RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4237
(225 letters)
>gnl|CDD|215771 pfam00177, Ribosomal_S7, Ribosomal protein S7p/S5e. This family
contains ribosomal protein S7 from prokaryotes and S5
from eukaryotes.
Length = 149
Score = 108 bits (273), Expect = 4e-30
Identities = 49/151 (32%), Positives = 81/151 (53%), Gaps = 17/151 (11%)
Query: 67 STFYNPVKEKFINYMMKKGNKELAREVFEYTVKSIKRIQIEKYNKATSDEERESIILDPY 126
+ + + EK IN +MK G K LA ++ ++ I+ EK K +P
Sbjct: 16 PKYNSALVEKLINKLMKDGKKSLAEKIVYDALEIIE----EKTGK------------NPL 59
Query: 127 VIIDKAIENTKPILKLRSIKRAAVTYQVPIPISDKEARFKCMKWHIEIAKDKPSEVRFSD 186
++ +AIEN KP ++++S + TYQVP+ +S + ++W +E A+ + S ++
Sbjct: 60 EVLVQAIENVKPRVEVKSRRVGGATYQVPVEVSPERRVALAIRWILEAARKR-SGKSMAE 118
Query: 187 NLAQILIDGADNKGKVVKKKTDLHRQCEANR 217
LA LID A+NKG +KKK + H+ EANR
Sbjct: 119 KLANELIDAANNKGSAIKKKEETHKMAEANR 149
>gnl|CDD|235398 PRK05302, PRK05302, 30S ribosomal protein S7; Validated.
Length = 156
Score = 102 bits (258), Expect = 7e-28
Identities = 52/149 (34%), Positives = 85/149 (57%), Gaps = 17/149 (11%)
Query: 76 KFINYMMKKGNKELAREVFEYTVKSIKRIQIEKYNKATSDEERESIILDPYVIIDKAIEN 135
KFIN +M G K +A ++ Y ++ I+ EK K DP + +KA+EN
Sbjct: 25 KFINKLMLDGKKSVAEKIV-Y--GALDIIE-EKTGK------------DPLEVFEKALEN 68
Query: 136 TKPILKLRSIKRAAVTYQVPIPISDKEARFKCMKWHIEIAKDKPSEVRFSDNLAQILIDG 195
KP+++++S + TYQVP+ + + + M+W +E A+ + E ++ LA L+D
Sbjct: 69 VKPVVEVKSRRVGGATYQVPVEVRPERRQALAMRWLVEAARKR-GEKTMAERLANELLDA 127
Query: 196 ADNKGKVVKKKTDLHRQCEANRAYAHYYF 224
A+N+G VKK+ D HR EAN+A+AHY +
Sbjct: 128 ANNRGAAVKKREDTHRMAEANKAFAHYRW 156
>gnl|CDD|233238 TIGR01029, rpsG_bact, ribosomal protein S7, bacterial/organelle.
This model describes the bacterial and organellar branch
of the ribosomal protein S7 family (includes prokaroytic
S7 and eukaryotic S5). The eukaryotic and archaeal
branch is described by model TIGR01028 [Protein
synthesis, Ribosomal proteins: synthesis and
modification].
Length = 154
Score = 92.0 bits (229), Expect = 1e-23
Identities = 48/148 (32%), Positives = 76/148 (51%), Gaps = 17/148 (11%)
Query: 75 EKFINYMMKKGNKELAREVFEYTVKSIKRIQIEKYNKATSDEERESIILDPYVIIDKAIE 134
KFIN +MK G K LA + + I +K + DP + ++A+E
Sbjct: 22 NKFINRVMKDGKKSLAESIVYKAFERIA----KKTGE------------DPLEVFEQALE 65
Query: 135 NTKPILKLRSIKRAAVTYQVPIPISDKEARFKCMKWHIEIAKDKPSEVRFSDNLAQILID 194
N KP+++++S + TYQVP+ + ++W IE A K ++ LA ++D
Sbjct: 66 NVKPLVEVKSRRVGGATYQVPVEVRPSRRYALAIRWLIEAA-RKRGGKSMAERLANEILD 124
Query: 195 GADNKGKVVKKKTDLHRQCEANRAYAHY 222
A+N G +KK+ D HR EAN+A+AHY
Sbjct: 125 AANNTGAAIKKREDTHRMAEANKAFAHY 152
>gnl|CDD|223127 COG0049, RpsG, Ribosomal protein S7 [Translation, ribosomal
structure and biogenesis].
Length = 148
Score = 88.0 bits (219), Expect = 4e-22
Identities = 46/147 (31%), Positives = 76/147 (51%), Gaps = 17/147 (11%)
Query: 71 NPVKEKFINYMMKKGNKELAREVFEYTVKSIKRIQIEKYNKATSDEERESIILDPYVIID 130
+ + E+ IN +M+ G K LA ++ I+ +K + +P + +
Sbjct: 19 SVIVERLINKIMRDGKKSLAEKIVYGAFDIIE----KKTGQ------------NPLQVFE 62
Query: 131 KAIENTKPILKLRSIKRAAVTYQVPIPISDKEARFKCMKWHIEIAKDKPSEVRFSDNLAQ 190
KAIEN KP +++S + TYQVP+ + + ++W +E A+ + +E ++ LA
Sbjct: 63 KAIENVKPREEVKSRRVGGATYQVPVEVRPRRRVALALRWIVEGARKR-NEKTMAERLAN 121
Query: 191 ILIDGADNKGKVVKKKTDLHRQCEANR 217
LID A+N G +KKK D HR EANR
Sbjct: 122 ELIDAANNTGAAIKKKEDTHRMAEANR 148
>gnl|CDD|176994 CHL00053, rps7, ribosomal protein S7.
Length = 155
Score = 84.6 bits (210), Expect = 9e-21
Identities = 39/145 (26%), Positives = 72/145 (49%), Gaps = 17/145 (11%)
Query: 78 INYMMKKGNKELAREVFEYTVKSIKRIQIEKYNKATSDEERESIILDPYVIIDKAIENTK 137
+N ++K G K LA + +K I+ +K K +P ++ +AI N
Sbjct: 27 VNRILKSGKKSLAYRIVYRALKKIQ----QKTEK------------NPLSVLRQAIRNVT 70
Query: 138 PILKLRSIKRAAVTYQVPIPISDKEARFKCMKWHIEIAKDKPSEVRFSDNLAQILIDGAD 197
P +++++ + TYQVPI I + ++W ++ ++ + + L+ L+D A
Sbjct: 71 PDVEVKARRVGGSTYQVPIEIGSTRGKALAIRWLLKASRKRSGR-NMAFKLSSELVDAAK 129
Query: 198 NKGKVVKKKTDLHRQCEANRAYAHY 222
G ++KK + HR EANRA+AH+
Sbjct: 130 GSGNAIRKKEETHRMAEANRAFAHF 154
>gnl|CDD|211618 TIGR01028, S7_S5_E_A, ribosomal protein
S7(archaeal)/S5(eukaryotic). This model describes the
members from the eukaryotic cytosol and the Archaea of
the family that includes ribosomal protein S7 of
bacteria and S5 of eukaryotes. A separate model
describes bacterial and organellar S7 [Protein
synthesis, Ribosomal proteins: synthesis and
modification].
Length = 186
Score = 34.7 bits (80), Expect = 0.018
Identities = 37/157 (23%), Positives = 64/157 (40%), Gaps = 30/157 (19%)
Query: 72 PVKEKFINYMMKK----GNKELAREVFEYTVKSIKRIQIEKYNKATSDEERESIILDPYV 127
P+ E+ IN +M+ G K A + + + I K T + +P
Sbjct: 49 PIVERLINKVMRSGRNNGKKLKAYRIVKEAFEII--------EKRTGE--------NPIQ 92
Query: 128 IIDKAIENTKPILKLRSIKRAAVTYQVPIPIS-----DKEARFKCMKWHIEIAKDKPSEV 182
++ AIEN P I + Y+ + IS D+ R + ++K S
Sbjct: 93 VLVDAIENAGPREDTTRIGYGGIVYRQAVDISPLRRVDQALRNIALGAREAAFRNKKS-- 150
Query: 183 RFSDNLAQILIDGA--DNKGKVVKKKTDLHRQCEANR 217
++ LA+ +I A D+K +KKK +L R ++ R
Sbjct: 151 -IAECLAEEIILAANGDSKSYAIKKKEELERVAKSAR 186
>gnl|CDD|130148 TIGR01076, sortase_fam, LPXTG-site transpeptidase (sortase) family
protein. This family includes Staphylococcus aureus
sortase, a transpeptidase that attaches surface proteins
by the Thr of an LPXTG motif to the cell wall. It also
includes a protein required for correct assembly of an
LPXTG-containing fimbrial protein, a set of homologous
proteins from Streptococcus pneumoniae, in which LPXTG
proteins are common. However, related proteins are found
in Bacillus subtilis and Methanobacterium
thermoautotrophicum, in which LPXTG-mediated cell wall
attachment is not known [Cell envelope, Other, Protein
fate, Protein and peptide secretion and trafficking].
Length = 136
Score = 27.8 bits (62), Expect = 2.9
Identities = 13/53 (24%), Positives = 22/53 (41%), Gaps = 6/53 (11%)
Query: 82 MKKGNK---ELAREVFEYTVKSIKRIQIEKYNKATSDEERESIIL---DPYVI 128
+KKG+ + EV Y V S K ++ ++ + L PY+I
Sbjct: 64 LKKGDMLYLHVGNEVLTYQVTSTKIVEPTDTEVLLIQHGKDYLTLITCTPYMI 116
>gnl|CDD|235759 PRK06264, cbiC, precorrin-8X methylmutase; Validated.
Length = 210
Score = 27.4 bits (61), Expect = 5.7
Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 12/75 (16%)
Query: 106 IEKYNKATSDEERESIIL---DPYVIIDKAIENTKPILKLRSIKRAAVTYQ-VPIPISDK 161
IE+ AT+D E +++ DP AI++ KPI+ ++ +A + Y V IS+
Sbjct: 42 IERVVHATADPEYAKLVVFSNDPIEEGLDAIKDKKPIIVDINMVKAGIRYNNVYCFISEP 101
Query: 162 EARFKCMKWHIEIAK 176
E E+AK
Sbjct: 102 EVF--------ELAK 108
>gnl|CDD|165272 PHA02967, PHA02967, hypothetical protein; Provisional.
Length = 128
Score = 26.9 bits (59), Expect = 5.7
Identities = 9/17 (52%), Positives = 13/17 (76%)
Query: 22 RSASFGPQFIDPIFKHE 38
++ +F P FI+P FKHE
Sbjct: 3 KNINFSPVFIEPRFKHE 19
>gnl|CDD|192723 pfam11217, DUF3013, Protein of unknown function (DUF3013). This
bacterial family of proteins with unknown function
appear to be restricted to Firmicutes.
Length = 159
Score = 26.9 bits (60), Expect = 6.9
Identities = 14/47 (29%), Positives = 18/47 (38%), Gaps = 9/47 (19%)
Query: 59 PPTSFQTCSTFYNPVKEKF--------INYMMKKG-NKELAREVFEY 96
F+ FYNP K F I Y KKG ++E +Y
Sbjct: 60 DIVEFEDAVLFYNPAKSGFDADDYLVVIPYEGKKGLSREFLAYFAQY 106
>gnl|CDD|163650 cd07407, MPP_YHR202W_N, Saccharomyces cerevisiae YHR202W and
related proteins, N-terminal metallophosphatase domain.
YHR202W is an uncharacterized Saccharomyces cerevisiae
UshA-like protein with two domains, an N-terminal
metallophosphatase domain and a C-terminal nucleotidase
domain. The N-terminal metallophosphatase domain
belongs to a large superfamily of distantly related
metallophosphatases (MPPs) that includes:
Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
debranching enzymes, YfcE-like phosphodiesterases,
purple acid phosphatases (PAPs), YbbF-like
UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). MPPs are functionally
diverse, but all share a conserved domain with an active
site consisting of two metal ions (usually manganese,
iron, or zinc) coordinated with octahedral geometry by a
cage of histidine, aspartate, and asparagine residues.
The conserved domain is a double beta-sheet sandwich
with a di-metal active site made up of residues located
at the C-terminal side of the sheets. This domain is
thought to allow for productive metal coordination.
Length = 282
Score = 27.3 bits (61), Expect = 7.1
Identities = 10/29 (34%), Positives = 15/29 (51%), Gaps = 1/29 (3%)
Query: 28 PQFIDPIFKHEDIDRI-IANNELKNYTDV 55
+ +PIF+ D + I N+EL NY
Sbjct: 74 GSYSNPIFRMMPYDLLTIGNHELYNYEVA 102
>gnl|CDD|233435 TIGR01488, HAD-SF-IB, Haloacid Dehalogenase superfamily, subfamily
IB, phosphoserine phosphatase-like. This model
represents a subfamily of the Haloacid Dehalogenase
superfamily of aspartate-nucleophile hydrolases.
Subfamily IA, B, C and D are distinguished from the rest
of the superfamily by the presence of a variable domain
between the first and second conserved catalytic motifs.
In subfamilies IA and IB, this domain consists of an
alpha-helical bundle. It was necessary to model these
two subfamilies separately, breaking them at a an
apparent phylogenetic bifurcation, so that the resulting
model(s) are not so broadly defined that members of
subfamily III (which lack the variable domain) are
included. Subfamily IA includes the enzyme phosphoserine
phosphatase (TIGR00338) as well as three hypothetical
equivalogs. Many members of these hypothetical
equivalogs have been annotated as PSPase-like or
PSPase-family proteins. In particular, the hypothetical
equivalog which appears to be most closely related to
PSPase contains only Archaea (while TIGR00338 contains
only eukaryotes and bacteria) of which some are
annotated as PSPases. Although this is a reasonable
conjecture, none of these sequences has sufficient
evidence for this assignment. If such should be found,
this model should be retired while the PSPase model
should be broadened to include these sequences [Unknown
function, Enzymes of unknown specificity].
Length = 177
Score = 26.6 bits (59), Expect = 9.3
Identities = 10/38 (26%), Positives = 18/38 (47%), Gaps = 2/38 (5%)
Query: 17 FKTAVRSASFGPQFIDPIFKHEDIDRIIANNELKNYTD 54
T + S F F++P+ + ID + A N L+ +
Sbjct: 90 IDTVIVSGGFDF-FVEPVAEKLGIDDVFA-NRLEFDDN 125
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
0.319 0.134 0.388
Gapped
Lambda K H
0.267 0.0685 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,502,103
Number of extensions: 1094547
Number of successful extensions: 1080
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1068
Number of HSP's successfully gapped: 31
Length of query: 225
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 132
Effective length of database: 6,812,680
Effective search space: 899273760
Effective search space used: 899273760
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: 57 (25.8 bits)