Query psy14900
Match_columns 245
No_of_seqs 173 out of 222
Neff 4.6
Searched_HMMs 46136
Date Fri Aug 16 23:42:08 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14900.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14900hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4339|consensus 98.7 3.2E-08 6.8E-13 97.3 7.9 111 14-143 369-479 (533)
2 smart00707 RPEL Repeat in Dros 98.6 2.4E-08 5.2E-13 61.9 2.4 25 116-140 1-25 (26)
3 PF02755 RPEL: RPEL repeat; I 98.6 3.4E-08 7.4E-13 61.2 2.3 26 116-141 1-26 (26)
4 KOG4339|consensus 98.5 2.3E-07 4.9E-12 91.3 6.1 73 61-143 369-441 (533)
5 PF02755 RPEL: RPEL repeat; I 98.0 5.7E-06 1.2E-10 51.3 2.5 25 68-92 1-25 (26)
6 smart00707 RPEL Repeat in Dros 97.9 1.1E-05 2.4E-10 50.1 2.4 24 68-91 1-24 (26)
7 cd02410 archeal_CPSF_KH The ar 19.8 52 0.0011 28.3 1.0 19 113-131 30-48 (145)
8 KOG2008|consensus 11.5 2.1E+02 0.0045 28.1 2.7 66 115-180 199-279 (426)
9 PTZ00222 60S ribosomal protein 9.0 3.2E+02 0.007 25.7 3.0 32 1-32 70-101 (263)
10 KOG1492|consensus 8.9 1.7E+02 0.0037 27.4 1.2 32 57-92 82-113 (377)
No 1
>KOG4339|consensus
Probab=98.72 E-value=3.2e-08 Score=97.25 Aligned_cols=111 Identities=23% Similarity=0.297 Sum_probs=84.5
Q ss_pred HHHhhhhhHHHHHhhhcccccccccCCCCCCCCCCCCCcchHHHHHHHHHhhhhhHHHHHHhcCCChHHHHHhccccCCC
Q psy14900 14 LERAKTGDLLKAFSKKLVSLKRLSAPRIPSSEKTLKTPPAFHAQRRQLERAKTGDLLKAKIQARPARTELVRQHILLGDE 93 (245)
Q Consensus 14 Lerakt~d~Lk~kl~~Rp~~~eL~~~~i~~~~~~~k~apslqaqqk~LeRar~~D~Lk~kL~~RP~~~ELV~~nIL~~s~ 93 (245)
+-+-...|.|--||++||+..+|...|| + +--..-..+.-|+..+.+|.++|+.||.++||+++|||+..
T Consensus 369 a~Kv~RKDtLAlKL~nRPsKqELe~rNI---l------pr~tDeErkEiRqqIG~kLiRRLSqRPT~EELEqRNILK~k- 438 (533)
T KOG4339|consen 369 ASKVARKDTLALKLDNRPSKQELEDRNI---L------PRTTDEERKEIRQQIGTKLIRRLSQRPTPEELEQRNILKRK- 438 (533)
T ss_pred HHHHhhhhhhhhhhcCCCchhhhhhccc---c------cccCHHHHHHHHHHHHHHHHHHhhcCCCHHHHHHhhhhccc-
Confidence 3455678899999999999999999999 3 11112233455778999999999999999999999999875
Q ss_pred CCCCCCcchHHHHHHhHHhhHhhHHhhhhhcCCChhhHHhhCCCCCCchH
Q psy14900 94 GVGFVDPSLAEKQRRLSKCRLADQLNDQLAHRPGPLELIKKNILHTEEPI 143 (245)
Q Consensus 94 ~~s~vaPsLqa~q~kLkra~L~D~Ln~kL~~RP~P~ELV~knIL~~d~~v 143 (245)
. ...=|... +-+|.+ |-.||+.||+..||.++-||..+.-|
T Consensus 439 --n--~~~eqe~k-~E~k~r----L~RKLs~RPTV~EL~~rkiirFndYv 479 (533)
T KOG4339|consen 439 --N--EAEEQEAK-EEKKRR----LLRKLSFRPTVAELKERKIIRFNDYV 479 (533)
T ss_pred --C--hhhHHHHH-HHHHHH----HHHhhccCccHHHHhhhheeecccee
Confidence 1 22223333 333444 77899999999999999999887655
No 2
>smart00707 RPEL Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2.
Probab=98.61 E-value=2.4e-08 Score=61.93 Aligned_cols=25 Identities=44% Similarity=0.591 Sum_probs=23.2
Q ss_pred hHHhhhhhcCCChhhHHhhCCCCCC
Q psy14900 116 DQLNDQLAHRPGPLELIKKNILHTE 140 (245)
Q Consensus 116 D~Ln~kL~~RP~P~ELV~knIL~~d 140 (245)
|.|++||++||+|+|||++|||+..
T Consensus 1 d~L~~kl~~RP~~eeLv~r~IL~~~ 25 (26)
T smart00707 1 DVLNRKLSQRPTREELEERNILKEL 25 (26)
T ss_pred ChHHHHHHcCCCHHHHHHccCCCCC
Confidence 6799999999999999999999864
No 3
>PF02755 RPEL: RPEL repeat; InterPro: IPR004018 The RPEL repeat is named after four conserved amino acids it contains. The function of the RPEL repeat is unknown however it might be a DNA binding repeat based on the observation that Q9VZY2 from SWISSPROT contains a SAP domain that is also implicated in DNA binding.; PDB: 2YJE_M 2V52_M 2YJF_M 2V51_E.
Probab=98.57 E-value=3.4e-08 Score=61.20 Aligned_cols=26 Identities=42% Similarity=0.744 Sum_probs=19.8
Q ss_pred hHHhhhhhcCCChhhHHhhCCCCCCc
Q psy14900 116 DQLNDQLAHRPGPLELIKKNILHTEE 141 (245)
Q Consensus 116 D~Ln~kL~~RP~P~ELV~knIL~~d~ 141 (245)
|.|+.||++||+++|||++|||+.++
T Consensus 1 D~L~~kl~~RP~~~eLv~r~IL~~~~ 26 (26)
T PF02755_consen 1 DSLERKLSQRPTREELVERNILKEDE 26 (26)
T ss_dssp HHHHHHHHT---HHHHHHTTSS-SS-
T ss_pred ChHHHHHhcCCCHHHHHHcCCCCCCC
Confidence 68999999999999999999999764
No 4
>KOG4339|consensus
Probab=98.47 E-value=2.3e-07 Score=91.35 Aligned_cols=73 Identities=27% Similarity=0.467 Sum_probs=62.0
Q ss_pred HHHhhhhhHHHHHHhcCCChHHHHHhccccCCCCCCCCCcchHHHHHHhHHhhHhhHHhhhhhcCCChhhHHhhCCCCCC
Q psy14900 61 LERAKTGDLLKAKIQARPARTELVRQHILLGDEGVGFVDPSLAEKQRRLSKCRLADQLNDQLAHRPGPLELIKKNILHTE 140 (245)
Q Consensus 61 LeRar~~D~Lk~kL~~RP~~~ELV~~nIL~~s~~~s~vaPsLqa~q~kLkra~L~D~Ln~kL~~RP~P~ELV~knIL~~d 140 (245)
+-|-...|+|--||.+||+..||..+|||+-. + -...+.-|+++...|.++|++||+++||+++|||...
T Consensus 369 a~Kv~RKDtLAlKL~nRPsKqELe~rNIlpr~---t-------DeErkEiRqqIG~kLiRRLSqRPT~EELEqRNILK~k 438 (533)
T KOG4339|consen 369 ASKVARKDTLALKLDNRPSKQELEDRNILPRT---T-------DEERKEIRQQIGTKLIRRLSQRPTPEELEQRNILKRK 438 (533)
T ss_pred HHHHhhhhhhhhhhcCCCchhhhhhccccccc---C-------HHHHHHHHHHHHHHHHHHhhcCCCHHHHHHhhhhccc
Confidence 44456678999999999999999999999864 1 1355677999999999999999999999999999876
Q ss_pred chH
Q psy14900 141 EPI 143 (245)
Q Consensus 141 ~~v 143 (245)
...
T Consensus 439 n~~ 441 (533)
T KOG4339|consen 439 NEA 441 (533)
T ss_pred Chh
Confidence 554
No 5
>PF02755 RPEL: RPEL repeat; InterPro: IPR004018 The RPEL repeat is named after four conserved amino acids it contains. The function of the RPEL repeat is unknown however it might be a DNA binding repeat based on the observation that Q9VZY2 from SWISSPROT contains a SAP domain that is also implicated in DNA binding.; PDB: 2YJE_M 2V52_M 2YJF_M 2V51_E.
Probab=97.97 E-value=5.7e-06 Score=51.31 Aligned_cols=25 Identities=48% Similarity=0.728 Sum_probs=19.5
Q ss_pred hHHHHHHhcCCChHHHHHhccccCC
Q psy14900 68 DLLKAKIQARPARTELVRQHILLGD 92 (245)
Q Consensus 68 D~Lk~kL~~RP~~~ELV~~nIL~~s 92 (245)
|.|++||++||+++|||++|||+.+
T Consensus 1 D~L~~kl~~RP~~~eLv~r~IL~~~ 25 (26)
T PF02755_consen 1 DSLERKLSQRPTREELVERNILKED 25 (26)
T ss_dssp HHHHHHHHT---HHHHHHTTSS-SS
T ss_pred ChHHHHHhcCCCHHHHHHcCCCCCC
Confidence 6899999999999999999999864
No 6
>smart00707 RPEL Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2.
Probab=97.86 E-value=1.1e-05 Score=50.12 Aligned_cols=24 Identities=42% Similarity=0.668 Sum_probs=22.5
Q ss_pred hHHHHHHhcCCChHHHHHhccccC
Q psy14900 68 DLLKAKIQARPARTELVRQHILLG 91 (245)
Q Consensus 68 D~Lk~kL~~RP~~~ELV~~nIL~~ 91 (245)
|.|++||++||++.|||++|||+.
T Consensus 1 d~L~~kl~~RP~~eeLv~r~IL~~ 24 (26)
T smart00707 1 DVLNRKLSQRPTREELEERNILKE 24 (26)
T ss_pred ChHHHHHHcCCCHHHHHHccCCCC
Confidence 679999999999999999999975
No 7
>cd02410 archeal_CPSF_KH The archaeal cleavage and polyadenylation specificity factor (CPSF) contains an N-terminal K homology RNA-binding domain (KH). The archeal CPSFs are predicted to be metal-dependent RNases belonging to the beta-CASP family, a subgroup enzymes within the metallo-beta-lactamase fold. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH domains are known to bind single-stranded RNA or DNA and are found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=19.75 E-value=52 Score=28.25 Aligned_cols=19 Identities=37% Similarity=0.606 Sum_probs=16.8
Q ss_pred hHhhHHhhhhhcCCChhhH
Q psy14900 113 RLADQLNDQLAHRPGPLEL 131 (245)
Q Consensus 113 ~L~D~Ln~kL~~RP~P~EL 131 (245)
.|+.+|.++|..||.|.-|
T Consensus 30 ~lAk~lrKRIvvR~dps~l 48 (145)
T cd02410 30 DLAKDLRKRIVIRPDPSVL 48 (145)
T ss_pred HHHHHHhceEEEcCChhhc
Confidence 5788999999999999865
No 8
>KOG2008|consensus
Probab=11.47 E-value=2.1e+02 Score=28.10 Aligned_cols=66 Identities=23% Similarity=0.301 Sum_probs=30.2
Q ss_pred hhHHhhhhhcCCC-------hhhHHhhCCCCCCch-HHHHHHh-c---cccccccc--cCCCCCCCCCCCC-CCCCCCCC
Q psy14900 115 ADQLNDQLAHRPG-------PLELIKKNILHTEEP-IERAVKE-G---VIAFRATC--EGQSSRPEPPDHY-MTLDDDSR 179 (245)
Q Consensus 115 ~D~Ln~kL~~RP~-------P~ELV~knIL~~d~~-v~~alk~-n---~~~f~~~~--~~~~~~pk~~dsy-~afeEDS~ 179 (245)
.+.|...+..+-+ -+|-|..-|=...++ ..++... + ...|+..- -|.-+.|.-.|-| .+||+||+
T Consensus 199 v~~Leaev~~~K~~Y~~slrnLE~ISd~IHeeRssqs~~apssd~e~~~s~~~s~e~lpg~~p~p~~~~~~~~~~~dds~ 278 (426)
T KOG2008|consen 199 VDDLEAEVTLAKGEYKMSLRNLEMISDEIHEERSSQSAMAPSSDGEGAESSSTSVEDLPGSKPEPDAISVASEAFEDDSC 278 (426)
T ss_pred HHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhhhhhhccCCCcccccccccccchhhCCCCCCCCchhhhhhhhcccchh
Confidence 3555555555544 355555555544444 3334421 1 23342111 2222223333333 37999998
Q ss_pred C
Q psy14900 180 S 180 (245)
Q Consensus 180 s 180 (245)
+
T Consensus 279 ~ 279 (426)
T KOG2008|consen 279 S 279 (426)
T ss_pred h
Confidence 4
No 9
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=9.00 E-value=3.2e+02 Score=25.69 Aligned_cols=32 Identities=34% Similarity=0.533 Sum_probs=27.3
Q ss_pred CCCChhhHHHHHHHHHhhhhhHHHHHhhhccc
Q psy14900 1 LKTPPAFHAQRRQLERAKTGDLLKAFSKKLVS 32 (245)
Q Consensus 1 lk~~~afheqrk~Lerakt~d~Lk~kl~~Rp~ 32 (245)
||.||+++++..-|.++.+...++.--+-||+
T Consensus 70 lKvPp~inqF~~~ldk~~a~~lfkll~KYrPE 101 (263)
T PTZ00222 70 LKVPPALNQFTKVLDRSSRNELLKLIKKYAPE 101 (263)
T ss_pred cCCCchHhhhhhhhhHhhHHHHHHHHHHcCCc
Confidence 68999999999999999998888776666666
No 10
>KOG1492|consensus
Probab=8.91 E-value=1.7e+02 Score=27.37 Aligned_cols=32 Identities=25% Similarity=0.435 Sum_probs=24.6
Q ss_pred HHHHHHHhhhhhHHHHHHhcCCChHHHHHhccccCC
Q psy14900 57 QRRQLERAKTGDLLKAKIQARPARTELVRQHILLGD 92 (245)
Q Consensus 57 qqk~LeRar~~D~Lk~kL~~RP~~~ELV~~nIL~~s 92 (245)
.-++-+++.+.|.+.+| .....|+.+|||..+
T Consensus 82 ankepekqstsdyvsrk----nrhmqlikknilehd 113 (377)
T KOG1492|consen 82 ANKEPEKQSTSDYVSRK----NRHMQLIKKNILEHD 113 (377)
T ss_pred cccCcccccchhhhhhc----hHHHHHHHHHHHHhH
Confidence 45677888899988655 335789999999765
Done!