Conserved Domains and Related Protein Families
Conserved Domains Detected by RPS-BLAST
Original result of RPS-BLAST against CDD database part I
ID Alignment Graph Length
Definition
E-value Query 100
PLN03107 159
PLN03107, PLN03107, eukaryotic translation initiat
1e-61 PTZ00328 166
PTZ00328, PTZ00328, eukaryotic initiation factor 5
1e-32 TIGR00037 130
TIGR00037, eIF_5A, translation elongation factor I
3e-30 PRK03999 129
PRK03999, PRK03999, translation initiation factor
6e-19 COG0231 131
COG0231, Efp, Translation elongation factor P (EF-
6e-18
>gnl|CDD|215580 PLN03107, PLN03107, eukaryotic translation initiation factor 5A; Provisional
Back Hide alignment and domain information
Score = 184 bits (468), Expect = 1e-61
Identities = 78/83 (93%), Positives = 79/83 (95%), Gaps = 1/83 (1%)
Query: 1 MSDEEHHFESKADAGASKTFPQQAGTIRKNGYIVIKGRPCKVVEVSTSKTGKHGHAKCHF 60
MSDEEHHFES ADAGASKT+PQQAGTIRK GYIVIKGRPCKVVEVSTSKTGKHGHAKCHF
Sbjct: 1 MSDEEHHFES-ADAGASKTYPQQAGTIRKGGYIVIKGRPCKVVEVSTSKTGKHGHAKCHF 59
Query: 61 VGIDIFNGKKLEDIVPSSHNCDV 83
V IDIF GKKLEDIVPSSHNCDV
Sbjct: 60 VAIDIFTGKKLEDIVPSSHNCDV 82
>gnl|CDD|140349 PTZ00328, PTZ00328, eukaryotic initiation factor 5a; Provisional
Back Show alignment and domain information
Score = 110 bits (277), Expect = 1e-32
Identities = 47/84 (55%), Positives = 59/84 (70%), Gaps = 1/84 (1%)
Query: 1 MSDEEHHFESKADA-GASKTFPQQAGTIRKNGYIVIKGRPCKVVEVSTSKTGKHGHAKCH 59
MSDE+H F + ASKT+P AG ++K GY+ I GRPCKV+++S SKTGKHGHAK
Sbjct: 1 MSDEDHDFSHQGGGDNASKTYPLPAGALKKGGYVCINGRPCKVIDLSVSKTGKHGHAKVS 60
Query: 60 FVGIDIFNGKKLEDIVPSSHNCDV 83
V DIF G +LED PS+HN +V
Sbjct: 61 IVATDIFTGNRLEDQAPSTHNVEV 84
>gnl|CDD|129148 TIGR00037, eIF_5A, translation elongation factor IF5A
Back Show alignment and domain information
Score = 103 bits (259), Expect = 3e-30
Identities = 38/70 (54%), Positives = 46/70 (65%)
Query: 16 ASKTFPQQAGTIRKNGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVGIDIFNGKKLEDIV 75
S T Q +R GY+VI GRPCK+V++STSK GKHGHAK V I IF GKKLE +
Sbjct: 1 MSATKQVQVSALRVGGYVVIDGRPCKIVDISTSKPGKHGHAKARVVAIGIFTGKKLEFVS 60
Query: 76 PSSHNCDVLI 85
PS+ +V I
Sbjct: 61 PSTSKVEVPI 70
Recent work (2009) changed the view of eIF5A in eukaryotes and aIF5A in archaea, hypusine-containing proteins, from translation initiation factor to translation elongation factor [Protein synthesis, Translation factors]. Length = 130
>gnl|CDD|235193 PRK03999, PRK03999, translation initiation factor IF-5A; Provisional
Back Show alignment and domain information
Score = 74.9 bits (185), Expect = 6e-19
Identities = 28/65 (43%), Positives = 39/65 (60%)
Query: 21 PQQAGTIRKNGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVGIDIFNGKKLEDIVPSSHN 80
+ G +++ Y+VI G PCK+VE+S SK GKHG AK V I IF+G+K + P
Sbjct: 5 QVEVGELKEGSYVVIDGEPCKIVEISKSKPGKHGSAKARIVAIGIFDGQKRSLVQPVDAK 64
Query: 81 CDVLI 85
+V I
Sbjct: 65 VEVPI 69
>gnl|CDD|223309 COG0231, Efp, Translation elongation factor P (EF-P)/translation initiation factor 5A (eIF-5A) [Translation, ribosomal structure and biogenesis]
Back Show alignment and domain information
Score = 72.2 bits (178), Expect = 6e-18
Identities = 24/65 (36%), Positives = 31/65 (47%), Gaps = 1/65 (1%)
Query: 19 TFPQQAGTIRKNGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVGIDIFNGKKLEDIVPSS 78
A +RK YIVI G P VVE+S K GK G A ++F GKK+E +
Sbjct: 1 MAMISASELRKGLYIVIDGEPYVVVEISHVKPGKGG-AFVRVKLKNLFTGKKVEKTFKAD 59
Query: 79 HNCDV 83
+V
Sbjct: 60 DKVEV 64
Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
ID Alignment Graph Length
Definition
Probability Query
100
PLN03107 159
eukaryotic translation initiation factor 5A; Provi
100.0 PTZ00328 166
eukaryotic initiation factor 5a; Provisional
100.0 KOG3271 156
consensus Translation initiation factor 5A (eIF-5A
99.97 TIGR00037 130
eIF_5A translation initiation factor eIF-5A. Obser
99.96 PRK03999 129
translation initiation factor IF-5A; Provisional
99.92 COG0231 131
Efp Translation elongation factor P (EF-P)/transla
99.92 PRK12426 185
elongation factor P; Provisional
99.88 PF08207 58
EFP_N: Elongation factor P (EF-P) KOW-like domain;
99.88 PRK14578 187
elongation factor P; Provisional
99.86 PRK00529 186
elongation factor P; Validated
99.86 PRK04542 189
elongation factor P; Provisional
99.86 TIGR00038 184
efp translation elongation factor P. function: inv
99.85 TIGR02178 186
yeiP elongation factor P-like protein YeiP. This m
99.82 COG1499 355
NMD3 NMD protein affecting ribosome stability and
90.08 PF08605 131
Rad9_Rad53_bind: Fungal Rad9-like Rad53-binding; I
84.74
>PLN03107 eukaryotic translation initiation factor 5A; Provisional
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Probab=100.00 E-value=2.3e-34 Score=209.26 Aligned_cols=91 Identities=85% Similarity=1.256 Sum_probs=87.9
Q ss_pred CCcccccccccccCCceeeeEEeccccccceEEEEcCeeEEEEEeeeecCCCCcccEEEEEEeEccCCcEEEEEEcCCCc
Q 034251 1 MSDEEHHFESKADAGASKTFPQQAGTIRKNGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVGIDIFNGKKLEDIVPSSHN 80 (100)
Q Consensus 1 m~~~~~~~~~~~~~~~s~t~~i~~~~LkkG~~I~i~g~Pc~Vve~~~~KpGKhG~A~vr~k~knL~TG~~~E~t~~s~~~ 80 (100)
|++++++|| ++|||||.|+|+++++||+|++|+++|+||+|++++|+||||||+|++|++++||+||+++|.+|+++++
T Consensus 1 ~~~~~~~~~-~~~~~~~~t~m~~~~~lKkG~~I~~~g~pc~V~e~~~~KpGKHG~A~vr~k~knl~TG~k~e~~f~s~~~ 79 (159)
T PLN03107 1 MSDEEHHFE-SADAGASKTYPQQAGTIRKGGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVAIDIFTGKKLEDIVPSSHN 79 (159)
T ss_pred CCccccccc-ccccCCCceeccchHhccCCCEEEECCEEEEEEEEEecCCCCCCcEEEEEEEEECCCCCEEEEEecCCCE
Confidence 788667899 9999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeeEEEEeecc
Q 034251 81 CDVLIYASLSAF 92 (100)
Q Consensus 81 ve~~~le~~~~~ 92 (100)
+++|+|+++++-
T Consensus 80 ve~~~ve~~~~q 91 (159)
T PLN03107 80 CDVPHVNRTDYQ 91 (159)
T ss_pred EEEEEEEEEEEE
Confidence 999999999863
>PTZ00328 eukaryotic initiation factor 5a; Provisional
Back Show alignment and domain information
Probab=100.00 E-value=8.6e-34 Score=207.52 Aligned_cols=91 Identities=52% Similarity=0.913 Sum_probs=86.8
Q ss_pred CCcccccccc-cccCCceeeeEEeccccccceEEEEcCeeEEEEEeeeecCCCCcccEEEEEEeEccCCcEEEEEEcCCC
Q 034251 1 MSDEEHHFES-KADAGASKTFPQQAGTIRKNGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVGIDIFNGKKLEDIVPSSH 79 (100)
Q Consensus 1 m~~~~~~~~~-~~~~~~s~t~~i~~~~LkkG~~I~i~g~Pc~Vve~~~~KpGKhG~A~vr~k~knL~TG~~~E~t~~s~~ 79 (100)
|||++++|+. +++||+|.|||++|++||+|.||+|+|+||+|++++++||||||+||+|+.++|||||+++|+.+|+++
T Consensus 1 m~d~~~~f~~~~~~~gas~t~p~q~~~LkkG~yvvIkGrPCKIveistSKtGKHGhAK~~ivaidIFTgkK~edi~Ps~h 80 (166)
T PTZ00328 1 MSDEDHDFSHQGGGDNASKTYPLPAGALKKGGYVCINGRPCKVIDLSVSKTGKHGHAKVSIVATDIFTGNRLEDQAPSTH 80 (166)
T ss_pred CCccccccccccCCCCCCceecccccceeECCEEEECCeeeEEEEEecCCCCcCCceEEEEEEEecCCCCEEeeecCccc
Confidence 8887778994 599999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cEEeeEEEEeec
Q 034251 80 NCDVLIYASLSA 91 (100)
Q Consensus 80 ~ve~~~le~~~~ 91 (100)
++++|+++|+..
T Consensus 81 nv~VP~V~r~~y 92 (166)
T PTZ00328 81 NVEVPFVKTFTY 92 (166)
T ss_pred eeEeeeEEeeEE
Confidence 999999998753
>KOG3271 consensus Translation initiation factor 5A (eIF-5A) [Translation, ribosomal structure and biogenesis]
Back Show alignment and domain information
Probab=99.97 E-value=2.4e-31 Score=191.16 Aligned_cols=91 Identities=67% Similarity=1.033 Sum_probs=88.6
Q ss_pred CCcccccccccccCCceeeeEEeccccccceEEEEcCeeEEEEEeeeecCCCCcccEEEEEEeEccCCcEEEEEEcCCCc
Q 034251 1 MSDEEHHFESKADAGASKTFPQQAGTIRKNGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVGIDIFNGKKLEDIVPSSHN 80 (100)
Q Consensus 1 m~~~~~~~~~~~~~~~s~t~~i~~~~LkkG~~I~i~g~Pc~Vve~~~~KpGKhG~A~vr~k~knL~TG~~~E~t~~s~~~ 80 (100)
|++++++|+ ++|||+|.|||++++.|||+.+|+++|+||+|+|++++|.||||+|+|++.++|||||+++|..+||.|+
T Consensus 1 Msd~~~~Fe-~~dagas~t~p~q~salrkNG~vviK~rpckivEmSTsKtGKHGhAKvh~vaidifTgkk~edI~psthn 79 (156)
T KOG3271|consen 1 MSDEEHRFE-TGDAGASATYPMQCSALRKNGHVVIKGRPCKIVEMSTSKTGKHGHAKVHIVAIDIFTGKKLEDICPSTHN 79 (156)
T ss_pred CCccccccc-cCCCcccccccchhhheeeCCEEEEcCCCceEEEeecccCCcCCceEEEEEEEEeecCcccccccCCCCc
Confidence 899998999 9999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeeEEEEeecc
Q 034251 81 CDVLIYASLSAF 92 (100)
Q Consensus 81 ve~~~le~~~~~ 92 (100)
+++|+++|.+.-
T Consensus 80 ~dVp~vkr~~yq 91 (156)
T KOG3271|consen 80 MDVPVVKRVDYQ 91 (156)
T ss_pred cccCccccceeE
Confidence 999999998753
>TIGR00037 eIF_5A translation initiation factor eIF-5A
Back Show alignment and domain information
Probab=99.96 E-value=3.9e-29 Score=176.41 Aligned_cols=77 Identities=49% Similarity=0.755 Sum_probs=74.6
Q ss_pred ceeeeEEeccccccceEEEEcCeeEEEEEeeeecCCCCcccEEEEEEeEccCCcEEEEEEcCCCcEEeeEEEEeecc
Q 034251 16 ASKTFPQQAGTIRKNGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVGIDIFNGKKLEDIVPSSHNCDVLIYASLSAF 92 (100)
Q Consensus 16 ~s~t~~i~~~~LkkG~~I~i~g~Pc~Vve~~~~KpGKhG~A~vr~k~knL~TG~~~E~t~~s~~~ve~~~le~~~~~ 92 (100)
||.|+|+++++||+|++|+++|+||+|++++|+||||||+|+||+++|||+||+++|++|+|++++|+|+|+++++-
T Consensus 1 ~~~~~~~~~~~irkG~~i~~~g~p~~V~e~~~~kpGkhG~A~vr~k~knl~tG~~~e~~f~s~~~ve~~~ve~~~~q 77 (130)
T TIGR00037 1 MSATKQVQVSALRVGGYVVIDGRPCKIVDISTSKPGKHGHAKARVVAIGIFTGKKLEFVSPSTSKVEVPIVDRREYQ 77 (130)
T ss_pred CCcceeccHHHccCCCEEEECCEEEEEEEEEecCCCCCCcEEEEEEEEECCCCCEEEEEECCCCEEEEeEEEEEEEE
Confidence 57799999999999999999999999999999999999999999999999999999999999999999999999863
Observed in eukaryotes and archaea.
>PRK03999 translation initiation factor IF-5A; Provisional
Back Show alignment and domain information
Probab=99.92 E-value=3.4e-25 Score=156.17 Aligned_cols=74 Identities=38% Similarity=0.674 Sum_probs=71.3
Q ss_pred eeEEeccccccceEEEEcCeeEEEEEeeeecCCCCcccEEEEEEeEccCCcEEEEEEcCCCcEEeeEEEEeecc
Q 034251 19 TFPQQAGTIRKNGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVGIDIFNGKKLEDIVPSSHNCDVLIYASLSAF 92 (100)
Q Consensus 19 t~~i~~~~LkkG~~I~i~g~Pc~Vve~~~~KpGKhG~A~vr~k~knL~TG~~~E~t~~s~~~ve~~~le~~~~~ 92 (100)
-.|+++++||+|++|+++|+||+|++++|+||||||+|++|++++||+||+++|.+|++++++|.|.|+++++-
T Consensus 3 ~~~~~~~~lrkG~~i~~~g~p~~V~~~~~~kpGkhg~a~vr~k~knL~tG~~~e~~~~s~d~~e~~~ve~~~~q 76 (129)
T PRK03999 3 KKQVEVGELKEGSYVVIDGEPCKIVEISKSKPGKHGSAKARIVAIGIFDGQKRSLVQPVDAKVEVPIIEKKTGQ 76 (129)
T ss_pred cccccHHHccCCCEEEECCEEEEEEEEEeecCCCCCcEEEEEEEEECCCCCEEEEEecCCCceeeeeEEeEEEE
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999863
>COG0231 Efp Translation elongation factor P (EF-P)/translation initiation factor 5A (eIF-5A) [Translation, ribosomal structure and biogenesis]
Back Show alignment and domain information
Probab=99.92 E-value=1e-24 Score=154.22 Aligned_cols=72 Identities=36% Similarity=0.461 Sum_probs=68.6
Q ss_pred eEEeccccccceEEEEcCeeEEEEEeeeecCCCCcccEEEEEEeEccCCcEEEEEEcCCCcEEeeEEEEeecc
Q 034251 20 FPQQAGTIRKNGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVGIDIFNGKKLEDIVPSSHNCDVLIYASLSAF 92 (100)
Q Consensus 20 ~~i~~~~LkkG~~I~i~g~Pc~Vve~~~~KpGKhG~A~vr~k~knL~TG~~~E~t~~s~~~ve~~~le~~~~~ 92 (100)
.++++++||+|++|++||+||+|++++|+|||||| |++|++++||+||+++|.+|++++++|+|.|+++.|-
T Consensus 2 ~~i~~~~lr~G~~i~~dg~~~~V~~~~~~KpGKg~-a~vrvk~k~l~tG~~~e~~f~~~~kve~a~ie~~~~q 73 (131)
T COG0231 2 AMISASELRKGLYIVIDGEPYVVVEISHVKPGKGG-AFVRVKLKNLFTGKKVEKTFKADDKVEVAIVERKTAQ 73 (131)
T ss_pred ceeeHHHccCCCEEEECCeEEEEEEEEEccCCCCC-cEEEEEEEEccCCCEEEEEEcCCCEEEEeEEeeeeEE
Confidence 57899999999999999999999999999999955 5999999999999999999999999999999999874
>PRK12426 elongation factor P; Provisional
Back Show alignment and domain information
Probab=99.88 E-value=2.3e-22 Score=149.48 Aligned_cols=71 Identities=14% Similarity=0.025 Sum_probs=68.3
Q ss_pred EEeccccccceEEEEcCeeEEEEEeeeecCCCCcccEEEEEEeEccCCcEEEEEEcCCCcEEeeEEEEeecc
Q 034251 21 PQQAGTIRKNGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVGIDIFNGKKLEDIVPSSHNCDVLIYASLSAF 92 (100)
Q Consensus 21 ~i~~~~LkkG~~I~i~g~Pc~Vve~~~~KpGKhG~A~vr~k~knL~TG~~~E~t~~s~~~ve~~~le~~~~~ 92 (100)
++++++||+|+.|+++|+||.|++++|+|||| |+|++|+|+|||.||++.|++|+++|++|.++|++++|-
T Consensus 1 m~~~~dik~G~~i~~~g~~~~V~~~~h~kPGk-g~A~vr~klknl~tG~~~e~tf~s~ek~e~a~ve~~~~q 71 (185)
T PRK12426 1 MVLSSQLSVGMFISTKDGLYKVVSVSKVTGPK-GETFIKVSLQAADSDVVVERNFKAGQEVKEAQFEPRNLE 71 (185)
T ss_pred CCchhhcCCCCEEEECCEEEEEEEEEEecCCC-CceEEEEEEEEcCCCCeEEEEECCCCeEEEeEEEeeEeE
Confidence 36789999999999999999999999999999 999999999999999999999999999999999999973
>PF08207 EFP_N: Elongation factor P (EF-P) KOW-like domain; InterPro: IPR013185 This entry represents the N-terminal domain of homologues of elongation factor P, which probably are translation initiation factors
Back Show alignment and domain information
Probab=99.88 E-value=3.3e-22 Score=123.71 Aligned_cols=58 Identities=29% Similarity=0.379 Sum_probs=53.3
Q ss_pred eccccccceEEEEcCeeEEEEEeeeecCCCCcccEEEEEEeEccCCcEEEEEEcCCCcE
Q 034251 23 QAGTIRKNGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVGIDIFNGKKLEDIVPSSHNC 81 (100)
Q Consensus 23 ~~~~LkkG~~I~i~g~Pc~Vve~~~~KpGKhG~A~vr~k~knL~TG~~~E~t~~s~~~v 81 (100)
++++||+|++|+++|+||.|++++|++||| |+|++|+++|||.||++.|.+|+++|++
T Consensus 1 sa~dlr~G~~i~~~g~~~~V~~~~~~k~gk-g~a~v~~klknl~tG~~~e~tf~s~d~v 58 (58)
T PF08207_consen 1 SASDLRKGMVIEIDGEPYVVLDFQHVKPGK-GGAFVRVKLKNLRTGSKVEKTFRSGDKV 58 (58)
T ss_dssp EGGG--TTSEEEETTEEEEEEEEEEECCTT-SSSEEEEEEEETTTTEEEEEEEETT-EE
T ss_pred CHHHccCCCEEEECCEEEEEEEEEEECCCC-CCeEEEEEEEECCCCCEEEEEECCCCcC
Confidence 479999999999999999999999999999 9999999999999999999999999985
; PDB: 3TRE_A 1YBY_A 1IZ6_B 1UEB_B 3HUW_V 3HUY_V 3A5Z_H 3OYY_B.
>PRK14578 elongation factor P; Provisional
Back Show alignment and domain information
Probab=99.86 E-value=2e-21 Score=144.58 Aligned_cols=72 Identities=14% Similarity=0.233 Sum_probs=67.5
Q ss_pred EEeccccccceEEEEcCeeEEEEEeeeecCCCC-cccEEEEEEeEccCCcEEEEEEcCCCcEEeeEEEEeecc
Q 034251 21 PQQAGTIRKNGYIVIKGRPCKVVEVSTSKTGKH-GHAKCHFVGIDIFNGKKLEDIVPSSHNCDVLIYASLSAF 92 (100)
Q Consensus 21 ~i~~~~LkkG~~I~i~g~Pc~Vve~~~~KpGKh-G~A~vr~k~knL~TG~~~E~t~~s~~~ve~~~le~~~~~ 92 (100)
++.+++||+|++|++||+||+|++++|+|||++ |+|++|+|+|||.||++.|.+|++++++|.++|++++|-
T Consensus 1 m~~~~dik~G~~i~~dg~~~~V~~~~~~kpg~~g~~a~vr~klknl~tG~~~e~tf~s~d~ve~a~ve~~~~q 73 (187)
T PRK14578 1 MYTTSDFKKGLVIQLDGAPCLLLDVTFQSPSARGANTMVKTKYRNLLTGQVLEKTFRSGDKVEEADFERHKGQ 73 (187)
T ss_pred CCchhhcCCCCEEEECCEEEEEEEEEEEcCCCCCCceEEEEEEEECCCCCEEEEEECCCCEEEEeEEEEeEeE
Confidence 357899999999999999999999999999985 467999999999999999999999999999999999973
>PRK00529 elongation factor P; Validated
Back Show alignment and domain information
Probab=99.86 E-value=2.1e-21 Score=143.51 Aligned_cols=71 Identities=23% Similarity=0.238 Sum_probs=68.2
Q ss_pred EEeccccccceEEEEcCeeEEEEEeeeecCCCCcccEEEEEEeEccCCcEEEEEEcCCCcEEeeEEEEeecc
Q 034251 21 PQQAGTIRKNGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVGIDIFNGKKLEDIVPSSHNCDVLIYASLSAF 92 (100)
Q Consensus 21 ~i~~~~LkkG~~I~i~g~Pc~Vve~~~~KpGKhG~A~vr~k~knL~TG~~~E~t~~s~~~ve~~~le~~~~~ 92 (100)
++++++||+|++|+++|+||+|++++|+|||| |+|++|++++||+||+++|.+|+++++++.|.++++++-
T Consensus 1 ~~~a~~ik~G~~I~~~g~~~~V~~~~~~kpGk-g~A~vrvk~knL~tG~~~e~~f~~~e~ve~~~ve~~~~q 71 (186)
T PRK00529 1 MISANDLRKGLVIEIDGEPYVVLEFEHVKPGK-GQAFVRTKLKNLLTGSVVEKTFKAGDKVERADVERREMQ 71 (186)
T ss_pred CcchhhcCCCCEEEECCEEEEEEEEEEeeCCC-CceEEEEEEEECCCCCeEEEEeCCCCEEEeccEEeEEEE
Confidence 46899999999999999999999999999999 999999999999999999999999999999999999863
>PRK04542 elongation factor P; Provisional
Back Show alignment and domain information
Probab=99.86 E-value=2.9e-21 Score=143.98 Aligned_cols=72 Identities=17% Similarity=0.189 Sum_probs=67.6
Q ss_pred EEeccccccceEEEEcCeeEEEEEeeeecC-CCCcccEEEEEEeEccCCcEEEEEEcCCCcEEeeEEEEeecc
Q 034251 21 PQQAGTIRKNGYIVIKGRPCKVVEVSTSKT-GKHGHAKCHFVGIDIFNGKKLEDIVPSSHNCDVLIYASLSAF 92 (100)
Q Consensus 21 ~i~~~~LkkG~~I~i~g~Pc~Vve~~~~Kp-GKhG~A~vr~k~knL~TG~~~E~t~~s~~~ve~~~le~~~~~ 92 (100)
++++++||+|+.|+++|+||+|++++|+|| ||+|+|++|+|+|||.||++.|++|+|+|++|.++|++++|-
T Consensus 1 mi~~~dik~G~~i~~~g~~~~V~~~~h~kp~Gkg~~a~vr~klknl~tG~~~e~tfrs~ekve~a~~~~~~~q 73 (189)
T PRK04542 1 MPKANEIKKGMVVEYNGKLLLVKDIDRQSPSGRGGATLYKMRFYDVRTGLKVEERFKGDDILDTVDLTRRPVT 73 (189)
T ss_pred CCchhhcCCCCEEEECCEEEEEEEEEEECCCCCCcceEEEEEEEEcCCCCeEEEEECCCCeEEEEEEEEeEeE
Confidence 467899999999999999999999999999 794467999999999999999999999999999999999973
>TIGR00038 efp translation elongation factor P
Back Show alignment and domain information
Probab=99.85 E-value=4.9e-21 Score=141.42 Aligned_cols=70 Identities=26% Similarity=0.291 Sum_probs=67.2
Q ss_pred EeccccccceEEEEcCeeEEEEEeeeecCCCCcccEEEEEEeEccCCcEEEEEEcCCCcEEeeEEEEeecc
Q 034251 22 QQAGTIRKNGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVGIDIFNGKKLEDIVPSSHNCDVLIYASLSAF 92 (100)
Q Consensus 22 i~~~~LkkG~~I~i~g~Pc~Vve~~~~KpGKhG~A~vr~k~knL~TG~~~E~t~~s~~~ve~~~le~~~~~ 92 (100)
+.+++||+|++|+++|+||+|++++|+|||| |+|++|++++||+||+++|++|+++++++.+.++++++-
T Consensus 1 ~~a~~ik~G~~I~~~g~~~~V~~~~~~kpGk-g~A~~rvk~knL~tG~~~e~~f~~~~kve~~~~e~~~~q 70 (184)
T TIGR00038 1 ISANDLRKGLVIELDGEPYVVLEFEHVKPGK-GQAFVRVKLKNLLTGKVLEKTFRSGEKVEKADVEEREMQ 70 (184)
T ss_pred CchhhccCCCEEEECCEEEEEEEEEEeeCCC-CceEEEEEEEECCCCCEEEEEeCCCCEEEcccEEeEEEE
Confidence 4689999999999999999999999999999 999999999999999999999999999999999999873
function: involved in peptide bond synthesis. stimulate efficient translation and peptide-bond synthesis on native or reconstituted 70S ribosomes in vitro. probably functions indirectly by altering the affinity of the ribosome for aminoacyl-tRNA, thus increasing their reactivity as acceptors for peptidyl transferase (by similarity). The trusted cutoff of this model is set high enough to exclude members of TIGR02178, an EFP-like protein of certain Gammaproteobacteria.
>TIGR02178 yeiP elongation factor P-like protein YeiP
Back Show alignment and domain information
Probab=99.82 E-value=6e-20 Score=136.63 Aligned_cols=69 Identities=17% Similarity=0.257 Sum_probs=65.0
Q ss_pred ccccccceEEEEcCeeEEEEEeeeecCCCCccc-EEEEEEeEccCCcEEEEEEcCCCcEEeeEEEEeecc
Q 034251 24 AGTIRKNGYIVIKGRPCKVVEVSTSKTGKHGHA-KCHFVGIDIFNGKKLEDIVPSSHNCDVLIYASLSAF 92 (100)
Q Consensus 24 ~~~LkkG~~I~i~g~Pc~Vve~~~~KpGKhG~A-~vr~k~knL~TG~~~E~t~~s~~~ve~~~le~~~~~ 92 (100)
+++||+|+.|+++|+||+|++++|+|||+.|+| ++|+++|||.||++.|++|+++|++|.++|++++|-
T Consensus 2 ~~~lk~G~~i~~dg~~~~V~~~~~~kpg~~ga~~~vk~klknl~tG~~~e~tf~s~e~ve~a~le~~~~q 71 (186)
T TIGR02178 2 ASEMKKGSIVEYNGKTLLIKDIQRSSPQGRGGNVRYKFRMYDVPTGSKVEERFKADDMLDTVELLRREAS 71 (186)
T ss_pred cccccCCCEEEECCEEEEEEEEEEECCCCCCCcEEEEEEEeEcCCCCeEEEEECCCCeEEEEEEEEeEeE
Confidence 689999999999999999999999999885555 899999999999999999999999999999999973
This model represents the family of Escherichia coli protein YeiP, a close homolog of elongation factor P (TIGR00038) and probably itself a translation factor. Member of this family are found only in some Gammaproteobacteria, including E. coli and Vibrio cholerae.
>COG1499 NMD3 NMD protein affecting ribosome stability and mRNA decay [Translation, ribosomal structure and biogenesis]
Back Show alignment and domain information
Probab=90.08 E-value=1.3 Score=36.14 Aligned_cols=62 Identities=18% Similarity=0.239 Sum_probs=47.1
Q ss_pred cccCCceeeeEEeccccccceEEEEcCeeEEEEEeeeecCCCCcccEEEEEEeEccCCcEEEEEEcCCCcEE
Q 034251 11 KADAGASKTFPQQAGTIRKNGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVGIDIFNGKKLEDIVPSSHNCD 82 (100)
Q Consensus 11 ~~~~~~s~t~~i~~~~LkkG~~I~i~g~Pc~Vve~~~~KpGKhG~A~vr~k~knL~TG~~~E~t~~s~~~ve 82 (100)
+|-.-.-.||.+..-++++|+.|.++|..+.++. +-|+ .+.++||.|++..+.+......-+
T Consensus 231 tgk~~yR~t~Svrip~~~~gDiV~~~~~~~~~v~----~~~~------~~~~~dl~t~e~~~~~~~~~~~~~ 292 (355)
T COG1499 231 TGKRVYRFTYSVRIPEFRPGDIVSVRGRQLVLVR----SIGK------GIVVLDLETGEPVEITWSVYKRNE 292 (355)
T ss_pred CCceEEEEEEEEECCCCCCCCEEEECCCeEEEEE----EecC------ceEEEecccCCccccChhhcccCc
Confidence 3444456789999999999999999997776663 3366 488999999988877775555555
>PF08605 Rad9_Rad53_bind: Fungal Rad9-like Rad53-binding; InterPro: IPR013914 In Saccharomyces cerevisiae (Baker s yeast), the Rad9 is a key adaptor protein in DNA damage checkpoint pathways
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Probab=84.74 E-value=2.8 Score=29.77 Aligned_cols=42 Identities=12% Similarity=0.087 Sum_probs=32.0
Q ss_pred EeccccccceEEEEcCe--eEEEEEeeee--cCC-----CCcccEEEEEEe
Q 034251 22 QQAGTIRKNGYIVIKGR--PCKVVEVSTS--KTG-----KHGHAKCHFVGI 63 (100)
Q Consensus 22 i~~~~LkkG~~I~i~g~--Pc~Vve~~~~--KpG-----KhG~A~vr~k~k 63 (100)
+-.=|||.|+.|.+++. +|.|+-.++. .+. -+|.+.|.+|=+
T Consensus 55 v~~LDlRIGD~Vkv~~~k~~yiV~Gl~~~~~~~~~~i~cirGy~tV~Lk~~ 105 (131)
T PF08605_consen 55 VKYLDLRIGDTVKVDGPKVTYIVVGLECKISSEDNIITCIRGYNTVYLKRR 105 (131)
T ss_pred EeeeeeecCCEEEECCCCccEEEEEeeecCCCCCCceEEcCCCcEEEEEEc
Confidence 45569999999999998 8999988877 223 138888887533
DNA damage induces Rad9 phosphorylation, and Rad53 specifically associates with this region of Rad9, when phosphorylated, via the Rad53 IPR000253 from INTERPRO domain []. There is no clear higher eukaryotic ortholog to Rad9.
Homologous Structure Domains
Structure Domains Detected by RPS-BLAST
Original result of RPS-BLAST against SCOP70(version1.75) database
ID Alignment Graph Length
Definition
E-value Query 100
d1x6oa1 68
b.34.5.2 (A:19-86) Eukaryotic initiation translati
3e-35 d1khia1 76
b.34.5.2 (A:27-102) Woronin body major protein (He
1e-28 d2eifa1 73
b.34.5.2 (A:1-73) Eukaryotic initiation translatio
2e-23 d1iz6a1 69
b.34.5.2 (A:2-70) Eukaryotic initiation translatio
3e-22 d1bkba1 71
b.34.5.2 (A:4-74) Eukaryotic initiation translatio
3e-21 d1ueba1 63
b.34.5.2 (A:1-63) Elongation factor P N-terminal d
0.001
>d1x6oa1 b.34.5.2 (A:19-86) Eukaryotic initiation translation factor 5a (eIF5a) {Leishmania infantum [TaxId: 5671]} Length = 68
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class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: eIF5a N-terminal domain-like
domain: Eukaryotic initiation translation factor 5a (eIF5a)
species: Leishmania infantum [TaxId: 5671]
Score = 112 bits (283), Expect = 3e-35
Identities = 39/66 (59%), Positives = 49/66 (74%)
Query: 18 KTFPQQAGTIRKNGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVGIDIFNGKKLEDIVPS 77
KT+P AG ++K GY+ I GRPCKV+++S SKTGKHGHAK V DIF G +LED PS
Sbjct: 1 KTYPLAAGALKKGGYVCINGRPCKVIDLSVSKTGKHGHAKVSIVATDIFTGNRLEDQAPS 60
Query: 78 SHNCDV 83
+HN +V
Sbjct: 61 THNVEV 66
>d1khia1 b.34.5.2 (A:27-102) Woronin body major protein (Hex1) {Filamentous fungi (Neurospora crassa) [TaxId: 5141]} Length = 76
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class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: eIF5a N-terminal domain-like
domain: Woronin body major protein (Hex1)
species: Filamentous fungi (Neurospora crassa) [TaxId: 5141]
Score = 96.4 bits (240), Expect = 1e-28
Identities = 21/67 (31%), Positives = 37/67 (55%), Gaps = 6/67 (8%)
Query: 14 AGASKTFPQQAGTIRKNGYIVIKGRPCKVVEVSTS-KTGKHGHAKCHFVGIDIFNGKKLE 72
AS+T IR ++++GRPC+V+ +STS TG+H + +G+D+F + E
Sbjct: 1 GSASQTVTIPCHHIRLGDILILQGRPCQVIRISTSAATGQHRY-----LGVDLFTKQLHE 55
Query: 73 DIVPSSH 79
+ S+
Sbjct: 56 ESSFVSN 62
>d2eifa1 b.34.5.2 (A:1-73) Eukaryotic initiation translation factor 5a (eIF5a) {Archaeon Methanococcus jannaschii [TaxId: 2190]} Length = 73
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class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: eIF5a N-terminal domain-like
domain: Eukaryotic initiation translation factor 5a (eIF5a)
species: Archaeon Methanococcus jannaschii [TaxId: 2190]
Score = 83.3 bits (206), Expect = 2e-23
Identities = 28/67 (41%), Positives = 40/67 (59%)
Query: 19 TFPQQAGTIRKNGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVGIDIFNGKKLEDIVPSS 78
T G+++ Y++I G PC++V++S SK GKHG AK VGI IF K E + P+S
Sbjct: 7 TKQVNVGSLKVGQYVMIDGVPCEIVDISVSKPGKHGGAKARVVGIGIFEKVKKEFVAPTS 66
Query: 79 HNCDVLI 85
+V I
Sbjct: 67 SKVEVPI 73
>d1iz6a1 b.34.5.2 (A:2-70) Eukaryotic initiation translation factor 5a (eIF5a) {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Length = 69
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class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: eIF5a N-terminal domain-like
domain: Eukaryotic initiation translation factor 5a (eIF5a)
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]
Score = 79.8 bits (197), Expect = 3e-22
Identities = 23/63 (36%), Positives = 34/63 (53%)
Query: 23 QAGTIRKNGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVGIDIFNGKKLEDIVPSSHNCD 82
Q ++ YI+I PC++V ++ S GKHG AK + IF+GK + P+S D
Sbjct: 7 QVSKLKPGRYIIIDDEPCRIVNITVSSPGKHGSAKARIEAVGIFDGKVRSIVKPTSAEVD 66
Query: 83 VLI 85
V I
Sbjct: 67 VPI 69
>d1bkba1 b.34.5.2 (A:4-74) Eukaryotic initiation translation factor 5a (eIF5a) {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Length = 71
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class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: eIF5a N-terminal domain-like
domain: Eukaryotic initiation translation factor 5a (eIF5a)
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]
Score = 77.6 bits (191), Expect = 3e-21
Identities = 27/65 (41%), Positives = 39/65 (60%)
Query: 19 TFPQQAGTIRKNGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVGIDIFNGKKLEDIVPSS 78
T +AG +++ Y+VI G PC+VVE+ SKTGKHG AK V + +F+G K +P
Sbjct: 6 TKYVEAGELKEGSYVVIDGEPCRVVEIEKSKTGKHGSAKARIVAVGVFDGGKRTLSLPVD 65
Query: 79 HNCDV 83
+V
Sbjct: 66 AQVEV 70
>d1ueba1 b.34.5.2 (A:1-63) Elongation factor P N-terminal domain {Thermus thermophilus HB8 [TaxId: 300852]} Length = 63
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class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: eIF5a N-terminal domain-like
domain: Elongation factor P N-terminal domain
species: Thermus thermophilus HB8 [TaxId: 300852]
Score = 32.3 bits (74), Expect = 0.001
Identities = 12/60 (20%), Positives = 21/60 (35%), Gaps = 1/60 (1%)
Query: 23 QAGTIRKNGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVGIDIFNGKKLEDIVPSSHNCD 82
+R + + G + VE K G+ G AK ++ G +E S +
Sbjct: 3 SVTDLRPGTKVKMDGGLWECVEYQHQKLGR-GGAKVVAKFKNLETGATVERTFNSGEKLE 61
