Query 041607
Match_columns 92
No_of_seqs 93 out of 95
Neff 2.5
Searched_HMMs 46136
Date Fri Mar 29 08:55:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041607.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041607hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00285 PBD P21-Rho-binding 99.4 8.9E-14 1.9E-18 80.3 1.8 33 53-85 1-34 (36)
2 cd00132 CRIB PAK (p21 activate 99.3 1.2E-13 2.7E-18 81.7 0.0 36 51-86 1-37 (42)
3 cd01093 CRIB_PAK_like PAK (p21 99.3 3.9E-13 8.4E-18 80.8 1.1 34 52-85 2-36 (46)
4 PF00786 PBD: P21-Rho-binding 99.3 2.3E-13 5.1E-18 84.4 -0.2 36 52-87 1-37 (59)
5 KOG4270 GTPase-activator prote 98.6 6.6E-09 1.4E-13 88.9 -0.2 46 46-91 94-142 (577)
6 KOG0578 p21-activated serine/t 97.7 1.3E-05 2.9E-10 68.9 0.8 34 50-83 25-59 (550)
7 KOG3671 Actin regulatory prote 97.2 0.00011 2.4E-09 63.7 1.2 39 45-83 228-268 (569)
8 PLN02705 beta-amylase 59.8 6.4 0.00014 35.7 2.0 14 11-24 67-80 (681)
9 COG3553 Uncharacterized protei 26.3 26 0.00056 24.9 0.4 19 60-78 22-43 (96)
10 KOG3074 Transcriptional regula 25.3 40 0.00086 27.6 1.3 19 10-28 3-21 (263)
11 TIGR01911 HesB_rel_seleno HesB 23.0 58 0.0013 21.4 1.5 12 6-17 30-41 (92)
12 PRK09504 sufA iron-sulfur clus 21.2 66 0.0014 22.1 1.6 14 3-16 40-53 (122)
No 1
>smart00285 PBD P21-Rho-binding domain. Small domains that bind Cdc42p- and/or Rho-like small GTPases. Also known as the Cdc42/Rac interactive binding (CRIB).
Probab=99.40 E-value=8.9e-14 Score=80.33 Aligned_cols=33 Identities=42% Similarity=0.791 Sum_probs=30.0
Q ss_pred ecCCcccceeeeeeeeC-CCCccCCCccccccCC
Q 041607 53 IGCPTNVRHITHATFDR-FNDFLGLPVEFEVEVP 85 (92)
Q Consensus 53 IG~PTDVrHVaHVgfD~-~nGF~GLP~Ele~evp 85 (92)
||.||||+|++|||||+ ..+|.|||++|+..+.
T Consensus 1 IS~P~nf~H~~HVg~d~~~~~f~glp~ew~~~l~ 34 (36)
T smart00285 1 ISTPTDFKHIAHVGFDGQTGEFTGLPTEWESLLK 34 (36)
T ss_pred CCCCCCCcEEEEeeECCCCCccCCCCHHHHHHhc
Confidence 89999999999999998 6789999999987653
No 2
>cd00132 CRIB PAK (p21 activated kinase) Binding Domain (PBD), binds Cdc42p- and/or Rho-like small GTPases; also known as the Cdc42/Rac interactive binding (CRIB) motif; has been shown to inhibit transcriptional activation and cell transformation mediated by the Ras-Rac pathway. CRIB-containing effector proteins are functionally diverse and include serine/threonine kinases, tyrosine kinases, actin-binding proteins, and adapter molecules.
Probab=99.35 E-value=1.2e-13 Score=81.66 Aligned_cols=36 Identities=31% Similarity=0.464 Sum_probs=30.6
Q ss_pred ceecCCcccceeeeeeeeCCCCcc-CCCccccccCCC
Q 041607 51 MEIGCPTNVRHITHATFDRFNDFL-GLPVEFEVEVPC 86 (92)
Q Consensus 51 MeIG~PTDVrHVaHVgfD~~nGF~-GLP~Ele~evp~ 86 (92)
|+||.||||+||+|||||+...|. ++|++|+..+..
T Consensus 1 ~~IS~Ptnf~H~~HvG~d~~g~~~~~~p~~w~~l~~~ 37 (42)
T cd00132 1 MEISTPTDFKHISHVGWDGVGFDGANLPPDLQSLFQT 37 (42)
T ss_pred CcccCCCCcCcccccCCCCCCccccCCCHHHHHHHHH
Confidence 689999999999999999983344 899999887654
No 3
>cd01093 CRIB_PAK_like PAK (p21 activated kinase) Binding Domain (PBD), binds Cdc42p- and/or Rho-like small GTPases; also known as the Cdc42/Rac interactive binding (CRIB) motif; has been shown to inhibit transcriptional activation and cell transformation mediated by the Ras-Rac pathway. This subgroup of CRIB/PBD-domains is found N-terminal of Serine/Threonine kinase domains in PAK and PAK-like proteins.
Probab=99.32 E-value=3.9e-13 Score=80.81 Aligned_cols=34 Identities=41% Similarity=0.707 Sum_probs=30.1
Q ss_pred eecCCcccceeeeeeeeCCC-CccCCCccccccCC
Q 041607 52 EIGCPTNVRHITHATFDRFN-DFLGLPVEFEVEVP 85 (92)
Q Consensus 52 eIG~PTDVrHVaHVgfD~~n-GF~GLP~Ele~evp 85 (92)
+||.||||+|+.||+||+.+ +|.|||++|+..+.
T Consensus 2 ~IS~P~n~~H~~Hv~~d~~~g~f~glP~eW~~ll~ 36 (46)
T cd01093 2 EISSPTNFKHRVHVGFDPQTGEFTGLPEEWQRLLK 36 (46)
T ss_pred ccCCCCCceeeeEeeECCCCCcccCCCHHHHHHHH
Confidence 69999999999999999955 59999999987653
No 4
>PF00786 PBD: P21-Rho-binding domain; InterPro: IPR000095 The molecular bases of the versatile functions of Rho-like GTPases are still unknown. Small domains that bind Cdc42p- and/or Rho-like small GTPases. Also known as the Cdc42/Rac interactive binding (CRIB). The Cdc42/Rac interactive binding (CRIB) region has been shown to inhibit transcriptional activation and cell transformation mediated by the Ras-Rac pathway []. In fission yeast pak1+ encodes a protein kinase that interacts with Cdc42p and is involved in the control of cell polarity and mating [].; GO: 0005515 protein binding; PDB: 2OV2_O 1EES_B 2ODB_B 1E0A_B 2QME_I 1F3M_B 3PCS_H 1T84_A 2K42_A 1EJ5_A ....
Probab=99.31 E-value=2.3e-13 Score=84.43 Aligned_cols=36 Identities=36% Similarity=0.659 Sum_probs=26.7
Q ss_pred eecCCcccceeeeeeeeCCCC-ccCCCccccccCCCC
Q 041607 52 EIGCPTNVRHITHATFDRFND-FLGLPVEFEVEVPCR 87 (92)
Q Consensus 52 eIG~PTDVrHVaHVgfD~~nG-F~GLP~Ele~evp~~ 87 (92)
+||.|+||+|++||+||+.++ |.|||++|+..++..
T Consensus 1 ~Is~P~nf~H~~HVg~d~~~g~~~glp~ew~~~l~~~ 37 (59)
T PF00786_consen 1 DISNPTNFKHVAHVGWDPNTGGFTGLPPEWEKLLKSS 37 (59)
T ss_dssp TB---EEEEEEEEEEEETTTTEEES--HHHHHHHHSC
T ss_pred CCCCCCCCcceeeeccCCCccccccCCHHHHhhcccc
Confidence 599999999999999999887 569999999876543
No 5
>KOG4270 consensus GTPase-activator protein [Signal transduction mechanisms]
Probab=98.61 E-value=6.6e-09 Score=88.86 Aligned_cols=46 Identities=48% Similarity=0.693 Sum_probs=43.6
Q ss_pred hhcccceecCCcccceeeeeeeeCCCC---ccCCCccccccCCCCCCCC
Q 041607 46 SAVHNMEIGCPTNVRHITHATFDRFND---FLGLPVEFEVEVPCRVPSA 91 (92)
Q Consensus 46 ~~~~~MeIG~PTDVrHVaHVgfD~~nG---F~GLP~Ele~evp~~~psa 91 (92)
+++.+|+|++|+|+.|++|++||++.+ |+++|.|+++++||++|++
T Consensus 94 ~e~~~~kie~~~d~~~~~~~~f~~~~~~~~f~~~~~e~q~~~~rrals~ 142 (577)
T KOG4270|consen 94 EEECGMKIEQPTDQRHADHVTFDRKEGEYLFLGLPVEFQPDYHRRALSA 142 (577)
T ss_pred HHhhcCccccCcchhhhhhhhhhhhcchhhhccchhhhccccccccccc
Confidence 456889999999999999999999999 9999999999999999986
No 6
>KOG0578 consensus p21-activated serine/threonine protein kinase [Signal transduction mechanisms]
Probab=97.66 E-value=1.3e-05 Score=68.94 Aligned_cols=34 Identities=35% Similarity=0.666 Sum_probs=31.0
Q ss_pred cceecCCcccceeeeeeeeCC-CCccCCCcccccc
Q 041607 50 NMEIGCPTNVRHITHATFDRF-NDFLGLPVEFEVE 83 (92)
Q Consensus 50 ~MeIG~PTDVrHVaHVgfD~~-nGF~GLP~Ele~e 83 (92)
.-+|+.|+||+|.-|||||.. ..|+|||..|+.-
T Consensus 25 ~s~iS~P~nf~h~vHvGfd~~tg~ftGlP~~W~~L 59 (550)
T KOG0578|consen 25 KSEISSPSNFEHRVHVGFDPVTGEFTGLPKQWQRL 59 (550)
T ss_pred CCccCCCCCccceeecccCCCcccccCCcHHHHHH
Confidence 579999999999999999995 6799999999874
No 7
>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]
Probab=97.24 E-value=0.00011 Score=63.72 Aligned_cols=39 Identities=28% Similarity=0.413 Sum_probs=32.5
Q ss_pred hhhcccceecCCcccceeeeeeeeCCCCccCCC--cccccc
Q 041607 45 ISAVHNMEIGCPTNVRHITHATFDRFNDFLGLP--VEFEVE 83 (92)
Q Consensus 45 ~~~~~~MeIG~PTDVrHVaHVgfD~~nGF~GLP--~Ele~e 83 (92)
.+..++-+|+.||+|.|+.||+||..+||..+| .++.+.
T Consensus 228 ksk~tk~disaPtnf~h~~hVgwd~~~gf~~~~~p~~~dp~ 268 (569)
T KOG3671|consen 228 KSKITKADISAPTNFPHIPHVGWDEQVGFDSAPAPNNNDPP 268 (569)
T ss_pred ccccccccCCCCCCCccccccCCCcCCCcccCCCCCCCChh
Confidence 455578999999999999999999999999877 554443
No 8
>PLN02705 beta-amylase
Probab=59.76 E-value=6.4 Score=35.66 Aligned_cols=14 Identities=50% Similarity=1.101 Sum_probs=5.4
Q ss_pred CccCCCCCCCCCch
Q 041607 11 GGCAGGDGGMGRRQ 24 (92)
Q Consensus 11 ggcgg~~g~~~~~~ 24 (92)
||.|||.++++++.
T Consensus 67 ~~~~~~~~~~~~~~ 80 (681)
T PLN02705 67 SGGGGGGGGKGKRE 80 (681)
T ss_pred CCCCCCCCCCCCCc
Confidence 33333334444443
No 9
>COG3553 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.33 E-value=26 Score=24.92 Aligned_cols=19 Identities=37% Similarity=0.686 Sum_probs=16.1
Q ss_pred ceeee---eeeeCCCCccCCCc
Q 041607 60 RHITH---ATFDRFNDFLGLPV 78 (92)
Q Consensus 60 rHVaH---VgfD~~nGF~GLP~ 78 (92)
||-+| |.||+..|+.-||+
T Consensus 22 kHwahKf~ve~~p~~g~idl~~ 43 (96)
T COG3553 22 KHWAHKFPVEFDPTHGTIDLPV 43 (96)
T ss_pred HHhhccCCceECCCcceeecCc
Confidence 56666 89999999999996
No 10
>KOG3074 consensus Transcriptional regulator of the PUR family, single-stranded-DNA-binding [Transcription]
Probab=25.31 E-value=40 Score=27.60 Aligned_cols=19 Identities=32% Similarity=0.353 Sum_probs=9.0
Q ss_pred CCccCCCCCCCCCchhHHH
Q 041607 10 GGGCAGGDGGMGRRQKERE 28 (92)
Q Consensus 10 gggcgg~~g~~~~~~~~~~ 28 (92)
||.|||+...++++++.++
T Consensus 3 gg~~~g~~~~gGgGG~~~~ 21 (263)
T KOG3074|consen 3 GGRGGGGAVTGGGGGGGGE 21 (263)
T ss_pred CCCCCCCCCcCCCCCccch
Confidence 3447665444444433433
No 11
>TIGR01911 HesB_rel_seleno HesB-like selenoprotein. This model represents a family of small proteins related to HesB and its close homologs, which are likely to be invovlved in iron-sulfur cluster assembly (See TIGR00049 and pfam01521). Several members are selenoproteins, with a TGA codon and Sec residue that aligns to the conserved Cys of the HesB domain. A variable Cys/Ser/Gly-rich C-terminal region is not included in the seed alignment and model.
Probab=22.99 E-value=58 Score=21.45 Aligned_cols=12 Identities=33% Similarity=0.586 Sum_probs=8.7
Q ss_pred EEecCCccCCCC
Q 041607 6 MMTKGGGCAGGD 17 (92)
Q Consensus 6 ~v~kgggcgg~~ 17 (92)
+--++|||.|-.
T Consensus 30 i~v~~gGCsG~~ 41 (92)
T TIGR01911 30 IHFAGMGCMGPM 41 (92)
T ss_pred EEEeCCCccCcc
Confidence 335789999943
No 12
>PRK09504 sufA iron-sulfur cluster assembly scaffold protein; Provisional
Probab=21.18 E-value=66 Score=22.11 Aligned_cols=14 Identities=43% Similarity=0.684 Sum_probs=10.8
Q ss_pred ceEEEecCCccCCC
Q 041607 3 GLVMMTKGGGCAGG 16 (92)
Q Consensus 3 g~v~v~kgggcgg~ 16 (92)
||-+..++|||.|-
T Consensus 40 ~LRi~v~~gGCsG~ 53 (122)
T PRK09504 40 GVRLGVKQTGCAGF 53 (122)
T ss_pred eEEEEEECCCCCce
Confidence 56667789999883
Done!