RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 031485
(159 letters)
>gnl|CDD|234566 PRK00004, rplX, 50S ribosomal protein L24; Reviewed.
Length = 105
Score = 120 bits (303), Expect = 4e-36
Identities = 54/95 (56%), Positives = 70/95 (73%), Gaps = 1/95 (1%)
Query: 14 KILRGDNVMIIRGKDKGETGAIKRVIRSQNRVIVEGKNLVKKHIK-GGEGHEGGIFTVEA 72
KI +GD V++I GKDKG+ G + +V+ +N+VIVEG N+VKKH K E +GGI EA
Sbjct: 4 KIKKGDTVIVIAGKDKGKRGKVLKVLPKKNKVIVEGVNIVKKHQKPNQENPQGGIIEKEA 63
Query: 73 PIHASNVQVLDPVTGKPCKVGTKYLEDGTKVRVAR 107
PIH SNV ++DP TGK +VG K+LEDG KVRVA+
Sbjct: 64 PIHISNVALVDPKTGKATRVGFKFLEDGKKVRVAK 98
>gnl|CDD|233263 TIGR01079, rplX_bact, ribosomal protein L24, bacterial/organelle.
This model recognizes bacterial and organellar forms of
ribosomal protein L24. It excludes eukaryotic and
archaeal forms, designated L26 in eukaryotes [Protein
synthesis, Ribosomal proteins: synthesis and
modification].
Length = 104
Score = 101 bits (253), Expect = 1e-28
Identities = 53/105 (50%), Positives = 69/105 (65%), Gaps = 5/105 (4%)
Query: 14 KILRGDNVMIIRGKDKGETGAIKRVIRSQNRVIVEGKNLVKKHIKGGE--GHEGGIFTVE 71
KI +GD V +I GKDKG+ G + +V+ N+VIVEG N+VKKH+K +GGI E
Sbjct: 3 KIKKGDTVKVISGKDKGKRGKVLKVLPKTNKVIVEGVNMVKKHVKPKPTQRSQGGIIEKE 62
Query: 72 APIHASNVQVLDPVTGKPCKVGTKYLEDGTKVRVARGIGASGSII 116
APIH SNV + DP TGK +VG ++ EDG KVRV + +G II
Sbjct: 63 APIHISNVMLFDPKTGKATRVGIRFEEDGKKVRVFK---KTGEII 104
>gnl|CDD|240513 cd06089, KOW_RPL26, KOW motif of Ribosomal Protein L26. RPL26
and its bacterial paralogs RPL24 have a KOW motif at
their N terminal. KOW domain is known as an RNA-binding
motif that is shared so far among some families of
ribosomal proteins, the essential bacterial
transcriptional elongation factor NusG, the eukaryotic
chromatin elongation factor Spt5, the higher eukaryotic
KIN17 proteins and Mtr4. RPL26 makes a very minor
contributions to the biogenesis, structure, and
function of 60s ribosomal subunits. However, RPL24 is
essential to generate the first intermediate during 50s
ribosomal subunits assembly. RPL26 have an
extra-ribosomal function to enhances p53 translation
after DNA damage.
Length = 65
Score = 80.3 bits (199), Expect = 7e-21
Identities = 39/65 (60%), Positives = 48/65 (73%), Gaps = 1/65 (1%)
Query: 18 GDNVMIIRGKDKGETGAIKRVIRSQNRVIVEGKNLVKKHIK-GGEGHEGGIFTVEAPIHA 76
GD V +IRGKDKG+ G + +V R +NRVIVEG N+VKKH+K E +GGI VEAPIH
Sbjct: 1 GDEVQVIRGKDKGKQGKVLKVDRKKNRVIVEGVNVVKKHVKPSQENPQGGIIEVEAPIHI 60
Query: 77 SNVQV 81
SNV +
Sbjct: 61 SNVML 65
>gnl|CDD|223276 COG0198, RplX, Ribosomal protein L24 [Translation, ribosomal
structure and biogenesis].
Length = 104
Score = 81.2 bits (201), Expect = 7e-21
Identities = 53/99 (53%), Positives = 67/99 (67%), Gaps = 4/99 (4%)
Query: 11 RHWKILRGDNVMIIRGKDKGETGAIKRVIRSQNRVIVEGKNLVKKHIKG-GEGHEGGIFT 69
K+ +GD V +I GKDKG+ G + +V+ +V+VEG N+VKKHIK E EGGI
Sbjct: 1 MKMKVKKGDTVKVIAGKDKGKEGKVLKVLP--KKVVVEGVNVVKKHIKPSQENPEGGIIN 58
Query: 70 VEAPIHASNVQVLDPV-TGKPCKVGTKYLEDGTKVRVAR 107
EAPIH SNV ++DP TGKP +VG K EDG KVRVA+
Sbjct: 59 KEAPIHISNVAIIDPNKTGKPTRVGYKVEEDGKKVRVAK 97
>gnl|CDD|214374 CHL00141, rpl24, ribosomal protein L24; Validated.
Length = 83
Score = 70.8 bits (174), Expect = 5e-17
Identities = 32/69 (46%), Positives = 43/69 (62%), Gaps = 1/69 (1%)
Query: 17 RGDNVMIIRGKDKGETGAIKRVIRSQNRVIVEGKNLVKKHIKGG-EGHEGGIFTVEAPIH 75
GD V II G DKG+ G + ++I+ N+VIV+G N+ KHIK E G I EAPIH
Sbjct: 11 IGDTVKIISGSDKGKIGEVLKIIKKSNKVIVKGINIKFKHIKPNKENEVGEIKQFEAPIH 70
Query: 76 ASNVQVLDP 84
+SNV + +
Sbjct: 71 SSNVMLYNE 79
>gnl|CDD|183399 PRK12281, rplX, 50S ribosomal protein L24; Reviewed.
Length = 76
Score = 67.0 bits (164), Expect = 1e-15
Identities = 32/69 (46%), Positives = 43/69 (62%), Gaps = 1/69 (1%)
Query: 14 KILRGDNVMIIRGKDKGETGAIKRVIRSQNRVIVEGKNLVKKHIKGGEGH-EGGIFTVEA 72
K+ +GD V +I G DKG+TG + V+ +NRVIVEG + KK IK + + GG E
Sbjct: 6 KVKKGDMVKVIAGDDKGKTGKVLAVLPKKNRVIVEGVKIAKKAIKPSQKNPNGGFIEKEM 65
Query: 73 PIHASNVQV 81
PIH SNV+
Sbjct: 66 PIHISNVKK 74
>gnl|CDD|234915 PRK01191, rpl24p, 50S ribosomal protein L24P; Validated.
Length = 120
Score = 41.8 bits (99), Expect = 1e-05
Identities = 26/74 (35%), Positives = 35/74 (47%), Gaps = 10/74 (13%)
Query: 10 IRHWKILRGDNVMIIRGKDKGETGAIKRVIRSQNRVIVEGKNLVKKHIKGGEGHEGGIFT 69
IR + +GD V ++RG KGE G + V + R+ VEG + K G E
Sbjct: 41 IRSLPVRKGDTVKVMRGDFKGEEGKVVEVDLKRGRIYVEG--VTVKKADGTE-------- 90
Query: 70 VEAPIHASNVQVLD 83
V PIH SNV +
Sbjct: 91 VPRPIHPSNVMITK 104
>gnl|CDD|144165 pfam00467, KOW, KOW motif. This family has been extended to
coincide with ref. The KOW (Kyprides, Ouzounis, Woese)
motif is found in a variety of ribosomal proteins and
NusG.
Length = 32
Score = 39.7 bits (94), Expect = 2e-05
Identities = 14/32 (43%), Positives = 19/32 (59%)
Query: 17 RGDNVMIIRGKDKGETGAIKRVIRSQNRVIVE 48
+GD V +I G KG+ G + V S+ RV VE
Sbjct: 1 KGDVVRVISGPFKGKKGKVVEVDDSKARVHVE 32
>gnl|CDD|130152 TIGR01080, rplX_A_E, ribosomal protein L24p/L26e,
archaeal/eukaryotic. This model represents the archaeal
and eukaryotic branch of the ribosomal protein L24p/L26e
family. Bacterial and organellar forms are represented
by related model TIGR01079 [Protein synthesis, Ribosomal
proteins: synthesis and modification].
Length = 114
Score = 37.8 bits (88), Expect = 3e-04
Identities = 25/74 (33%), Positives = 34/74 (45%), Gaps = 10/74 (13%)
Query: 10 IRHWKILRGDNVMIIRGKDKGETGAIKRVIRSQNRVIVEGKNLVKKHIKGGEGHEGGIFT 69
R + +GD V I+RG KG G + +V + R+ VEG K + G E
Sbjct: 37 KRALPVRKGDKVRIMRGDFKGHEGKVSKVDLKRYRIYVEGVTKEK--VNGTE-------- 86
Query: 70 VEAPIHASNVQVLD 83
V PIH SNV +
Sbjct: 87 VPVPIHPSNVMITK 100
>gnl|CDD|185508 PTZ00194, PTZ00194, 60S ribosomal protein L26; Provisional.
Length = 143
Score = 35.9 bits (83), Expect = 0.003
Identities = 21/70 (30%), Positives = 32/70 (45%), Gaps = 10/70 (14%)
Query: 10 IRHWKILRGDNVMIIRGKDKGETGAIKRVIRSQNRVIVEGKNLVKKHIKGGEGHEGGIFT 69
+R + + D VM++RG KG G + V R + + +E K + GE
Sbjct: 42 VRSMPVRKDDEVMVVRGHHKGREGKVTAVYRKKWVIHIEKITREKAN---GE-------P 91
Query: 70 VEAPIHASNV 79
V+ IH SNV
Sbjct: 92 VQIGIHPSNV 101
>gnl|CDD|128978 smart00739, KOW, KOW (Kyprides, Ouzounis, Woese) motif. Motif in
ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Length = 28
Score = 33.1 bits (77), Expect = 0.003
Identities = 10/27 (37%), Positives = 13/27 (48%)
Query: 14 KILRGDNVMIIRGKDKGETGAIKRVIR 40
K GD V +I G KG+ G + V
Sbjct: 1 KFEVGDTVRVIAGPFKGKVGKVLEVDG 27
>gnl|CDD|240504 cd00380, KOW, KOW: an acronym for the authors' surnames
(Kyrpides, Ouzounis and Woese). KOW domain is known as
an RNA-binding motif that is shared so far among some
families of ribosomal proteins, the essential bacterial
transcriptional elongation factor NusG, the eukaryotic
chromatin elongation factor Spt5, the higher eukaryotic
KIN17 proteins and Mtr4. The KOW motif contains an
invariants glycine residue and comprises alternating
blocks of hydrophilic and hydrophobic residues.
Length = 49
Score = 33.0 bits (76), Expect = 0.006
Identities = 12/42 (28%), Positives = 17/42 (40%)
Query: 18 GDNVMIIRGKDKGETGAIKRVIRSQNRVIVEGKNLVKKHIKG 59
GD V ++RG KG G + + V V+G K
Sbjct: 1 GDVVRVLRGPYKGREGVVVDIDPRFGIVTVKGATGSKGAELK 42
>gnl|CDD|240507 cd06083, KOW_Spt5_3, KOW domain of Spt5, repeat 3. Spt5, an
eukaryotic ortholog of NusG, contains multiple KOW
motifs at its C-terminus. Spt5 is involved in
transcription elongation and termination. KOW domain is
known as an RNA-binding motif that is shared so far
among some families of ribosomal proteins, the
essential bacterial transcriptional elongation factor
NusG, the eukaryotic chromatin elongation factor Spt5,
the higher eukaryotic KIN17 proteins and Mtr4. KOW_Spt5
domains play critical roles in recruitment of multiple
other eukaryotic transcription elongation and RNA
biogenesis factors and additionally are involved in the
binding of the eukaryotic Spt5 proteins to RNA
polymerases.
Length = 51
Score = 29.0 bits (66), Expect = 0.19
Identities = 12/30 (40%), Positives = 19/30 (63%), Gaps = 2/30 (6%)
Query: 18 GDNVMIIRGKDKGETGAIKRVIRSQNRVIV 47
GD+V +I G+ +GETG + +V + V V
Sbjct: 5 GDHVKVISGRHEGETGLVVKV--EDDVVTV 32
>gnl|CDD|179820 PRK04313, PRK04313, 30S ribosomal protein S4e; Validated.
Length = 237
Score = 30.6 bits (70), Expect = 0.26
Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 4/49 (8%)
Query: 7 EKLIRHWKILRGDNVMIIRGKDKGETGAIKRVI----RSQNRVIVEGKN 51
++++ H G+ +I GK GE G IK + N V +E K+
Sbjct: 164 QEIVDHIPFEEGNLAIITGGKHVGEIGKIKEIEVTKSSKPNIVTLEDKD 212
>gnl|CDD|240517 cd13153, KOW_GPKOW_B, KOW motif of the "G-patch domain and KOW
motifs-containing protein" (GPKOW) repeat B. GPKOW
contains one G-patch domain and two KOW motifs. GPKOW
is a nuclear protein that regulated by catalytic (C)
subunit of Protein Kinase A (PKA) and bind RNA in vivo.
PKA may be involved in regulating multiple steps in
post-transcriptional processing of pre-mRNAs. KOW
domain is known as an RNA-binding motif that is shared
so far among some families of ribosomal proteins, the
essential bacterial transcriptional elongation factor
NusG, the eukaryotic chromatin elongation factor Spt5,
the higher eukaryotic KIN17 proteins and Mtr4. GPKOW is
also known as the T54 protein or MOS2 homolog.
Length = 51
Score = 27.9 bits (63), Expect = 0.47
Identities = 9/31 (29%), Positives = 18/31 (58%)
Query: 18 GDNVMIIRGKDKGETGAIKRVIRSQNRVIVE 48
G VM++RGK +G+ G + + + +V+
Sbjct: 1 GAYVMVVRGKHRGQVGKLLERDKKKETAVVQ 31
>gnl|CDD|131369 TIGR02316, propion_prpE, propionate--CoA ligase. This family
contains one of three readily separable clades of
proteins in the group of acetate and propionate--CoA
ligases. Characterized members of this family act on
propionate. From propionyl-CoA, there is a cyclic
degradation pathway: it is ligated by PrpC to the TCA
cycle intermediate oxaloacetate, acted upon further by
PrpD and an aconitase, then cleaved by PrpB to pyruvate
and the TCA cycle intermediate succinate.
Length = 628
Score = 30.3 bits (68), Expect = 0.51
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 73 PIHASNVQVLDPVTGKPCKVGTK 95
P++ +++VLD TG+PC K
Sbjct: 415 PMYGYHLRVLDEATGRPCGPNEK 437
>gnl|CDD|240515 cd06091, KOW_NusG, NusG contains an NGN domain at its N-terminus
and KOW motif at its C-terminus. KOW_NusG motif is one
of the two domains of N-Utilization Substance G (NusG)
a transcription elongation and Rho-termination factor
in bacteria and archaea. KOW domain is known as an
RNA-binding motif that is shared so far among some
families of ribosomal proteins, the essential bacterial
transcriptional elongation factor NusG, the eukaryotic
chromatin elongation factor Spt5, the higher eukaryotic
KIN17 proteins and Mtr4. The eukaryotic ortholog of
NusG is Spt5 with multiple KOW motifs at its
C-terminus.
Length = 56
Score = 27.4 bits (62), Expect = 0.73
Identities = 10/31 (32%), Positives = 15/31 (48%)
Query: 18 GDNVMIIRGKDKGETGAIKRVIRSQNRVIVE 48
GD V II G G G ++ + + +V V
Sbjct: 7 GDTVRIISGPFAGFEGKVEEIDEEKGKVKVL 37
>gnl|CDD|129499 TIGR00405, L26e_arch, ribosomal protein L24p/L26e, archaeal. This
protein contains a KOW domain, shared by bacterial NusG
and the L24p/L26e family of ribosomal proteins. Although
called archaeal NusG in several publications, it is the
only close homolog of eukaryotic L26e in archaeal
genomes, shares an operon with L11 in many genomes, and
has been sequenced from purified ribosomes. It is here
designated as a ribosomal protein for these reasons
[Protein synthesis, Ribosomal proteins: synthesis and
modification].
Length = 145
Score = 28.7 bits (64), Expect = 0.80
Identities = 15/34 (44%), Positives = 19/34 (55%)
Query: 15 ILRGDNVMIIRGKDKGETGAIKRVIRSQNRVIVE 48
I +GD V II G KGE + RV S+ V +E
Sbjct: 87 IKKGDIVEIISGPFKGERAKVIRVDESKEEVTLE 120
>gnl|CDD|118166 pfam09632, Rac1, Rac1-binding domain. The Rac1-binding domain is
the C-terminal portion of YpkA from Yersinia. It is an
all-helical molecule consisting of two distinct
subdomains connected by a linker. the N-terminal end,
residues 434-615, consists of six helices organised
into two three-helix bundles packed against each other.
This region is involved with binding to GTPases. The
C-terminal end, residues 705-732. is a novel and
elongated fold consisting of four helices clustered
into two pairs, and this fold carries the helix
implicated in actin activation. Rac1-binding domain
mimics host guanidine nucleotide dissociation
inhibitors (GDIs) of the Rho GTPases, thereby
inhibiting nucleotide exchange in Rac1 and causing
cytoskeletal disruption in the host. It is usually
found downstream of pfam00069.
Length = 297
Score = 29.2 bits (65), Expect = 0.80
Identities = 17/61 (27%), Positives = 31/61 (50%)
Query: 19 DNVMIIRGKDKGETGAIKRVIRSQNRVIVEGKNLVKKHIKGGEGHEGGIFTVEAPIHASN 78
D +++ K + E G K ++S N +I++ ++ ++KG EG T +P H SN
Sbjct: 39 DTMLVALDKAEREGGVDKDQLKSFNSLILKTYGVIASYVKGREGDTKTSSTEVSPYHRSN 98
Query: 79 V 79
Sbjct: 99 F 99
>gnl|CDD|237019 PRK11907, PRK11907, bifunctional 2',3'-cyclic nucleotide
2'-phosphodiesterase/3'-nucleotidase precursor protein;
Reviewed.
Length = 814
Score = 29.4 bits (66), Expect = 0.86
Identities = 20/49 (40%), Positives = 25/49 (51%), Gaps = 6/49 (12%)
Query: 78 NVQVLDPVTG----KPCKVGTKYLEDGTKVRVARGIGASGSIIPRPEIL 122
N VLDP TG P + TK D +V IG +G I+P P+IL
Sbjct: 232 NANVLDPTTGDFLYTPYTIVTKTFTDTEGKKVTLNIGITG-IVP-PQIL 278
>gnl|CDD|236315 PRK08633, PRK08633, 2-acyl-glycerophospho-ethanolamine
acyltransferase; Validated.
Length = 1146
Score = 28.7 bits (65), Expect = 1.3
Identities = 7/26 (26%), Positives = 13/26 (50%)
Query: 69 TVEAPIHASNVQVLDPVTGKPCKVGT 94
+V P+ V+++DP T + G
Sbjct: 961 SVGMPLPGVAVRIVDPETFEELPPGE 986
>gnl|CDD|235147 PRK03643, PRK03643, altronate oxidoreductase; Provisional.
Length = 471
Score = 28.7 bits (65), Expect = 1.4
Identities = 12/24 (50%), Positives = 17/24 (70%)
Query: 23 IIRGKDKGETGAIKRVIRSQNRVI 46
IIRG ++GE + R+IRS +R I
Sbjct: 72 IIRGLNEGEAVSEARLIRSISREI 95
>gnl|CDD|240511 cd06087, KOW_RPS4, KOW motif of Ribosomal Protein S4 (RPS4).
RPS4 plays a critical role in the core assembly of the
small ribosomal subunit with a KOW motif at its
C-terminal. RPS4 also acts as a general transcription
antiterminator factor and regulates ribosomal RNA
expression level. KOW domain is known as an RNA-binding
motif that is shared so far among some families of
ribosomal proteins, the essential bacterial
transcriptional elongation factor NusG, the eukaryotic
chromatin elongation factor Spt5, the higher eukaryotic
KIN17 proteins and Mtr4. RPS4 deficiency in human has
been associated with Turner syndrome. Archeae RPS4
(RPS4e) showed substantial identity to the eukaryotic
equivalents RPS4, but the archaeal proteins formed a
different complex from the eukaryotic proteins.
Length = 55
Score = 26.3 bits (59), Expect = 1.8
Identities = 11/37 (29%), Positives = 18/37 (48%), Gaps = 3/37 (8%)
Query: 18 GDNVMIIRGKDKGETGAIKRVIR---SQNRVIVEGKN 51
G+ M+ G++ G G IK + R S + V V+
Sbjct: 4 GNLAMVTGGRNVGRVGVIKEIERHKGSFDIVHVKDAA 40
>gnl|CDD|223328 COG0250, NusG, Transcription antiterminator [Transcription].
Length = 178
Score = 27.7 bits (62), Expect = 2.2
Identities = 10/34 (29%), Positives = 15/34 (44%)
Query: 15 ILRGDNVMIIRGKDKGETGAIKRVIRSQNRVIVE 48
GD V II G G ++ V + ++ VE
Sbjct: 124 FEPGDVVRIIDGPFAGFKAKVEEVDEEKGKLKVE 157
>gnl|CDD|235781 PRK06333, PRK06333, 3-oxoacyl-(acyl carrier protein) synthase II;
Reviewed.
Length = 424
Score = 28.0 bits (63), Expect = 2.4
Identities = 15/45 (33%), Positives = 20/45 (44%)
Query: 28 DKGETGAIKRVIRSQNRVIVEGKNLVKKHIKGGEGHEGGIFTVEA 72
D GE AIK+V + + V H+ G G IFT+ A
Sbjct: 322 DLGEVAAIKKVFGHVSGLAVSSTKSATGHLLGAAGGVEAIFTILA 366
>gnl|CDD|240512 cd06088, KOW_RPL14, KOW motif of Ribosomal Protein L14. RPL14 is
a component of the large ribosomal subunit in both
archaea and eukaryotes with KOW motif at its N
terminal. KOW domain is known as an RNA-binding motif
that is shared so far among some families of ribosomal
proteins, the essential bacterial transcriptional
elongation factor NusG, the eukaryotic chromatin
elongation factor Spt5, the higher eukaryotic KIN17
proteins and Mtr4. Auto-antibodies to RPL14 in humans
have been associated with systemic lupus erythematosus
. Although RPL14 is well conserved, it is not found in
all archaea, and therefore it is presumably not
essential.
Length = 76
Score = 26.3 bits (59), Expect = 2.6
Identities = 11/30 (36%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 21 VMIIRGKDKGETGAIKRVIRSQNRVIVEGK 50
V+ G+DKG+ I +I +N V+V+G
Sbjct: 7 VLSKAGRDKGKLYVIVDII-DENVVLVDGP 35
>gnl|CDD|236691 PRK10426, PRK10426, alpha-glucosidase; Provisional.
Length = 635
Score = 27.7 bits (62), Expect = 3.0
Identities = 11/19 (57%), Positives = 12/19 (63%)
Query: 56 HIKGGEGHEGGIFTVEAPI 74
H+ GE GG TVEAPI
Sbjct: 592 HLWTGEAFAGGEITVEAPI 610
>gnl|CDD|181467 PRK08559, nusG, transcription antitermination protein NusG;
Validated.
Length = 153
Score = 26.8 bits (60), Expect = 4.3
Identities = 14/31 (45%), Positives = 17/31 (54%)
Query: 18 GDNVMIIRGKDKGETGAIKRVIRSQNRVIVE 48
GD V +I G KGE + RV S+ V VE
Sbjct: 98 GDIVELIAGPFKGEKARVVRVDESKEEVTVE 128
>gnl|CDD|147949 pfam06068, TIP49, TIP49 C-terminus. This family consists of the
C-terminal region of several eukaryotic and archaeal
RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin
or TIP49b) proteins. The N-terminal domain contains the
pfam00004 domain. In zebrafish, the liebeskummer (lik)
mutation, causes development of hyperplastic embryonic
hearts. lik encodes Reptin, a component of a
DNA-stimulated ATPase complex. Beta-catenin and Pontin,
a DNA-stimulated ATPase that is often part of complexes
with Reptin, are in the same genetic pathways. The
Reptin/Pontin ratio serves to regulate heart growth
during development, at least in part via the
beta-catenin pathway. TBP-interacting protein 49 (TIP49)
was originally identified as a TBP-binding protein, and
two related proteins are encoded by individual genes,
tip49a and b. Although the function of this gene family
has not been elucidated, they are supposed to play a
critical role in nuclear events because they interact
with various kinds of nuclear factors and have DNA
helicase activities.TIP49a has been suggested to act as
an autoantigen in some patients with autoimmune
diseases.
Length = 395
Score = 26.9 bits (60), Expect = 5.1
Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 6/44 (13%)
Query: 1 MGWKAAEKLIRHWKILRGDNVMIIRGKDKGETGAIKRVIRSQNR 44
+G K E+L + K+ GD + I + TG +K++ RS R
Sbjct: 159 LGPKIYEQLQKE-KVQAGDVIYIDK-----NTGKVKKLGRSFAR 196
>gnl|CDD|182517 PRK10524, prpE, propionyl-CoA synthetase; Provisional.
Length = 629
Score = 26.8 bits (60), Expect = 6.5
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 73 PIHASNVQVLDPVTGKPCKVGTK 95
P++ NV++L+ VTG+PC K
Sbjct: 416 PMYGYNVKLLNEVTGEPCGPNEK 438
>gnl|CDD|236120 PRK07867, PRK07867, acyl-CoA synthetase; Validated.
Length = 529
Score = 26.2 bits (58), Expect = 9.1
Identities = 10/35 (28%), Positives = 13/35 (37%), Gaps = 2/35 (5%)
Query: 76 ASNVQVLDPVTGKPCKVGTKYLEDGTKVRVARGIG 110
V ++DP TG C DG + IG
Sbjct: 321 PPGVAIVDPDTGTECPPAE--DADGRLLNADEAIG 353
>gnl|CDD|184940 PRK14977, PRK14977, bifunctional DNA-directed RNA polymerase A'/A''
subunit; Provisional.
Length = 1321
Score = 26.1 bits (57), Expect = 9.6
Identities = 24/112 (21%), Positives = 41/112 (36%), Gaps = 1/112 (0%)
Query: 4 KAAEKLIRHWKILRGDNVMIIRGKDKGETGAIKRVIRSQ-NRVIVEGKNLVKKHIKGGEG 62
A+K I H+ G +II + K E + ++ + + +I + K K I G+
Sbjct: 654 IIAKKEILHYGFSNGPGDLIIPDEAKQEIEDDIQGMKDEVSDLIDQRKITRKITIYKGKE 713
Query: 63 HEGGIFTVEAPIHASNVQVLDPVTGKPCKVGTKYLEDGTKVRVARGIGASGS 114
E + A V LD K ++ ++ GA GS
Sbjct: 714 ELLRGMKEEEALEADIVNELDKARDKAGSSANDCIDADNAGKIMAKTGARGS 765
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
0.316 0.138 0.408
Gapped
Lambda K H
0.267 0.0941 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,213,056
Number of extensions: 757515
Number of successful extensions: 697
Number of sequences better than 10.0: 1
Number of HSP's gapped: 685
Number of HSP's successfully gapped: 48
Length of query: 159
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 70
Effective length of database: 6,990,096
Effective search space: 489306720
Effective search space used: 489306720
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (24.6 bits)