A~~~Hf~Dla~~N~a~~~~~i~~~ 88 (200)
++||||||++.||++|+|+|+|||||||||||+++++|+|||||||||+++++|++|++|||+|||++|++.+ ..+++.
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 6899999999999999999999999999999999999999999999999999999999999999999999865 446666
Q ss_pred eeeccCCCCCCCCCceEEEEEeee--cccCccccceEEEEEEEEEcCCCCeeEEEEEeccC
Q 029036 89 GVVEAPGLRYKDLPATVTTAVGQM--GRQGREAQNIVKVYLANLRLKEVGTDVLVTAYEPL 147 (200)
Q Consensus 89 ~~~~~~~~~~~~~~~~~~~~~g~~--~k~~~~~~~~V~i~l~liRL~~~~TDilIt~NvP~ 147 (200)
.+++...++.......++.+.|.| +|++++.++.|.||||||||++++||||||+|+|+
T Consensus 81 ~~l~~~~~~~~~~~~~~~~l~G~q~v~K~~~~~~~~v~i~laliRL~~~~TDilIt~N~Pl 141 (141)
T PF04603_consen 81 EPLSEDQLGLPSECPSASVLVGTQKVAKFNEEAANTVRIYLALIRLPEVSTDILITVNVPL 141 (141)
T ss_dssp -EEEEEEEE-TTTEEEEEEEEEEETTS---TTSS--EEEEEEEEEEGGGTEEEEEEEEEE-
T ss_pred cccccccccCCCCCccEEEEEeccccccccccCCCeEEEEEEEEeCCCCCCeEEEEeccCC
Confidence 666554443222333457788988 78888888999999999999999999999999995
No 3
>KOG3329 consensus RAN guanine nucleotide release factor [Signal transduction mechanisms]
Probab=100.00 E-value=3.9e-49 Score=317.10 Aligned_cols=182 Identities=40% Similarity=0.470 Sum_probs=139.1
Q ss_pred CCCcccccccceeEeeCCCCCccccCccccCCcceEeecCCCCceEEEEeeccccCCCchhHHHHHHHhhhcccCCCCc-
Q 029036 4 DLYSERPLFGGAISSSFPHRFQDVSNIRQVPDHQEVFVDPSRDESLIFELLDFKLDVGDNGSAAWFLQDLATEQDAEGC- 82 (200)
Q Consensus 4 ~~~~~~~LyGGAIt~~lP~~fiDvS~lRqVPDnQEVFv~~~~d~SiIvElLE~v~~~~d~~A~~~Hf~Dla~~N~a~~~- 82 (200)
++.+.++||||||++.+|++|||||+|||||||||||+++++|+|+||||||.++++-|...+.|||+||+..|++...
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 5778899999999999999999999999999999999999999999999999999999999999999999999996532
Q ss_pred eEEeeceeeccCCCCCCCCCceEEEEEeee-cccCccccceEEEEEEEEEcCCCCeeEEEEEeccCcCCCCcccccccCC
Q 029036 83 TLLEQSGVVEAPGLRYKDLPATVTTAVGQM-GRQGREAQNIVKVYLANLRLKEVGTDVLVTAYEPLLINPLSESASTVGA 161 (200)
Q Consensus 83 ~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~-~k~~~~~~~~V~i~l~liRL~~~~TDilIt~NvP~~~~~~s~~~~~~~~ 161 (200)
..+..+..+...+.....+.++....++++ .|+++.....++.+..++||+++.||++||+|.|+. .++++.
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 TESNQSLSWEALGLDGRCQEAWVTSGKMQQVAKENKRVAKDVTLVQVLLRLPQFQTDLVISFNAPLP---DNSSSL---- 154 (185)
T ss_pred hhhccccccccccccchhhhhhhhhhHHHHHHHcCCccchhhhhhhhhhcccccccceEEEecCCCc---chhhcc----
Confidence 222223333333333444455544555555 455443333344555566999999999999999985 222111
Q ss_pred CCCCCccccccccHHHHHHHhhheeeEecCCCCC
Q 029036 162 GLPVPATQSGFMQMSEVFKLAVSSFKVNDWSLFG 195 (200)
Q Consensus 162 ~~~~~~~~~~~~~~~~~f~~~~~sf~V~D~sLF~ 195 (200)
.++.+..++++++.|+++++||+++||+|||
T Consensus 155 ---~pe~~S~~~~~l~~iqq~vrsl~l~D~nlFg 185 (185)
T KOG3329|consen 155 ---GPENQSPAPASLGDIQQLVRSLTLVDPNLFG 185 (185)
T ss_pred ---CcccccccchHHHHHHHHhheEEeccccccC
Confidence 1223445566899999999999999999997
No 4
>PRK11615 hypothetical protein; Provisional
Probab=75.35 E-value=5.9 Score=33.00 Aligned_cols=48 Identities=21% Similarity=0.335 Sum_probs=36.4
Q ss_pred CcccccccceeEeeCCCCCccccCcc-ccCCcceEeecCCCCceEEEEe
Q 029036 6 YSERPLFGGAISSSFPHRFQDVSNIR-QVPDHQEVFVDPSRDESLIFEL 53 (200)
Q Consensus 6 ~~~~~LyGGAIt~~lP~~fiDvS~lR-qVPDnQEVFv~~~~d~SiIvEl 53 (200)
..++.|-+|-++..||++|-|-|.-- ---.|=-||.|+.+.+.+||=+
T Consensus 40 ~q~VSLLdGKl~FtLPag~sdqsgk~Gtq~nn~~vYad~tg~kavIVi~ 88 (185)
T PRK11615 40 GQPVSLLDGKLSFTLPADMSDQSGKLGTQANNMHVYADATGQKAVIVIL 88 (185)
T ss_pred CceeEEeccEEEEEcCCccccccccccccccceEEEEcCCCCEEEEEEe
Confidence 45789999999999999999998542 2222335888988888887653
No 5
>KOG0429 consensus Ubiquitin-conjugating enzyme-related protein Ft1, involved in programmed cell death [Posttranslational modification, protein turnover, chaperones]
Probab=32.00 E-value=24 Score=30.47 Aligned_cols=36 Identities=25% Similarity=0.522 Sum_probs=28.0
Q ss_pred Cccccccccee---EeeCCCCCccccCccccCCcceEee
Q 029036 6 YSERPLFGGAI---SSSFPHRFQDVSNIRQVPDHQEVFV 41 (200)
Q Consensus 6 ~~~~~LyGGAI---t~~lP~~fiDvS~lRqVPDnQEVFv 41 (200)
|...-||||.+ |+.||.+|=|.|++--|==.|+||=
T Consensus 56 Fvr~GiyaggVFRFtIliPdnfPdd~dlPrvvF~q~vfH 94 (258)
T KOG0429|consen 56 FVRKGIYAGGVFRFTILIPDNFPDDSDLPRVVFEQSVFH 94 (258)
T ss_pred EEecccccCceEEEEEEcCccCCCcCCCCeEEeeccccc
Confidence 34567999875 7899999999999966655677774
No 6
>COG5554 NifU Nitrogen fixation protein [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=26.12 E-value=43 Score=23.16 Aligned_cols=24 Identities=25% Similarity=0.627 Sum_probs=16.8
Q ss_pred ccccccceeEeeCCCCCccccCccccCC
Q 029036 8 ERPLFGGAISSSFPHRFQDVSNIRQVPD 35 (200)
Q Consensus 8 ~~~LyGGAIt~~lP~~fiDvS~lRqVPD 35 (200)
+..|+||+|. |-.||-= .||++||
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 4679999998 6666632 3566666
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=24.74 E-value=81 Score=18.29 Aligned_cols=16 Identities=25% Similarity=0.571 Sum_probs=11.2
Q ss_pred CCcceEeecCCCCceE
Q 029036 34 PDHQEVFVDPSRDESL 49 (200)
Q Consensus 34 PDnQEVFv~~~~d~Si 49 (200)
||++.+|+....+.+|
T Consensus 1 pd~~~lyv~~~~~~~v 16 (42)
T TIGR02276 1 PDGTKLYVTNSGSNTV 16 (42)
T ss_pred CCCCEEEEEeCCCCEE
Confidence 8999999966544333
No 8
>TIGR01376 POMP_repeat Chlamydial polymorphic outer membrane protein repeat. This repeat is observed, but is very rare, outside the Chlamydias.
Probab=21.53 E-value=50 Score=18.45 Aligned_cols=9 Identities=44% Similarity=0.486 Sum_probs=7.3
Q ss_pred cccceeEee
Q 029036 11 LFGGAISSS 19 (200)
Q Consensus 11 LyGGAIt~~ 19 (200)
-.||||.+.
T Consensus 14 ~~GGAI~~~ 22 (27)
T TIGR01376 14 GSGGAIYAT 22 (27)
T ss_pred CcccEEEEe
Confidence 489999875
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=20.43 E-value=77 Score=23.88 Aligned_cols=28 Identities=32% Similarity=0.508 Sum_probs=17.8
Q ss_pred EeeCCCCCccccCccccCCcceEeecCCC---CceEEEE
Q 029036 17 SSSFPHRFQDVSNIRQVPDHQEVFVDPSR---DESLIFE 52 (200)
Q Consensus 17 t~~lP~~fiDvS~lRqVPDnQEVFv~~~~---d~SiIvE 52 (200)
+..||.+|.|-|. -||+.++. ..|++|=
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 6677763
No 10
>PF02415 Chlam_PMP: Chlamydia polymorphic membrane protein (Chlamydia_PMP) repeat; InterPro: IPR003368 This repeat is found in polymorphic outer membrane proteins (POMPs) from Chlamydia and other bacteria.
Probab=16.50 E-value=67 Score=18.16 Aligned_cols=12 Identities=33% Similarity=0.277 Sum_probs=8.7
Q ss_pred ccccccceeEee
Q 029036 8 ERPLFGGAISSS 19 (200)
Q Consensus 8 ~~~LyGGAIt~~ 19 (200)
...-.||||-+.
T Consensus 17 ~~~~~GGAIy~~ 28 (28)
T PF02415_consen 17 NAAGGGGAIYAK 28 (28)
T ss_pred cCCCceeEEEeC
Confidence 446789999763
Done!