RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 040446
(270 letters)
>gnl|CDD|143988 pfam00237, Ribosomal_L22, Ribosomal protein L22p/L17e. This family
includes L22 from prokaryotes and chloroplasts and L17
from eukaryotes.
Length = 105
Score = 128 bits (324), Expect = 9e-38
Identities = 46/105 (43%), Positives = 65/105 (61%)
Query: 112 AVLKGIKQSPKKINLVAALVRGMRVEDALLQLQVTIKRAAKTVYQVIHSARANATHNHGL 171
AV + I+ SPKK LVA L+RG VE+AL L+ K+AAK + +++ SA ANA +N GL
Sbjct: 1 AVARYIRISPKKARLVADLIRGKSVEEALAILEFVPKKAAKIILKLLKSAVANAENNKGL 60
Query: 172 DPDRLLVAEAFVGKGFFKKRVSYHSKGRSGIKVRPECRLTVVVRE 216
DPD L + E FV KG KR ++GR+ + +T+V+ E
Sbjct: 61 DPDNLYIKEIFVDKGPTLKRFRPRARGRATPIRKRTSHITIVLSE 105
>gnl|CDD|238205 cd00336, Ribosomal_L22, Ribosomal protein L22/L17e. L22 (L17 in
eukaryotes) is a core protein of the large ribosomal
subunit. It is the only ribosomal protein that
interacts with all six domains of 23S rRNA, and is one
of the proteins important for directing the proper
folding and stabilizing the conformation of 23S rRNA.
L22 is the largest protein contributor to the surface of
the polypeptide exit channel, the tunnel through which
the polypeptide product passes. L22 is also one of six
proteins located at the putative translocon binding site
on the exterior surface of the ribosome.
Length = 105
Score = 122 bits (310), Expect = 1e-35
Identities = 42/105 (40%), Positives = 64/105 (60%)
Query: 110 VQAVLKGIKQSPKKINLVAALVRGMRVEDALLQLQVTIKRAAKTVYQVIHSARANATHNH 169
+A + ++ SPKK LVA L+RGM V++AL QL+ K+AAK + +++ SA ANA +N
Sbjct: 1 AKAKGRYLRISPKKARLVARLIRGMSVDEALAQLEFVPKKAAKIILKLLKSAEANAENNG 60
Query: 170 GLDPDRLLVAEAFVGKGFFKKRVSYHSKGRSGIKVRPECRLTVVV 214
DPD+L + V KG KR ++GR+ + C +TVV+
Sbjct: 61 LDDPDKLYIKHIQVNKGPTLKRRRPRARGRANPIRKRTCHITVVL 105
>gnl|CDD|234793 PRK00565, rplV, 50S ribosomal protein L22; Reviewed.
Length = 112
Score = 120 bits (303), Expect = 1e-34
Identities = 46/107 (42%), Positives = 69/107 (64%)
Query: 110 VQAVLKGIKQSPKKINLVAALVRGMRVEDALLQLQVTIKRAAKTVYQVIHSARANATHNH 169
+A + ++ SP+K LVA L+RG +VE+AL L+ + K+AA+ V +V+ SA ANA +NH
Sbjct: 3 AKAKARYVRVSPRKARLVADLIRGKKVEEALAILKFSPKKAARLVKKVLKSAIANAENNH 62
Query: 170 GLDPDRLLVAEAFVGKGFFKKRVSYHSKGRSGIKVRPECRLTVVVRE 216
GLD D L+V EA+V +G KR ++GR+ + +TVVV E
Sbjct: 63 GLDIDNLVVKEAYVDEGPTLKRFRPRARGRASRIRKRTSHITVVVAE 109
>gnl|CDD|223169 COG0091, RplV, Ribosomal protein L22 [Translation, ribosomal
structure and biogenesis].
Length = 120
Score = 115 bits (291), Expect = 1e-32
Identities = 47/108 (43%), Positives = 67/108 (62%)
Query: 110 VQAVLKGIKQSPKKINLVAALVRGMRVEDALLQLQVTIKRAAKTVYQVIHSARANATHNH 169
+A + ++ SPKK LVA L+RG +V +AL L+ K+AAK V +V+ SA ANA +N
Sbjct: 11 AKAKARYLRISPKKARLVADLIRGKKVAEALAILEFVPKKAAKLVKKVLESAIANAENNK 70
Query: 170 GLDPDRLLVAEAFVGKGFFKKRVSYHSKGRSGIKVRPECRLTVVVREL 217
GLDPD+L+V+ V KG KR ++GR+ + +TVVVRE
Sbjct: 71 GLDPDKLVVSHIAVDKGPVLKRFMPRARGRATRINKRTSHITVVVREK 118
>gnl|CDD|130116 TIGR01044, rplV_bact, ribosomal protein L22, bacterial type. This
model decribes bacterial and chloroplast ribosomal
protein L22 [Protein synthesis, Ribosomal proteins:
synthesis and modification].
Length = 103
Score = 83.7 bits (207), Expect = 1e-20
Identities = 44/103 (42%), Positives = 62/103 (60%)
Query: 112 AVLKGIKQSPKKINLVAALVRGMRVEDALLQLQVTIKRAAKTVYQVIHSARANATHNHGL 171
A + ++ SP+K LVA L+RG V AL L+ T K+AA + +V+ SA ANA HN+GL
Sbjct: 1 AKARFVRISPRKARLVADLIRGKSVSQALDILRFTPKKAAPLIKKVLASAIANAEHNYGL 60
Query: 172 DPDRLLVAEAFVGKGFFKKRVSYHSKGRSGIKVRPECRLTVVV 214
D D L+V FV +G KR+ +KGR+ + +TVVV
Sbjct: 61 DADNLVVVTIFVDEGPTLKRIRPRAKGRASRIRKRTSHITVVV 103
>gnl|CDD|214342 CHL00034, rpl22, ribosomal protein L22.
Length = 117
Score = 81.1 bits (201), Expect = 2e-19
Identities = 39/113 (34%), Positives = 65/113 (57%), Gaps = 2/113 (1%)
Query: 105 SKPAKVQAVLKGIKQSPKKINLVAALVRGMRVEDALLQLQVTIKRAAKTVYQVIHSARAN 164
+V A+ K I+ S K V +RG E+AL+ L+ RA + ++++SA AN
Sbjct: 5 KSTTEVYALAKYIRMSAHKARRVIDQIRGRSYEEALMILEFMPYRACYPILKLVYSAAAN 64
Query: 165 ATHNHGLDPDRLLVAEAFVGKGFFKKRVSYHSKGRS-GIKVRPECRLTVVVRE 216
A+HN GL+ L +++A V +G KR ++GRS IK +P C +T+V+++
Sbjct: 65 ASHNMGLNKANLFISKAEVDEGPTLKRFRPRAQGRSYPIK-KPTCHITIVLKD 116
>gnl|CDD|138835 PRK12279, PRK12279, 50S ribosomal protein L22/unknown domain fusion
protein; Provisional.
Length = 311
Score = 62.4 bits (151), Expect = 2e-11
Identities = 39/145 (26%), Positives = 70/145 (48%), Gaps = 5/145 (3%)
Query: 111 QAVLKGIKQSPKKINLVAALVRGMRVEDALLQLQVTIKRAAKTVYQVIHSARANATHN-H 169
+ + + I S +K +LV LVR V +A+ L T K+ A V ++++SA +N HN
Sbjct: 4 KVIQRNIHISHRKASLVIDLVRNKPVHEAIRILSNTPKKFAPIVLKLLNSAISNVQHNSK 63
Query: 170 GLDPDRLLVAEAFVGKGFFKKRVSYHSKGRSGIKVRPECRLTVVVRELTAEEEAQIARLR 229
+DP +L + + +G KR +KG + + L +V+ + E E ++A ++
Sbjct: 64 DMDPSKLYIYKIVANQGPTMKRTLPRAKGSADQLFKRTTHLEIVLSDDVNEREKELAAIK 123
Query: 230 VHKFRKLTKREQRLVPHQLIETTPI 254
K +K E P +ET +
Sbjct: 124 AKKSKKPLPVE----PKAKVETKKV 144
>gnl|CDD|179794 PRK04223, rpl22p, 50S ribosomal protein L22P; Reviewed.
Length = 153
Score = 49.5 bits (119), Expect = 1e-07
Identities = 39/153 (25%), Positives = 65/153 (42%), Gaps = 37/153 (24%)
Query: 95 SGKADDQKVVSKPAKVQAVLKGIKQSPKKINLVAALVRGMRVEDALLQLQ--------VT 146
S KAD +K AK A+ + + SPK +A +RGM++++A L+ V
Sbjct: 7 SVKADPEKT----AK--AMGRELPISPKHSVEIAREIRGMKLDEAKAYLEDVIALKRAVP 60
Query: 147 IKR----------------------AAKTVYQVIHSARANATHNHGLDPDRLLVAEAFVG 184
KR AAK +++ +A ANA + GLD ++L++
Sbjct: 61 FKRHNKKVGHRKGIDGWPAGRYPVKAAKAFLKLLENAEANAEYK-GLDTEKLVIVHIAAH 119
Query: 185 KGFFKKRVSYHSKGRSGIKVRPECRLTVVVREL 217
KG K + GR+ K + V++ E+
Sbjct: 120 KGRVIKGYMPRAFGRATPKNTETVNIEVILEEV 152
>gnl|CDD|211620 TIGR01038, L22_arch, ribosomal protein
L22(archaeal)/L17(eukaryotic/archaeal). This model
describes the ribosomal protein of the eukaryotic
cytosol and of the Archaea, variously designated as L17,
L22, and L23. The corresponding bacterial homolog,
described by a separate model, is designated L22
[Protein synthesis, Ribosomal proteins: synthesis and
modification].
Length = 150
Score = 41.3 bits (97), Expect = 9e-05
Identities = 33/144 (22%), Positives = 55/144 (38%), Gaps = 35/144 (24%)
Query: 105 SKPAKVQAVLKGIKQSPKKINLVAALVRGMRVEDALLQLQVTI----------------- 147
+K AK A + ++ S K A +RGM ++ A L+ I
Sbjct: 9 TKSAK--ARGRNLRVSFKNARETARAIRGMELDKARKYLEDVIEMKRAVPFRRYNGKVGH 66
Query: 148 ---------------KRAAKTVYQVIHSARANATHNHGLDPDRLLVAEAFVGKGFFKKRV 192
+AAK + +V+ +A ANA GLD ++L++ KG +R
Sbjct: 67 RRGLKEWGWTAGRYPVKAAKFILKVLQNAEANA-EYKGLDVEKLVIIHIQANKGPKIRRW 125
Query: 193 SYHSKGRSGIKVRPECRLTVVVRE 216
+ GR+ + +VV E
Sbjct: 126 MPRAFGRATPYNSSPTHIELVVEE 149
>gnl|CDD|233400 TIGR01412, tat_substr_1, Tat-translocated enzyme. This model
represents a small family of proteins with a typical Tat
(twin-arginine translocation) signal sequence,
suggesting that the family is exported in a folded
state, perhaps with a bound redox cofactor. Members of
this family show homology to Dyp, a dye-decolorizing
peroxidase from Geotrichum candidum that lacks any
typical heme-binding site.
Length = 414
Score = 32.1 bits (73), Expect = 0.33
Identities = 15/55 (27%), Positives = 27/55 (49%), Gaps = 4/55 (7%)
Query: 189 KKRVSYHSKGRSGIKVRPECRLTVVVRELTAEEEAQIARLRVHKFRKLTKREQRL 243
+ ++ K ++GI + R V ++TA++ I L FR+ T R +RL
Sbjct: 51 SEAYPFYGKHQAGITTPQQARGHFVAFDVTAKDRKAIEAL----FRRWTARARRL 101
>gnl|CDD|222514 pfam14054, DUF4249, Domain of unknown function (DUF4249). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria. Proteins in
this family are typically between 279 and 365 amino
acids in length. There are two completely conserved
residues (C and G) that may be functionally important.
Length = 286
Score = 30.0 bits (68), Expect = 1.3
Identities = 15/70 (21%), Positives = 25/70 (35%), Gaps = 11/70 (15%)
Query: 20 GHNYTASANFYSSRLQSSLLHGQLLHIQNLWTSPSTNISRPLYQYLQQLGISSTRKLLAN 79
G++YT S SL G + ++ +IS Y YL+ L +N
Sbjct: 202 GNSYTLSVYTDDDDDDESLKPGDTVTVRLY------SISEAYYNYLKSL-----NDQSSN 250
Query: 80 SSDETPVSSP 89
++ P
Sbjct: 251 DGGGPFLTEP 260
>gnl|CDD|183926 PRK13260, PRK13260, 2,3-diketo-L-gulonate reductase; Provisional.
Length = 332
Score = 29.3 bits (66), Expect = 1.9
Identities = 14/50 (28%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 71 SSTRKLLANSSDETPVSSPLLAIESGKADDQKVVSKPAKVQAVLKGIKQS 120
+S ++ ++SDE VS +AIE K D ++ AK+Q ++ + +
Sbjct: 244 ASVAEVTEDNSDEYGVSQIFIAIEVDKLIDGA--TRDAKLQRIMDYVTTA 291
>gnl|CDD|236128 PRK07908, PRK07908, hypothetical protein; Provisional.
Length = 349
Score = 28.8 bits (65), Expect = 2.9
Identities = 11/29 (37%), Positives = 12/29 (41%), Gaps = 4/29 (13%)
Query: 159 HSARANATHNHGLDPDRLL----VAEAFV 183
ARA HG PD +L AE F
Sbjct: 61 RRARAAVAARHGRTPDEVLLLAGAAEGFA 89
>gnl|CDD|184179 PRK13608, PRK13608, diacylglycerol glucosyltransferase;
Provisional.
Length = 391
Score = 28.2 bits (63), Expect = 4.8
Identities = 12/25 (48%), Positives = 16/25 (64%), Gaps = 4/25 (16%)
Query: 167 HNHGLDPDR---LLVAEAF-VGKGF 187
++ LDPD+ L+ A AF V KGF
Sbjct: 194 IDNNLDPDKQTILMSAGAFGVSKGF 218
>gnl|CDD|240887 cd12441, RRM_Nup53_like, RNA recognition motif in nucleoporin
Nup53 and similar proteins. This subfamily corresponds
to the RRM domain of nucleoporin Nup53, also termed
mitotic phosphoprotein 44 (MP-44), or nuclear pore
complex protein Nup53, required for normal cell growth
and nuclear morphology in vertebrate. It tightly
associates with the nuclear envelope membrane and the
nuclear lamina where it interacts with lamin B. It may
also interact with a group of nucleoporins including
Nup93, Nup155, and Nup205 and play a role in the
association of the mitotic checkpoint protein Mad1 with
the nuclear pore complex (NPC). The family also
includes Saccharomyces cerevisiae Nup53p, an ortholog
of vertebrate nucleoporin Nup53. A unique property of
yeast Nup53p is that it contains an additional
Kap121p-binding domain and interacts specifically with
the karyopherin Kap121p, which is involved in the
assembly of Nup53p into NPCs. Both, vertebrate Nup35
and yeast Nup53p, contain an atypical RNA recognition
motif (RRM), also termed RBD (RNA binding domain) or
RNP (ribonucleoprotein domain), a C-terminal
amphipathic alpha-helix and several FG repeats. This
family corresponds to the RRM domain which lacks the
conserved residues that typically bind RNA in canonical
RRM domains.
Length = 73
Score = 26.4 bits (59), Expect = 4.9
Identities = 12/38 (31%), Positives = 18/38 (47%), Gaps = 7/38 (18%)
Query: 14 QVGKILGHNYTASANF----YSSRLQSS---LLHGQLL 44
G IL Y AN+ YSSRL++ +G ++
Sbjct: 23 SCGTILEVRYPPGANWIHLKYSSRLEAERALSKNGTII 60
>gnl|CDD|233038 TIGR00593, pola, DNA polymerase I. All proteins in this family for
which functions are known are DNA polymerases Many also
have an exonuclease motif. This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 887
Score = 28.1 bits (63), Expect = 5.7
Identities = 14/56 (25%), Positives = 21/56 (37%), Gaps = 2/56 (3%)
Query: 61 LYQYLQQLGISSTRKLLANSSDETPVSSPLLAIESGKADDQKVVSKPAKVQAVLKG 116
LY LQ+L S L N E+PV + + K K + A + +
Sbjct: 266 LYALLQELEFKSLLDRLENL--ESPVIDDHAPVLTEKTSCAKESEEAAPLANPAEK 319
>gnl|CDD|203043 pfam04546, Sigma70_ner, Sigma-70, non-essential region. The domain
is found in the primary vegetative sigma factor. The
function of this domain is unclear and can be removed
without loss of function.
Length = 211
Score = 27.2 bits (61), Expect = 7.8
Identities = 9/43 (20%), Positives = 16/43 (37%)
Query: 92 AIESGKADDQKVVSKPAKVQAVLKGIKQSPKKINLVAALVRGM 134
AIE +K + + PK+ + + +RGM
Sbjct: 97 AIEKHGRGSKKAQKAREALAEEFMQFRLVPKQFDRLVDNLRGM 139
>gnl|CDD|224202 COG1283, NptA, Na+/phosphate symporter [Inorganic ion transport and
metabolism].
Length = 533
Score = 27.2 bits (61), Expect = 9.7
Identities = 15/68 (22%), Positives = 35/68 (51%), Gaps = 5/68 (7%)
Query: 82 DETPVSSPLLAIESGKADDQKVVSKPAKVQAVLKGIKQSPKKINLVAALVRGMRVEDALL 141
DET + SP++A+ + ++V+ ++ +L+ + + + +R ++EDA+
Sbjct: 322 DETALDSPVVALANAA---REVLRLGDSIEQMLERLYEYIEGDAKKVKEIR--KLEDAVD 376
Query: 142 QLQVTIKR 149
+L IK
Sbjct: 377 RLYEEIKL 384
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
0.318 0.131 0.372
Gapped
Lambda K H
0.267 0.0725 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,366,851
Number of extensions: 1249280
Number of successful extensions: 1140
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1135
Number of HSP's successfully gapped: 27
Length of query: 270
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 175
Effective length of database: 6,723,972
Effective search space: 1176695100
Effective search space used: 1176695100
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 (21.7 bits)
S2: 58 (26.1 bits)