RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14756
(117 letters)
>gnl|CDD|211318 cd11566, eIF1_SUI1, Eukaryotic initiation factor 1. eIF1/SUI1
(eukaryotic initiation factor 1) plays an important role
in accurate initiator codon recognition during
translation initiation. eIF1 interacts with 18S rRNA in
the 40S ribosomal subunit during eukaryotic translation
initiation. Point mutations in the yeast eIF1 implicate
the protein in maintaining accurate start-site selection
but its mechanism of action is unknown.
Length = 84
Score = 158 bits (401), Expect = 5e-52
Identities = 61/84 (72%), Positives = 74/84 (88%)
Query: 33 GLVHIRIQQRNGRKTLTTVQGLSSEYDLKKIVRACKKEFACNGTVIEHPEYGEVLQLQGD 92
G +HIRIQQRNGRKTLTTVQGL E+DLKKI++A KKEFACNGTV+E PEYGEV+QLQGD
Sbjct: 1 GYIHIRIQQRNGRKTLTTVQGLPEEFDLKKILKAFKKEFACNGTVVEDPEYGEVIQLQGD 60
Query: 93 QRENICQWLTKTGLAKPEQLKVHG 116
QR+NI ++L + G+AK + +KVHG
Sbjct: 61 QRKNIKEFLLEEGIAKKDNIKVHG 84
>gnl|CDD|130228 TIGR01160, SUI1_MOF2, translation initiation factor SUI1,
eukaryotic. Alternate name: MOF2. A similar protein
family (see TIGRFAMs model TIGR01158) is found in
prokaryotes. The human proteins complements a yeast SUI1
mutatation [Protein synthesis, Translation factors].
Length = 110
Score = 157 bits (398), Expect = 3e-51
Identities = 73/107 (68%), Positives = 85/107 (79%), Gaps = 5/107 (4%)
Query: 14 KTLDPFADAFKGSEDDVQDG---LVHIRIQQRNGRKTLTTVQGLSSEYDLKKIVRACKKE 70
K+ DPFADA G +D G +HIRIQQRNGRKTLTTVQGL EYDLKKIV+A KKE
Sbjct: 6 KSFDPFADA--GDDDSALPGTSNYIHIRIQQRNGRKTLTTVQGLPKEYDLKKIVKALKKE 63
Query: 71 FACNGTVIEHPEYGEVLQLQGDQRENICQWLTKTGLAKPEQLKVHGF 117
FACNGTVIE PE GEV+QLQGDQR+N+C++L GL K +Q+K+HGF
Sbjct: 64 FACNGTVIEDPEMGEVIQLQGDQRKNVCEFLISQGLLKKDQIKIHGF 110
>gnl|CDD|216391 pfam01253, SUI1, Translation initiation factor SUI1.
Length = 74
Score = 86.8 bits (216), Expect = 6e-24
Identities = 31/76 (40%), Positives = 45/76 (59%), Gaps = 5/76 (6%)
Query: 31 QDGLVHIRIQQRNGRKTLTTVQGL-SSEYDLKKIVRACKKEFACNGTVIEHPEYGEVLQL 89
+D + IR ++R G KT+T V GL DLKK+ + KK+F C GTV + GE +++
Sbjct: 3 EDQKIRIRREKRRGGKTVTVVTGLELFGIDLKKLAKELKKKFGCGGTVKD----GEEIEI 58
Query: 90 QGDQRENICQWLTKTG 105
QGD R+ + L K G
Sbjct: 59 QGDHRDKVKDLLEKEG 74
>gnl|CDD|223102 COG0023, SUI1, Translation initiation factor 1 (eIF-1/SUI1) and
related proteins [Translation, ribosomal structure and
biogenesis].
Length = 104
Score = 78.1 bits (193), Expect = 4e-20
Identities = 33/105 (31%), Positives = 53/105 (50%), Gaps = 8/105 (7%)
Query: 12 CQKTLDPFADAFKGSEDDVQDGLVHIRIQQRNGRKTLTTVQGL-SSEYDLKKIVRACKKE 70
C + P D +V IR + R KT+T ++GL + DLKK+ + KK+
Sbjct: 7 CGRIGLPKELTC-EEVAKEGDQIVRIRRETRRKGKTVTIIEGLDLKDIDLKKLAKELKKK 65
Query: 71 FACNGTVIEHPEYGEVLQLQGDQRENICQWLTKTGLAKPEQLKVH 115
AC GTV + GE+ ++QGD R+ + + L K G K + + +
Sbjct: 66 CACGGTVKD----GEI-EIQGDHRDKVKELLIKKGF-KVKNIGIE 104
>gnl|CDD|211317 cd00474, eIF1_SUI1_like, Eukaryotic initiation factor 1 and related
proteins. Members of the eIF1/SUI1 (eukaryotic
initiation factor 1) family are found in eukaryotes,
archaea, and some bacteria; eukaryotic members are
understood to play an important role in accurate
initiator codon recognition during translation
initiation. eIF1 interacts with 18S rRNA in the 40S
ribosomal subunit during eukaryotic translation
initiation. Point mutations in the yeast eIF1 implicate
the protein in maintaining accurate start-site selection
but its mechanism of action is unknown. The function of
non-eukaryotic family members is also unclear.
Length = 78
Score = 64.0 bits (156), Expect = 7e-15
Identities = 27/74 (36%), Positives = 45/74 (60%), Gaps = 3/74 (4%)
Query: 35 VHIRIQQRNGRKTLTTVQGLSSEYDLKKIVRACKKEFACNGTVIEHPEYGEVLQLQGDQR 94
+HI+++QR+G K +T V+GL + DL+K+ KK+ C G+V E E+ ++QGD
Sbjct: 2 IHIKVEQRSGGKKVTKVEGLPAYIDLRKLADELKKKLGCGGSVE--GEKMEI-EIQGDHT 58
Query: 95 ENICQWLTKTGLAK 108
+ I L + G+ K
Sbjct: 59 DQIIVALEEKGIDK 72
>gnl|CDD|211320 cd11607, DENR_C, C-terminal domain of DENR and related proteins.
DENR (density regulated protein), together with MCT-1
(multiple copies T cell malignancies), has been shown to
have similar function as eIF2D translation initiation
factor (also known as ligatin), which is involved in the
recruitment and delivery of aminoacyl-tRNAs to the
P-site of the eukaryotic ribosome in a GTP-independent
manner.
Length = 86
Score = 54.5 bits (132), Expect = 4e-11
Identities = 25/71 (35%), Positives = 39/71 (54%), Gaps = 1/71 (1%)
Query: 35 VHIRIQQRNGRKTLTTVQGLSSEY-DLKKIVRACKKEFACNGTVIEHPEYGEVLQLQGDQ 93
V I+ RN RK +TTV GL + DLKK + K+FAC +V + E + + +QGD
Sbjct: 3 VTIKRISRNKRKFVTTVTGLETFGIDLKKAAKLFAKKFACGASVTKGAEGKDEIVIQGDV 62
Query: 94 RENICQWLTKT 104
++I + +
Sbjct: 63 TDDIVDLILEK 73
>gnl|CDD|211319 cd11567, YciH_like, Homologs of eIF1/SUI1 including Escherichia
coli YciH. Members of the eIF1/SUI1 (eukaryotic
initiation factor 1) family are found in eukaryotes,
archaea, and some bacteria; eukaryotic members are
understood to play an important role in accurate
initiator codon recognition during translation
initiation. The function of non-eukaryotic family
members is unclear. Escherichia coli YciH is a
non-essential protein and was reported to be able to
perform some of the functions of IF3 in prokaryotic
initiation.
Length = 76
Score = 51.7 bits (125), Expect = 4e-10
Identities = 30/75 (40%), Positives = 45/75 (60%), Gaps = 7/75 (9%)
Query: 33 GLVHIRIQQR-NGRKTLTTVQGLS-SEYDLKKIVRACKKEFACNGTVIEHPEYGEVLQLQ 90
V +R+++R G KT+T ++GL SE DLK++ + KK+ C GTV + ++LQ
Sbjct: 1 QKVRVRLEKRGRGGKTVTVIEGLPLSEEDLKELAKELKKKCGCGGTVKD-----GEIELQ 55
Query: 91 GDQRENICQWLTKTG 105
GD RE I + L K G
Sbjct: 56 GDHREKIKELLEKKG 70
>gnl|CDD|211321 cd11608, eIF2D_C, C-terminal domain of eIF2D and related proteins.
eIF2D translation initiation factor (also known as
ligatin) is involved in the recruitment and delivery of
aminoacyl-tRNAs to the P-site of the eukaryotic ribosome
in a GTP-independent manner.
Length = 85
Score = 49.5 bits (119), Expect = 3e-09
Identities = 19/74 (25%), Positives = 40/74 (54%), Gaps = 3/74 (4%)
Query: 35 VHIRIQQRNGRKTLTTVQGLSS-EYDLKKIVRACKKEFACNGTV--IEHPEYGEVLQLQG 91
+ I ++R G K +T + GL S D ++ + +K+ A + +V + + G +Q+QG
Sbjct: 2 IDITTERRQGNKKVTLISGLESFGIDPEEFAKELQKKCAASTSVSPLPGKKKGVEVQVQG 61
Query: 92 DQRENICQWLTKTG 105
+Q + + + LT+
Sbjct: 62 NQVKFVAKLLTEKY 75
>gnl|CDD|130226 TIGR01158, SUI1_rel, translation initation factor SUI1, putative,
prokaryotic. This family of archaeal and bacterial
proteins is homologous to the eukaryotic translation
intiation factor SUI1 involved in directing the ribosome
to the proper start site of translation by functioning
in concert with eIF-2 and the initiator tRNA-Met
[Protein synthesis, Translation factors].
Length = 101
Score = 47.7 bits (114), Expect = 2e-08
Identities = 27/82 (32%), Positives = 45/82 (54%), Gaps = 9/82 (10%)
Query: 27 EDDVQDGLVHIRIQQRNGR--KTLTTVQGLS-SEYDLKKIVRACKKEFACNGTVIEHPEY 83
+D +V I+ + R GR K +T ++GL S+ DLK++ + K + C GTV +
Sbjct: 18 AKPKEDQVVRIQRETR-GRKGKGVTIIEGLDLSDIDLKELAKELKSKCGCGGTVKD---- 72
Query: 84 GEVLQLQGDQRENICQWLTKTG 105
V+++QGD R+ + L K G
Sbjct: 73 -GVIEIQGDHRDRVKDLLEKKG 93
>gnl|CDD|179173 PRK00939, PRK00939, translation initiation factor Sui1; Reviewed.
Length = 99
Score = 44.1 bits (105), Expect = 4e-07
Identities = 24/80 (30%), Positives = 43/80 (53%), Gaps = 7/80 (8%)
Query: 35 VHIRIQQRNGRKTLTTVQGLS-SEYDLKKIVRACKKEFACNGTVIEHPEYGEVLQLQGDQ 93
+ I++ +R K +T ++G+ + DLK++ + K + AC GTV ++LQGD
Sbjct: 26 IKIKVDKRRYGKEVTIIEGIDPKDIDLKELAKKLKSKLACGGTV-----KDGRIELQGDH 80
Query: 94 RENICQWLTKTGLAKPEQLK 113
RE + + L K G E ++
Sbjct: 81 RERVKELLIKMGF-SEENIE 99
>gnl|CDD|181613 PRK09019, PRK09019, translation initiation factor Sui1; Validated.
Length = 108
Score = 40.7 bits (96), Expect = 1e-05
Identities = 27/78 (34%), Positives = 42/78 (53%), Gaps = 11/78 (14%)
Query: 32 DGLVHIRIQ-QRNGRK--TLTTVQGLS-SEYDLKKIVRACKKEFACNGTVIEHPEYGEVL 87
DG+V RIQ Q +GRK + + GL + +LKK+ KK+ C G V + V+
Sbjct: 30 DGIV--RIQRQTSGRKGKGVCLITGLDLDDAELKKLAAELKKKCGCGGAVKDG-----VI 82
Query: 88 QLQGDQRENICQWLTKTG 105
++QGD+R+ + L G
Sbjct: 83 EIQGDKRDLLKSLLEAKG 100
>gnl|CDD|168689 PRK06824, PRK06824, translation initiation factor Sui1; Validated.
Length = 118
Score = 38.9 bits (91), Expect = 6e-05
Identities = 24/77 (31%), Positives = 42/77 (54%), Gaps = 9/77 (11%)
Query: 32 DGLVHIRIQQRNGR--KTLTTVQGLS-SEYDLKKIVRACKKEFACNGTVIEHPEYGEVLQ 88
DG+V +R ++ GR KT+T + G+ +E LK++ + K+ GT+ + V++
Sbjct: 40 DGIVRVR-RETKGRGGKTVTVITGVPLAEDALKELAKELKRRCGTGGTLKDG-----VIE 93
Query: 89 LQGDQRENICQWLTKTG 105
+QGD E + L K G
Sbjct: 94 IQGDHVELLLAELLKRG 110
>gnl|CDD|233294 TIGR01159, DRP1, density-regulated protein DRP1. This protein
family shows weak but suggestive similarity to
translation initiation factor SUI1 and its prokaryotic
homologs.
Length = 173
Score = 37.9 bits (88), Expect = 3e-04
Identities = 20/78 (25%), Positives = 41/78 (52%), Gaps = 1/78 (1%)
Query: 35 VHIRIQQRNGRKTLTTVQGLSS-EYDLKKIVRACKKEFACNGTVIEHPEYGEVLQLQGDQ 93
V I+ + R RK +T ++GL + + DLKK + ++FA +V + E + +QGD
Sbjct: 91 VTIKREPRTKRKFVTVIKGLETFDIDLKKASKTFAQKFATGCSVSKSVTGKEEIVIQGDV 150
Query: 94 RENICQWLTKTGLAKPEQ 111
++I ++ + ++
Sbjct: 151 MDDIEDYIHEKWPEVGDK 168
>gnl|CDD|236021 PRK07451, PRK07451, translation initiation factor Sui1; Validated.
Length = 115
Score = 36.7 bits (85), Expect = 5e-04
Identities = 23/73 (31%), Positives = 38/73 (52%), Gaps = 9/73 (12%)
Query: 37 IRIQ-QRNGR--KTLTTVQGL-SSEYDLKKIVRACKKEFACNGTVIEHPEYGEVLQLQGD 92
+R+Q R+GR KT+T + G L K+++ K + GTV + +++QGD
Sbjct: 40 LRVQATRSGRKGKTVTVITGFQHKPETLAKLLKQLKTQCGSGGTVKD-----NTIEIQGD 94
Query: 93 QRENICQWLTKTG 105
R+ I + L K G
Sbjct: 95 HRQKILEILIKLG 107
>gnl|CDD|214444 MTH00165, ND5, NADH dehydrogenase subunit 5; Provisional.
Length = 573
Score = 28.2 bits (64), Expect = 1.1
Identities = 8/14 (57%), Positives = 11/14 (78%), Gaps = 2/14 (14%)
Query: 53 GLSS--EYDLKKIV 64
GL + E+DLKKI+
Sbjct: 258 GLGANFEFDLKKII 271
>gnl|CDD|129918 TIGR00838, argH, argininosuccinate lyase. This model describes
argininosuccinate lyase, but may include examples of
avian delta crystallins, in which argininosuccinate
lyase activity may or may not be present and the
biological role is to provide the optically clear
cellular protein of the eye lens [Amino acid
biosynthesis, Glutamate family].
Length = 455
Score = 27.3 bits (61), Expect = 1.9
Identities = 18/87 (20%), Positives = 33/87 (37%), Gaps = 19/87 (21%)
Query: 10 GRCQKTLDPFADAFKGS--------EDDVQDGLVHIRIQQRNGRKTLTTVQGLSSEYDLK 61
GR +DP F S E D++ + H ++ ++ G+ +E +
Sbjct: 4 GRFTGGMDPRVAKFNASLSFDKELAEYDIEGSIAHTKMLKK---------AGILTEEEAA 54
Query: 62 KIVRACK--KEFACNGTVIEHPEYGEV 86
KI+ KE G I P+ ++
Sbjct: 55 KIIEGLNELKEEGREGPFILDPDDEDI 81
>gnl|CDD|131424 TIGR02371, ala_DH_arch, alanine dehydrogenase, Archaeoglobus
fulgidus type. This enzyme, a homolog of bacterial
ornithine cyclodeaminases and marsupial mu-crystallins,
is a homodimeric, NAD-dependent alanine dehydrogenase
found in Archaeoglobus fulgidus and several other
Archaea. For a number of close homologs, scoring between
trusted and noise cutoffs, it is not clear at present
what is the enzymatic activity.
Length = 325
Score = 27.2 bits (60), Expect = 2.2
Identities = 12/55 (21%), Positives = 25/55 (45%)
Query: 44 GRKTLTTVQGLSSEYDLKKIVRACKKEFACNGTVIEHPEYGEVLQLQGDQRENIC 98
GR+ T ++ LS +DL+++ C+ + +Y ++ D RE +
Sbjct: 137 GRQAWTQLEALSRVFDLEEVSVYCRTPSTREKFALRASDYEVPVRAATDPREAVE 191
>gnl|CDD|130372 TIGR01305, GMP_reduct_1, guanosine monophosphate reductase,
eukaryotic. A deep split separates two families of GMP
reductase. This family includes both eukaryotic and some
proteobacterial sequences, while the other family
contains other bacterial sequences [Purines,
pyrimidines, nucleosides, and nucleotides, Nucleotide
and nucleoside interconversions].
Length = 343
Score = 26.8 bits (59), Expect = 3.3
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 38 RIQQRNGRKTLTTVQGLSSEYDLKKIVRACKKEFACNGTVIEHPEYGEV 86
+ +RNGRK G+SS+ +KK + A G +E P G+V
Sbjct: 253 EVIERNGRK-FKLFYGMSSDTAMKKHAGGVAEYRASEGKTVEVPYRGDV 300
>gnl|CDD|225593 COG3051, CitF, Citrate lyase, alpha subunit [Energy production and
conversion].
Length = 513
Score = 26.2 bits (58), Expect = 4.4
Identities = 17/76 (22%), Positives = 35/76 (46%), Gaps = 1/76 (1%)
Query: 42 RNGRKTLTTVQGLSSEYDLKKIVRACKKEFACNGTVIEHPEYGEVLQLQGDQ-RENICQW 100
R G + V + ++ K + A C+ ++EH + G V ++ R + +
Sbjct: 75 RGGDLVVNMVMDVIAKMGFKNLTLASSSLSDCHAPLVEHIKNGVVTRIYSSGLRGPLGEE 134
Query: 101 LTKTGLAKPEQLKVHG 116
+++ LA+P Q+ HG
Sbjct: 135 ISRGLLAEPVQIHSHG 150
>gnl|CDD|227913 COG5626, COG5626, Uncharacterized small conserved protein [Function
unknown].
Length = 97
Score = 25.3 bits (55), Expect = 4.9
Identities = 11/48 (22%), Positives = 20/48 (41%), Gaps = 13/48 (27%)
Query: 75 GTVIEHPEYGEVLQ-------------LQGDQRENICQWLTKTGLAKP 109
+I H V+Q + GD RE + W+++ ++KP
Sbjct: 18 AELIPHAARDAVIQVDAALDLLEVGEAIAGDDREKVAAWISEGLISKP 65
>gnl|CDD|240433 PTZ00482, PTZ00482, membrane-attack complex/perforin (MACPF)
Superfamily; Provisional.
Length = 844
Score = 26.0 bits (57), Expect = 7.1
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 44 GRKTLTTVQGLSSEYDLKKIVRACKKE 70
GR+ T+ QG S++YD+ I C +
Sbjct: 642 GREKCTSKQGSSNKYDVSYIYIECGPQ 668
>gnl|CDD|163560 TIGR03848, MSMEG_4193, probable phosphomutase, MSMEG_4193 family.
A three-gene system broadly conserved among the
Actinobacteria includes MSMEG_4193 and homologs, a
subgroup among the larger phosphoglycerate mutase
family protein (pfam00300). Another member of the trio
is a probable kinase, related to phosphatidylinositol
kinases; that context supports the hypothesis that this
protein acts as a phosphomutase.
Length = 204
Score = 25.4 bits (56), Expect = 7.3
Identities = 13/44 (29%), Positives = 20/44 (45%), Gaps = 2/44 (4%)
Query: 3 IYCHNLVGRCQKTLDPFADAFKGSEDDVQDGLVHIRIQQRNGRK 46
I L RC++T +P A+A +G V + L GR+
Sbjct: 50 IVSSPLE-RCRETAEPIAEA-RGLPPRVDERLGECDYGDWTGRE 91
>gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated.
Length = 859
Score = 25.5 bits (57), Expect = 7.8
Identities = 7/23 (30%), Positives = 10/23 (43%)
Query: 68 KKEFACNGTVIEHPEYGEVLQLQ 90
+ V EHPE G +Q +
Sbjct: 694 LGLLSLPRPVGEHPECGSEIQAK 716
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.320 0.138 0.420
Gapped
Lambda K H
0.267 0.0739 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,737,662
Number of extensions: 473183
Number of successful extensions: 442
Number of sequences better than 10.0: 1
Number of HSP's gapped: 428
Number of HSP's successfully gapped: 26
Length of query: 117
Length of database: 10,937,602
Length adjustment: 80
Effective length of query: 37
Effective length of database: 7,389,282
Effective search space: 273403434
Effective search space used: 273403434
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (24.2 bits)