Conserved Domains and Related Protein Families
Conserved Domains Detected by RPS-BLAST
Original result of RPS-BLAST against CDD database
ID Alignment Graph Length
Definition
E-value Query 80
pfam01008 281
pfam01008, IF-2B, Initiation factor 2 subunit fami
3e-13 COG1184 301
COG1184, GCD2, Translation initiation factor 2B su
5e-09 TIGR00524 303
TIGR00524, eIF-2B_rel, eIF-2B alpha/beta/delta-rel
4e-05 TIGR00511 301
TIGR00511, ribulose_e2b2, ribose-1,5-bisphosphate
8e-05 PRK08535 310
PRK08535, PRK08535, translation initiation factor
2e-04
>gnl|CDD|216240 pfam01008, IF-2B, Initiation factor 2 subunit family
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Score = 61.9 bits (151), Expect = 3e-13
Identities = 24/66 (36%), Positives = 35/66 (53%), Gaps = 3/66 (4%)
Query: 15 VIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRDLV-SKVQVFNPEYDYVPPELV 73
V+A YK P+F D+D F PE+VL + ++V NP +DY PPEL+
Sbjct: 212 FYVVAETYKFDPRFPL--DEDIFIEERDPEEVLYRTGVRIAPENLKVRNPAFDYTPPELI 269
Query: 74 SLFISN 79
+L I+
Sbjct: 270 TLIITE 275
This family includes initiation factor 2B alpha, beta and delta subunits from eukaryotes, initiation factor 2B subunits 1 and 2 from archaebacteria and some proteins of unknown function from prokaryotes. Initiation factor 2 binds to Met-tRNA, GTP and the small ribosomal subunit. Members of this family have also been characterized as 5-methylthioribose- 1-phosphate isomerases, an enzyme of the methionine salvage pathway. The crystal structure of Ypr118w, a non-essential, low-copy number gene product from Saccharomyces cerevisiae, reveals a dimeric protein with two domains and a putative active site cleft. Length = 281
>gnl|CDD|224105 COG1184, GCD2, Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
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Score = 50.4 bits (121), Expect = 5e-09
Identities = 18/65 (27%), Positives = 26/65 (40%), Gaps = 5/65 (7%)
Query: 15 VIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRDLVSKVQVFNPEYDYVPPELVS 74
V+A YK P+ L D P +V E ++V NP +D PPE +
Sbjct: 224 FYVVAESYKFVPKTL--LDTLVEIELRDPLEVAREEPL---GNLKVRNPAFDVTPPEYID 278
Query: 75 LFISN 79
I+
Sbjct: 279 AIITE 283
>gnl|CDD|233008 TIGR00524, eIF-2B_rel, eIF-2B alpha/beta/delta-related uncharacterized proteins
Back Show alignment and domain information
Score = 39.3 bits (92), Expect = 4e-05
Identities = 19/68 (27%), Positives = 27/68 (39%), Gaps = 13/68 (19%)
Query: 17 VLAPLYKLSPQFLCSYDQDTFNNFI-----SPEKVLSYEH-RDLVSKVQVFNPEYDYVPP 70
V APL + C D I PE+V R V+V+NP +D P
Sbjct: 236 VAAPLSTFDTKTSCGED-------IVIEERDPEEVAQVGGVRIAPLGVKVYNPAFDITPH 288
Query: 71 ELVSLFIS 78
+L+ I+
Sbjct: 289 DLIDAIIT 296
This model, eIF-2B_rel, describes half of a superfamily, where the other half consists of eukaryotic translation initiation factor 2B (eIF-2B) subunits alpha, beta, and delta. It is unclear whether the eIF-2B_rel set is monophyletic, or whether they are all more closely related to each other than to any eIF-2B subunit because the eIF-2B clade is highly derived. Members of this branch of the family are all uncharacterized with respect to function and are found in the Archaea, Bacteria, and Eukarya, although a number are described as putative translation intiation factor components. Proteins found by eIF-2B_rel include at least three clades, including a set of uncharacterized eukaryotic proteins, a set found in some but not all Archaea, and a set universal so far among the Archaea and closely related to several uncharacterized bacterial proteins [Unknown function, General]. Length = 303
>gnl|CDD|188057 TIGR00511, ribulose_e2b2, ribose-1,5-bisphosphate isomerase, e2b2 family
Back Show alignment and domain information
Score = 38.6 bits (90), Expect = 8e-05
Identities = 19/69 (27%), Positives = 28/69 (40%), Gaps = 12/69 (17%)
Query: 15 VIVLAPLYKLSPQFLCSYDQDTFNNFI-----SPEKVLSYEHRDLVSKVQVFNPEYDYVP 69
+V A YK P+ + + P +VL E + V+V NP +D P
Sbjct: 220 FMVAAETYKFHPKTI-------TGELVEIEERDPTEVLDEEDLKQLGNVKVRNPAFDVTP 272
Query: 70 PELVSLFIS 78
PE V I+
Sbjct: 273 PEYVDAIIT 281
The delineation of this family was based originally, in part, on a discussion and neighbor-joining phylogenetic study by Kyrpides and Woese of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. Recently, Sato, et al. assigned the function ribulose-1,5 bisphosphate isomerase [Energy metabolism, Other]. Length = 301
>gnl|CDD|236282 PRK08535, PRK08535, translation initiation factor IF-2B subunit delta; Provisional
Back Show alignment and domain information
Score = 37.2 bits (87), Expect = 2e-04
Identities = 20/68 (29%), Positives = 28/68 (41%), Gaps = 12/68 (17%)
Query: 15 VIVLAPLYKLSPQFLCSYDQDTFNNFI-----SPEKVLSYEHRDLVSKVQVFNPEYDYVP 69
+V A YK SP+ L + P +VL E + V+V NP +D P
Sbjct: 225 FMVAAETYKFSPKTL-------LGELVEIEERDPTEVLPEEILAKLPGVKVRNPAFDVTP 277
Query: 70 PELVSLFI 77
PE + I
Sbjct: 278 PEYIDAII 285
Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
ID Alignment Graph Length
Definition
Probability Query
80
KOG1465|consensus 353
99.93 TIGR00511 301
ribulose_e2b2 ribose-1,5-bisphosphate isomerase, e
99.9 PRK08535 310
translation initiation factor IF-2B subunit delta;
99.9 PRK05720 344
mtnA methylthioribose-1-phosphate isomerase; Revie
99.89 TIGR00524 303
eIF-2B_rel eIF-2B alpha/beta/delta-related unchara
99.89 TIGR00512 331
salvage_mtnA S-methyl-5-thioribose-1-phosphate iso
99.89 PF01008 282
IF-2B: Initiation factor 2 subunit family; InterPr
99.88 PRK08334 356
translation initiation factor IF-2B subunit beta;
99.88 COG0182 346
Predicted translation initiation factor 2B subunit
99.87 PRK05772 363
translation initiation factor IF-2B subunit alpha;
99.86 PRK06036 339
translation initiation factor IF-2B subunit alpha;
99.85 COG1184 301
GCD2 Translation initiation factor 2B subunit, eIF
99.85 PRK06371 329
translation initiation factor IF-2B subunit alpha;
99.85 PRK08335 275
translation initiation factor IF-2B subunit alpha;
99.83 KOG1468|consensus 354
99.78 PRK06372 253
translation initiation factor IF-2B subunit delta;
99.76 KOG1467|consensus 556
99.74 KOG1466|consensus 313
99.7
>KOG1465|consensus
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Probab=99.93 E-value=5.1e-27 Score=169.07 Aligned_cols=75 Identities=48% Similarity=0.842 Sum_probs=70.8
Q ss_pred HhhhhccCCCcEEEECccCcccCcCCCCCCCcccccccCCccccccccccccCceeeeccceeecCCCCeeEEeeCC
Q psy2576 4 LGSNLCSPVYQVIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRDLVSKVQVFNPEYDYVPPELVSLFISNT 80 (80)
Q Consensus 4 ~A~~Ak~~~vPv~V~a~~~K~~~~~~~~~~~~~~~e~~~p~~vl~~~~~~~~~~~~v~nP~fD~tPpelIt~~ITe~ 80 (80)
+|++||+|.+|||||||.||+||.||+ +++.++++|+|+++++|.++...+.++++||.|||+||||||+||||.
T Consensus 256 vAlaAk~h~vPv~VlAp~yKLsPlyp~--~~ds~~~f~s~~~il~~~e~~~~~~~~v~nP~fDyvppeLVtLFIsNt 330 (353)
T KOG1465|consen 256 VALAAKHHSVPVIVLAPMYKLSPLYPT--NPDSFHEFRSPSEILPFSEGDPAGRVDVLNPAFDYVPPELVTLFISNT 330 (353)
T ss_pred HHHHHHhcCCcEEEecchhhcCCCCCC--CHHHHHhcCCcccccCccccCcccceeecccccccCChhheeEEEecC
Confidence 577799999999999999999999999 999999999999999999876568899999999999999999999985
>TIGR00511 ribulose_e2b2 ribose-1,5-bisphosphate isomerase, e2b2 family
Back Show alignment and domain information
Probab=99.90 E-value=4.7e-25 Score=158.56 Aligned_cols=76 Identities=24% Similarity=0.308 Sum_probs=69.8
Q ss_pred hHhhhhccCCCcEEEECccCcccCcCCCCCCCcccccccCCccccccccccccCceeeeccceeecCCCCeeEEeeCC
Q psy2576 3 CLGSNLCSPVYQVIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRDLVSKVQVFNPEYDYVPPELVSLFISNT 80 (80)
Q Consensus 3 ~~A~~Ak~~~vPv~V~a~~~K~~~~~~~~~~~~~~~e~~~p~~vl~~~~~~~~~~~~v~nP~fD~tPpelIt~~ITe~ 80 (80)
.+|++||+|+|||||+||+|||++.++. ++...+|.|+|+|++++.+....++++++||.||||||+|||+||||.
T Consensus 208 ~lA~~Ak~~~vPv~V~a~~~K~~~~~~~--~~~~~ie~~~~~ev~~~~~~~~~~~~~v~np~fD~tP~~lIt~iITe~ 283 (301)
T TIGR00511 208 QLALAAREARVPFMVAAETYKFHPKTIT--GELVEIEERDPTEVLDEEDLKQLGAVKVRNPAFDVTPAEYIDAIITEV 283 (301)
T ss_pred HHHHHHHHhCCCEEEEcccceecCCCCC--CCcccccccCHHHhccccCccCCCCccccCcceecCCHHHCCEEEeCC
Confidence 4789999999999999999999999999 999999999999999876544457899999999999999999999995
The delineation of this family was based originally, in part, on a discussion and neighbor-joining phylogenetic study by Kyrpides and Woese of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. Recently, Sato, et al. assigned the function ribulose-1,5 bisphosphate isomerase.
>PRK08535 translation initiation factor IF-2B subunit delta; Provisional
Back Show alignment and domain information
Probab=99.90 E-value=9.5e-25 Score=157.43 Aligned_cols=76 Identities=26% Similarity=0.327 Sum_probs=69.1
Q ss_pred hHhhhhccCCCcEEEECccCcccCcCCCCCCCcccccccCCccccccccccccCceeeeccceeecCCCCeeEEeeCC
Q psy2576 3 CLGSNLCSPVYQVIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRDLVSKVQVFNPEYDYVPPELVSLFISNT 80 (80)
Q Consensus 3 ~~A~~Ak~~~vPv~V~a~~~K~~~~~~~~~~~~~~~e~~~p~~vl~~~~~~~~~~~~v~nP~fD~tPpelIt~~ITe~ 80 (80)
.+|++||+|+|||||+||+|||++.++. +++..+|+|+|.|+++.......++++++||.||||||+|||+||||.
T Consensus 213 ~~A~~Ak~~~vPv~V~a~~~K~~~~~~~--~~~~~ie~~~~~ev~~~~~~~~~~~v~v~np~fD~tP~~lIt~iiTe~ 288 (310)
T PRK08535 213 QIALAAHEARVPFMVAAETYKFSPKTLL--GELVEIEERDPTEVLPEEILAKLPGVKVRNPAFDVTPPEYIDAIITEI 288 (310)
T ss_pred HHHHHHHHhCCCEEEecccceecCCCCC--CCcceecccCHHHhcccccccCCCCceeeccCcccCCHHHCCEEEeCC
Confidence 4789999999999999999999999999 999999999999999874434457899999999999999999999985
>PRK05720 mtnA methylthioribose-1-phosphate isomerase; Reviewed
Back Show alignment and domain information
Probab=99.89 E-value=3.8e-24 Score=156.47 Aligned_cols=76 Identities=21% Similarity=0.216 Sum_probs=69.2
Q ss_pred hHhhhhccCCCcEEEECccCcccCcCCCCCCCcccccccCCcccccccccc-ccCceeeeccceeecCCCCeeEEeeCC
Q psy2576 3 CLGSNLCSPVYQVIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRD-LVSKVQVFNPEYDYVPPELVSLFISNT 80 (80)
Q Consensus 3 ~~A~~Ak~~~vPv~V~a~~~K~~~~~~~~~~~~~~~e~~~p~~vl~~~~~~-~~~~~~v~nP~fD~tPpelIt~~ITe~ 80 (80)
.+|++||+|+|||||+||+|||++..+. ++...+|+|+|+|++++.+.. .+++++++||+||||||+|||+||||.
T Consensus 250 ~lAl~Ak~~~vPfyV~a~~~kfd~~~~~--g~~i~iE~r~~~ev~~~~~~~~~~~~v~v~Np~FDvTP~~lIt~iITE~ 326 (344)
T PRK05720 250 QLAIAAKYHGVPFYVAAPSSTIDLTLAD--GKEIPIEERDPEEVTEVGGVRIAPEGVKVYNPAFDVTPAELITGIITEK 326 (344)
T ss_pred HHHHHHHHhCCCEEEeccccccCcCCCC--CcccccccCCHHHhcccCCcccCCCCceeecccccCCCHHHCCEEEcCC
Confidence 4789999999999999999999999998 888999999999999886543 346899999999999999999999985
>TIGR00524 eIF-2B_rel eIF-2B alpha/beta/delta-related uncharacterized proteins
Back Show alignment and domain information
Probab=99.89 E-value=5.1e-24 Score=153.49 Aligned_cols=76 Identities=24% Similarity=0.320 Sum_probs=68.1
Q ss_pred hHhhhhccCCCcEEEECccCcccCcCCCCCCCcccccccCCcccccccccc-ccCceeeeccceeecCCCCeeEEeeCC
Q psy2576 3 CLGSNLCSPVYQVIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRD-LVSKVQVFNPEYDYVPPELVSLFISNT 80 (80)
Q Consensus 3 ~~A~~Ak~~~vPv~V~a~~~K~~~~~~~~~~~~~~~e~~~p~~vl~~~~~~-~~~~~~v~nP~fD~tPpelIt~~ITe~ 80 (80)
-+|++||+|+|||||+||+|||++.++. +++..+|+|+|+|+..+.+.. .+++++++||.||||||+|||+||||.
T Consensus 222 ~lA~~Ak~~~vPv~V~a~s~K~~~~~~~--g~~i~~e~~~~~ev~~~~~~~~~~~~~~v~np~fD~TP~~lIt~iiTe~ 298 (303)
T TIGR00524 222 QLAVLAKEFRIPFFVAAPLSTFDTKTSC--GEDIVIEERDPEEVAQVGGVRIAPLGVKVYNPAFDITPHDLIDAIITEK 298 (303)
T ss_pred HHHHHHHHhCCCEEEecccccccCCCCC--ccccccccCCHHHhccccCcccCCCCceeecccccCCCHHHCCEEEcCC
Confidence 3789999999999999999999999998 888999999999998775432 246899999999999999999999995
This model, eIF-2B_rel, describes half of a superfamily, where the other half consists of eukaryotic translation initiation factor 2B (eIF-2B) subunits alpha, beta, and delta. It is unclear whether the eIF-2B_rel set is monophyletic, or whether they are all more closely related to each other than to any eIF-2B subunit because the eIF-2B clade is highly derived. Members of this branch of the family are all uncharacterized with respect to function and are found in the Archaea, Bacteria, and Eukarya, although a number are described as putative translation intiation factor components. Proteins found by eIF-2B_rel include at least three clades, including a set of uncharacterized eukaryotic proteins, a set found in some but not all Archaea, and a set universal so far among the Archaea and closely related to several uncharacterized bacterial proteins.
>TIGR00512 salvage_mtnA S-methyl-5-thioribose-1-phosphate isomerase
Back Show alignment and domain information
Probab=99.89 E-value=6.7e-24 Score=154.57 Aligned_cols=76 Identities=20% Similarity=0.184 Sum_probs=68.5
Q ss_pred hHhhhhccCCCcEEEECccCcccCcCCCCCCCcccccccCCcccccccccc-ccCceeeeccceeecCCCCeeEEeeCC
Q psy2576 3 CLGSNLCSPVYQVIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRD-LVSKVQVFNPEYDYVPPELVSLFISNT 80 (80)
Q Consensus 3 ~~A~~Ak~~~vPv~V~a~~~K~~~~~~~~~~~~~~~e~~~p~~vl~~~~~~-~~~~~~v~nP~fD~tPpelIt~~ITe~ 80 (80)
.+|++||+|+|||||+||+|||++.++. +.+..+|+|+|+|+..+.+.. .+++++++||+||||||+|||+||||.
T Consensus 250 ~lA~~Ak~~~vPfyV~a~~~kfd~~~~~--~~~i~iE~r~p~ev~~~~g~~~~~~~~~v~Np~FD~TP~~lIt~iITe~ 326 (331)
T TIGR00512 250 QLAVLAKHHGVPFYVAAPTSTIDLETKD--GAEIPIEERPPEEVTHVGGVRIAPPGIDVWNPAFDVTPAELITGIITEK 326 (331)
T ss_pred HHHHHHHHhCCCEEEeccccccccCCCC--ccccccccCCHHHhcccCCcccCCCCceeecccccCCCHHHCCEEEccC
Confidence 4789999999999999999999999988 888899999999998875432 357899999999999999999999985
The delineation of this family was based in part on a discussion and neighbor-joining phylogenetic study, by Kyrpides and Woese, of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. This clade is now recognized to include the methionine salvage pathway enzyme MtnA.
>PF01008 IF-2B: Initiation factor 2 subunit family; InterPro: IPR000649 Initiation factor 2 binds to Met-tRNA, GTP and the small ribosomal subunit
Back Show alignment and domain information
Probab=99.88 E-value=9.2e-24 Score=148.84 Aligned_cols=76 Identities=37% Similarity=0.645 Sum_probs=62.0
Q ss_pred hHhhhhccCCCcEEEECccCcccCcCCCCCCCcccccccCCcccccccccc-ccCceeeeccceeecCCCCeeEEeeCC
Q psy2576 3 CLGSNLCSPVYQVIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRD-LVSKVQVFNPEYDYVPPELVSLFISNT 80 (80)
Q Consensus 3 ~~A~~Ak~~~vPv~V~a~~~K~~~~~~~~~~~~~~~e~~~p~~vl~~~~~~-~~~~~~v~nP~fD~tPpelIt~~ITe~ 80 (80)
.+|++||+|+|||||+|++|||++.++. ++...+|+++|++++++.+.. ..+++++.||.||+|||+|||+||||+
T Consensus 201 ~~a~~Ak~~~vPv~v~~~~~K~~~~~~~--~~~~~~e~~~~~~v~~~~~~~~~~~~v~~~~p~~D~tP~~~It~~iTe~ 277 (282)
T PF01008_consen 201 QLALAAKEFNVPVYVLAESYKFSPRYPL--DQDSFNELRDPQEVLPFDGSSIVPENVDVINPLFDYTPPDLITLIITEL 277 (282)
T ss_dssp HHHHHHHHTT-EEEEE--GGGBETTCSS--GGGSSS-B--THHHHEETTEEESTTTEEEE-BSEEEEEGGG-SEEEETT
T ss_pred HHHHHHHhhCCCEEEEcccccccccccc--cchhhhhccccceeeccCCcccccceeeccCccEeecCHHHCCEEEcCC
Confidence 4789999999999999999999999999 999999999999999987653 345899999999999999999999995
The eukaryotic translation initiation factor EIF-2B is a complex made up of five different subunits, alpha, beta, gamma, delta and epsilon, and catalyses the exchange of EIF-2-bound GDP for GTP. This family includes initiation factor 2B alpha, beta and delta subunits from eukaryotes; related proteins from archaebacteria and IF-2 from prokaryotes and also contains a subfamily of proteins in eukaryotes, archaeae (e.g. Pyrococcus furiosus), or eubacteria such as Bacillus subtilis and Thermotoga maritima. Many of these proteins were initially annotated as putative translation initiation factors despite the fact that there is no evidence for the requirement of an IF2 recycling factor in prokaryotic translation initiation. Recently, one of these proteins from B. subtilis has been functionally characterised as a 5-methylthioribose-1-phosphate isomerase (MTNA) []. This enzyme participates in the methionine salvage pathway catalysing the isomerisation of 5-methylthioribose-1-phosphate to 5-methylthioribulose-1-phosphate []. The methionine salvage pathway leads to the synthesis of methionine from methylthioadenosine, the end product of the spermidine and spermine anabolism in many species.; GO: 0044237 cellular metabolic process; PDB: 1VB5_A 1T5O_D 3A11_E 3VM6_C 1W2W_A 1T9K_A 3ECS_B 2YRF_A 2YVK_B 2A0U_A ....
>PRK08334 translation initiation factor IF-2B subunit beta; Validated
Back Show alignment and domain information
Probab=99.88 E-value=1.3e-23 Score=154.28 Aligned_cols=76 Identities=21% Similarity=0.304 Sum_probs=69.1
Q ss_pred hHhhhhccCCCcEEEECccCcccCcCCCCCCCcccccccCCccccccccccccCceeeeccceeecCCCCeeEEeeCC
Q psy2576 3 CLGSNLCSPVYQVIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRDLVSKVQVFNPEYDYVPPELVSLFISNT 80 (80)
Q Consensus 3 ~~A~~Ak~~~vPv~V~a~~~K~~~~~~~~~~~~~~~e~~~p~~vl~~~~~~~~~~~~v~nP~fD~tPpelIt~~ITe~ 80 (80)
-+|++||+|+|||||+||++||++.++. +++..+|.|+|+|++++.+....++++++||+||||||+|||+||||.
T Consensus 263 ~lA~~Ak~~~vPfyV~Ap~~t~d~~~~~--~~~i~iE~r~~~ev~~~~~~~~~~~~~v~NPaFDvTPp~lIt~iITE~ 338 (356)
T PRK08334 263 TLAVLAKEHGIPFFTVAPLSTIDMSLKS--GKEIPIEERSPEEVLTCGGCRIAPDVDVYNPAFDVTPHKYLTGIITDR 338 (356)
T ss_pred HHHHHHHHhCCCEEEEcccCccCCCCCC--CcccccccCChHHheeccCcccCCCcceecccccCCCHHHCCEEEcCC
Confidence 3789999999999999999999999887 888899999999999987654445899999999999999999999985
>COG0182 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Back Show alignment and domain information
Probab=99.87 E-value=3.3e-23 Score=150.25 Aligned_cols=75 Identities=25% Similarity=0.321 Sum_probs=69.4
Q ss_pred HhhhhccCCCcEEEECccCcccCcCCCCCCCcccccccCCcccccccccc-ccCceeeeccceeecCCCCeeEEeeCC
Q psy2576 4 LGSNLCSPVYQVIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRD-LVSKVQVFNPEYDYVPPELVSLFISNT 80 (80)
Q Consensus 4 ~A~~Ak~~~vPv~V~a~~~K~~~~~~~~~~~~~~~e~~~p~~vl~~~~~~-~~~~~~v~nP~fD~tPpelIt~~ITe~ 80 (80)
+|++||+|||||||+||+.+|+..... +.++.+|.|+|+||+.+.+.. .++++.++||+||+||++|||+||||.
T Consensus 254 lAvlAk~~gIPFyVaAP~sTiD~~~~~--G~~I~IEER~p~Ev~~v~g~riap~~v~~yNPAFDvTP~~lItgIITEk 329 (346)
T COG0182 254 LAVLAKHHGIPFYVAAPLSTIDFELKS--GEDIPIEERDPEEVLEVGGVRIAPEGVEAYNPAFDVTPPELITGIITEK 329 (346)
T ss_pred HHHHHHHcCCCeEEEcccCccccccCC--CCccceeecCHHHeEeeccEEeCCCCccccCccccCChHHhcceeeecc
Confidence 799999999999999999999999887 889999999999999988754 467899999999999999999999983
>PRK05772 translation initiation factor IF-2B subunit alpha; Provisional
Back Show alignment and domain information
Probab=99.86 E-value=1.1e-22 Score=149.75 Aligned_cols=75 Identities=19% Similarity=0.197 Sum_probs=65.2
Q ss_pred hHhhhhccCCCcEEEECccCcccCcCCCCCCCcccccccCCcccccccccc-ccCceeeeccceeecCCCCeeEEeeCC
Q psy2576 3 CLGSNLCSPVYQVIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRD-LVSKVQVFNPEYDYVPPELVSLFISNT 80 (80)
Q Consensus 3 ~~A~~Ak~~~vPv~V~a~~~K~~~~~~~~~~~~~~~e~~~p~~vl~~~~~~-~~~~~~v~nP~fD~tPpelIt~~ITe~ 80 (80)
-+|++||+|+|||||+||+|||++.++. + +..+|+|+|+|++.+.+.. .+++++++||+||||||+|||+||||.
T Consensus 271 ~lA~~Ak~~~vPfyV~ap~~k~d~~~~~--~-~i~ieer~p~ev~~~~~~~~~~~~~~v~Np~FDvTP~~lIt~iITE~ 346 (363)
T PRK05772 271 KEAVIAHELGIPFYALAPTSTFDLKSDV--N-DVKIEERDPNEVRTIRGVPITPEDVNVYNPVFDVTPPKYITGIITEK 346 (363)
T ss_pred HHHHHHHHhCCCEEEEccccccCccccc--c-ccccccCCHHHhcccCCceecCCCceeeccCccCCCHHHCCEEEccC
Confidence 3799999999999999999999999875 4 4456889999998876543 357899999999999999999999985
>PRK06036 translation initiation factor IF-2B subunit alpha; Provisional
Back Show alignment and domain information
Probab=99.85 E-value=1.9e-22 Score=147.36 Aligned_cols=75 Identities=19% Similarity=0.161 Sum_probs=66.4
Q ss_pred hHhhhhccCCCcEEEECccCcccCcCCCCCCCcccccccCCcccccccccc-ccCceeeeccceeecCCCCeeEEeeCC
Q psy2576 3 CLGSNLCSPVYQVIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRD-LVSKVQVFNPEYDYVPPELVSLFISNT 80 (80)
Q Consensus 3 ~~A~~Ak~~~vPv~V~a~~~K~~~~~~~~~~~~~~~e~~~p~~vl~~~~~~-~~~~~~v~nP~fD~tPpelIt~~ITe~ 80 (80)
-+|++||+|+|||||+||++||++..+. + ++.+|+|+|+|+..+.+.. .+++++++||+||||||+|||+||||.
T Consensus 250 ~lA~~Ak~~~vPfyV~ap~s~~d~~~~~--g-~i~iE~r~~~Ev~~~~~~~~~~~~v~v~Np~FDvTP~~lIt~iITE~ 325 (339)
T PRK06036 250 THSVLAKEHEIPFYVAAPLSTFDFEGWE--G-SVKIEERDPDELRYCGKTQIAPKDVPVYNPAFDATPMENVTAIITEK 325 (339)
T ss_pred HHHHHHHHhCCCEEEEeecCccCCCcCC--C-CcccccCCHHHhccccCcccCCCCceeeCcccccCCHHHCCEEEccC
Confidence 3789999999999999999999998766 6 7789999999998876543 357899999999999999999999985
>COG1184 GCD2 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Back Show alignment and domain information
Probab=99.85 E-value=1.8e-22 Score=145.44 Aligned_cols=72 Identities=26% Similarity=0.334 Sum_probs=65.7
Q ss_pred HhhhhccCCCcEEEECccCcccCcCCCCCCCcccccccCCccccccccccccCceeeeccceeecCCCCeeEEeeCC
Q psy2576 4 LGSNLCSPVYQVIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRDLVSKVQVFNPEYDYVPPELVSLFISNT 80 (80)
Q Consensus 4 ~A~~Ak~~~vPv~V~a~~~K~~~~~~~~~~~~~~~e~~~p~~vl~~~~~~~~~~~~v~nP~fD~tPpelIt~~ITe~ 80 (80)
||++||++++||||||++|||+|.+++ |+...+++|+++++....+. .+.+++||+||+|||+||+++|||+
T Consensus 213 lA~~A~e~~~Pf~v~aesyKf~p~~~~--~~~~~~~~~~~~e~~~~~~~---~~~~v~Np~fD~TP~~~Id~iITe~ 284 (301)
T COG1184 213 LALAARELRVPFYVVAESYKFVPKTLL--DTLVEIELRDPLEVAREEPL---GNLKVRNPAFDVTPPEYIDAIITEL 284 (301)
T ss_pred HHHHHHHhCCCEEEEeeeecccccccC--CCcceeeccChhhccccCcc---cCccccccccCCCcHHHhheeeecC
Confidence 788999999999999999999999999 99999999999999854322 3689999999999999999999985
>PRK06371 translation initiation factor IF-2B subunit alpha; Provisional
Back Show alignment and domain information
Probab=99.85 E-value=2.7e-22 Score=146.06 Aligned_cols=76 Identities=17% Similarity=0.074 Sum_probs=66.3
Q ss_pred hHhhhhccCCCcEEEECccCcccCcCCCCCCCcccccccCCcccccccccc-ccCceeeeccceeecCCCCeeEEeeCC
Q psy2576 3 CLGSNLCSPVYQVIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRD-LVSKVQVFNPEYDYVPPELVSLFISNT 80 (80)
Q Consensus 3 ~~A~~Ak~~~vPv~V~a~~~K~~~~~~~~~~~~~~~e~~~p~~vl~~~~~~-~~~~~~v~nP~fD~tPpelIt~~ITe~ 80 (80)
-+|++||+|+||||||||++||++.... +....+|+|+|+|++.+.+.. .+++++++||+||+|||+|||+||||.
T Consensus 240 ~lAl~Ak~~~VPfyV~a~~~t~d~~~~~--g~~i~iEer~~~ev~~~~g~~~~p~~~~v~Np~FDvTP~elIt~iITE~ 316 (329)
T PRK06371 240 EKAVLAKVNGIPFYVAAPGSTFDFSIKS--GDEIPIEERDENEVLEINGCRIGPQESHARNPAFDVTPNEYVTGFITEY 316 (329)
T ss_pred HHHHHHHHcCCCEEEeccccccCCCCCC--cCccccccCCHHHeeccCCeecCCCCccccCcCccCCCHHHCCEEEccC
Confidence 4789999999999999999888877666 777889999999999886542 356789999999999999999999985
>PRK08335 translation initiation factor IF-2B subunit alpha; Validated
Back Show alignment and domain information
Probab=99.83 E-value=2.8e-21 Score=137.95 Aligned_cols=65 Identities=17% Similarity=0.073 Sum_probs=55.7
Q ss_pred hHhhhhccCCCcEEEECccCcccCcCCCCCCCcccccccCCccccccccccccCceeeeccceeecCCCCeeEEeeCC
Q psy2576 3 CLGSNLCSPVYQVIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRDLVSKVQVFNPEYDYVPPELVSLFISNT 80 (80)
Q Consensus 3 ~~A~~Ak~~~vPv~V~a~~~K~~~~~~~~~~~~~~~e~~~p~~vl~~~~~~~~~~~~v~nP~fD~tPpelIt~~ITe~ 80 (80)
-+|++||+|+|||||+||+|||++.++. + +..+|.|++ ..++++++||+||+|||+|||+||||.
T Consensus 202 ~lA~~Ak~~~vPfyV~a~~~k~~~~~~~--~-~i~ieer~~----------~~~~~~v~Np~FDvTP~~lIt~iITE~ 266 (275)
T PRK08335 202 LLALACHDNGVPFYVAAETFKFHPELKS--E-EVELVERPY----------ARQGHRVRNVLFDVTPWKYVRGIITEL 266 (275)
T ss_pred HHHHHHHHcCCCEEEECccceecccCCC--C-CccccccCC----------CCCCceecCcCccCCCHHHCCEEEccC
Confidence 3789999999999999999999999876 6 555666643 136789999999999999999999984
>KOG1468|consensus
Back Show alignment and domain information
Probab=99.78 E-value=2.2e-20 Score=134.04 Aligned_cols=75 Identities=17% Similarity=0.272 Sum_probs=68.9
Q ss_pred HhhhhccCCCcEEEECccCcccCcCCCCCCCcccccccCCcccccccccc----ccCceeeeccceeecCCCCeeEEeeC
Q psy2576 4 LGSNLCSPVYQVIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRD----LVSKVQVFNPEYDYVPPELVSLFISN 79 (80)
Q Consensus 4 ~A~~Ak~~~vPv~V~a~~~K~~~~~~~~~~~~~~~e~~~p~~vl~~~~~~----~~~~~~v~nP~fD~tPpelIt~~ITe 79 (80)
||++|||||+||||+||...++-..+. ++++.+|.|+|+|.....++. ...++.+|||+||+||.+|||+||||
T Consensus 259 LAv~aKhhgipFyvaaP~tsid~~l~t--G~eIiIEERp~~Em~~v~gg~~v~Iaapgi~vwnPAFDvTPa~LItgIiTe 336 (354)
T KOG1468|consen 259 LAVLAKHHGIPFYVAAPFTSIDLSLAT--GDEIIIEERPPAEMTHVTGGEGVRIAAPGINVWNPAFDVTPAELITGIITE 336 (354)
T ss_pred HHHHHHhcCCceEEeccccccccccCC--CCeeEEeecCchHheeecCCcceEecCCCCCccCccccCCHHHHHHHHhhh
Confidence 799999999999999999999999999 999999999999999887542 24689999999999999999999998
Q ss_pred C
Q psy2576 80 T 80 (80)
Q Consensus 80 ~ 80 (80)
.
T Consensus 337 ~ 337 (354)
T KOG1468|consen 337 K 337 (354)
T ss_pred c
Confidence 4
>PRK06372 translation initiation factor IF-2B subunit delta; Provisional
Back Show alignment and domain information
Probab=99.76 E-value=3.2e-19 Score=126.21 Aligned_cols=68 Identities=18% Similarity=0.208 Sum_probs=52.8
Q ss_pred hHhhhhccCCCcEEEECccCcccCcCCCCCCCcccccccCCccccccccccccCceeeeccceeecCCCCeeEEeeCC
Q psy2576 3 CLGSNLCSPVYQVIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRDLVSKVQVFNPEYDYVPPELVSLFISNT 80 (80)
Q Consensus 3 ~~A~~Ak~~~vPv~V~a~~~K~~~~~~~~~~~~~~~e~~~p~~vl~~~~~~~~~~~~v~nP~fD~tPpelIt~~ITe~ 80 (80)
.+|++||+|+|||||+|++|||++.++. ++....+.+ + .. ...++++++||.||+|||+|||++|||.
T Consensus 176 ~~Al~A~~~~vPv~V~~~s~Kf~~~~~~--~~~~~~~~~-~-----~~--~~~~~l~v~Np~FD~TPpelI~~iITE~ 243 (253)
T PRK06372 176 PLALCARYLKKPFYSLTISMKIERNFLY--STYPNFKNH-P-----CS--EWNIDIPCINRYFDKTPPDLIDYYINEN 243 (253)
T ss_pred HHHHHHHHcCCCEEEEeeccccCCCCcc--ccccccccc-c-----cc--cCCCCCceeCcCcCCCCHHHCCEEEcCC
Confidence 6899999999999999999999998876 443211111 1 01 1135789999999999999999999995
>KOG1467|consensus
Back Show alignment and domain information
Probab=99.74 E-value=1.6e-19 Score=136.45 Aligned_cols=77 Identities=21% Similarity=0.301 Sum_probs=68.3
Q ss_pred chHhhhhccCCCcEEEECccCcccCcCCCCCCCcccccccCCcccccccc---------ccccCceeeeccceeecCCCC
Q psy2576 2 PCLGSNLCSPVYQVIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEH---------RDLVSKVQVFNPEYDYVPPEL 72 (80)
Q Consensus 2 ~~~A~~Ak~~~vPv~V~a~~~K~~~~~~~~~~~~~~~e~~~p~~vl~~~~---------~~~~~~~~v~nP~fD~tPpel 72 (80)
+|+|++|++|+|||+||||+|||+.+.++ |....||+++|..+....+ +....+++.+|-.||.|||||
T Consensus 451 a~valvAna~nVPVlVCCE~yKF~eRvQl--Dsi~~NEL~dpn~l~~v~g~~~~~~L~~wqn~~~L~~lnl~YD~TPpel 528 (556)
T KOG1467|consen 451 ACVALVANAFNVPVLVCCEAYKFHERVQL--DSIVSNELGDPNALQEVRGREDKVALAGWQNNANLKFLNLMYDVTPPEL 528 (556)
T ss_pred HHHHHHhcccCCCEEEEechhhhhhhhhh--hhhhhcccCChhhhhhccCcchhhhhhccccccccchhheeeccCcHHH
Confidence 69999999999999999999999999999 9999999999997654443 122467999999999999999
Q ss_pred eeEEeeCC
Q psy2576 73 VSLFISNT 80 (80)
Q Consensus 73 It~~ITe~ 80 (80)
|+.+|||+
T Consensus 529 Is~vVTe~ 536 (556)
T KOG1467|consen 529 ISAVVTEL 536 (556)
T ss_pred HHHHHhhc
Confidence 99999985
>KOG1466|consensus
Back Show alignment and domain information
Probab=99.70 E-value=1.2e-18 Score=124.09 Aligned_cols=72 Identities=19% Similarity=0.249 Sum_probs=57.8
Q ss_pred HhhhhccCCCcEEEECccCcccCcCCCCCCCcccccccCCcccccccccc-ccCceeeeccceeecCCCCeeEEeeCC
Q psy2576 4 LGSNLCSPVYQVIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRD-LVSKVQVFNPEYDYVPPELVSLFISNT 80 (80)
Q Consensus 4 ~A~~Ak~~~vPv~V~a~~~K~~~~~~~~~~~~~~~e~~~p~~vl~~~~~~-~~~~~~v~nP~fD~tPpelIt~~ITe~ 80 (80)
+|+.||+.++||||+||+|||.++||+ +|.+....+. .++|.... ..+++...+|..|||||+|||++|||+
T Consensus 224 ~~v~Ak~~~kPfYV~AES~KFvRlfPL--nQ~Dlp~~~~---p~~f~~~~~~~~~~~~e~p~vDYTpPeyiTlL~TDL 296 (313)
T KOG1466|consen 224 VAVCAKSMNKPFYVVAESHKFVRLFPL--NQKDLPPALP---PFKFSRPVPEREDVEREHPTVDYTPPEYLTLLFTDL 296 (313)
T ss_pred hhhhHHhcCCCeEEEeeccceeeeccC--cccccccccC---CcccCCCCCcHHhhhhcCCCcccChHHHHHHHHhhc
Confidence 688999999999999999999999999 8887543332 23443221 124788899999999999999999986
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 80
d1t9ka_ 340
c.124.1.5 (A:) Probable methylthioribose-1-phospha
9e-11 d1t5oa_ 340
c.124.1.5 (A:) Putative eIF-2B delta-subunit {Arch
2e-09 d2a0ua1 374
c.124.1.5 (A:10-383) Initiation factor 2b {Leishma
5e-09 d1vb5a_ 274
c.124.1.5 (A:) Putative eIF-2B subunit 2-like prot
1e-08 g1w2w.1 402
c.124.1.5 (A:,B:) Putative methylthioribose-1-phos
9e-07
>d1t9ka_ c.124.1.5 (A:) Probable methylthioribose-1-phosphate isomerase TM0911 {Thermotoga maritima [TaxId: 2336]} Length = 340
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class: Alpha and beta proteins (a/b)
fold: NagB/RpiA/CoA transferase-like
superfamily: NagB/RpiA/CoA transferase-like
family: IF2B-like
domain: Probable methylthioribose-1-phosphate isomerase TM0911
species: Thermotoga maritima [TaxId: 2336]
Score = 53.6 bits (128), Expect = 9e-11
Identities = 14/67 (20%), Positives = 26/67 (38%), Gaps = 3/67 (4%)
Query: 14 QVIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRDLVSK-VQVFNPEYDYVPPEL 72
V AP+ + P ++ PE+V + + V+V NP +D L
Sbjct: 259 PFYVAAPVSTIDPT--IRSGEEIPIEERRPEEVTHCGGNRIAPEGVKVLNPAFDVTENTL 316
Query: 73 VSLFISN 79
++ I+
Sbjct: 317 ITAIITE 323
>d1t5oa_ c.124.1.5 (A:) Putative eIF-2B delta-subunit {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 340
Back Show information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: NagB/RpiA/CoA transferase-like
superfamily: NagB/RpiA/CoA transferase-like
family: IF2B-like
domain: Putative eIF-2B delta-subunit
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]
Score = 49.8 bits (118), Expect = 2e-09
Identities = 15/67 (22%), Positives = 25/67 (37%), Gaps = 4/67 (5%)
Query: 14 QVIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRDLVS-KVQVFNPEYDYVPPEL 72
V AP + D E+++ R + V+V+NP +D P E
Sbjct: 259 PFYVAAPKATFDWERTAK---DVVIEERPREELIFCGKRQIAPLNVKVYNPAFDPTPLEN 315
Query: 73 VSLFISN 79
V+ I+
Sbjct: 316 VTALITE 322
>d2a0ua1 c.124.1.5 (A:10-383) Initiation factor 2b {Leishmania major [TaxId: 5664]} Length = 374
Back Show information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: NagB/RpiA/CoA transferase-like
superfamily: NagB/RpiA/CoA transferase-like
family: IF2B-like
domain: Initiation factor 2b
species: Leishmania major [TaxId: 5664]
Score = 48.6 bits (115), Expect = 5e-09
Identities = 12/71 (16%), Positives = 25/71 (35%), Gaps = 8/71 (11%)
Query: 15 VIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRDL-----VSKVQVFNPEYDYVP 69
+ V AP L + + P ++ + + ++NP +D P
Sbjct: 284 LYVAAPTTTLDVK--TASGNHVEIEEREPTEITTNLVTKQRVVADGPHLSIWNPVFDITP 341
Query: 70 PELVS-LFISN 79
EL++ I+
Sbjct: 342 SELITGGIITE 352
>d1vb5a_ c.124.1.5 (A:) Putative eIF-2B subunit 2-like protein PH0440 {Pyrococcus horikoshii [TaxId: 53953]} Length = 274
Back Show information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: NagB/RpiA/CoA transferase-like
superfamily: NagB/RpiA/CoA transferase-like
family: IF2B-like
domain: Putative eIF-2B subunit 2-like protein PH0440
species: Pyrococcus horikoshii [TaxId: 53953]
Score = 47.7 bits (113), Expect = 1e-08
Identities = 13/65 (20%), Positives = 21/65 (32%), Gaps = 13/65 (20%)
Query: 15 VIVLAPLYKLSPQFLCSYDQDTFNNFISPEKVLSYEHRDLVSKVQVFNPEYDYVPPELVS 74
V A YK P + V+ E + V++ N +D P + V
Sbjct: 213 FYVAAETYKFHPT-------------LKSGDVMLMERDLIRGNVRIRNVLFDVTPWKYVR 259
Query: 75 LFISN 79
I+
Sbjct: 260 GIITE 264
