RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 033541
(117 letters)
>gnl|CDD|234566 PRK00004, rplX, 50S ribosomal protein L24; Reviewed.
Length = 105
Score = 74.8 bits (185), Expect = 6e-19
Identities = 37/65 (56%), Positives = 44/65 (67%), Gaps = 4/65 (6%)
Query: 11 VKKHIK-GGEGHEGGIFTVEAPIHASNVQVLDPVTGKPCKVGTKYLEDGTKVRVARGIGA 69
VKKH K E +GGI EAPIH SNV ++DP TGK +VG K+LEDG KVRVA+
Sbjct: 43 VKKHQKPNQENPQGGIIEKEAPIHISNVALVDPKTGKATRVGFKFLEDGKKVRVAKK--- 99
Query: 70 SGSII 74
SG +I
Sbjct: 100 SGEVI 104
>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 = 61.5 bits (150), Expect = 1e-13
Identities = 33/66 (50%), Positives = 41/66 (62%), Gaps = 5/66 (7%)
Query: 11 VKKHIKGGE--GHEGGIFTVEAPIHASNVQVLDPVTGKPCKVGTKYLEDGTKVRVARGIG 68
VKKH+K +GGI EAPIH SNV + DP TGK +VG ++ EDG KVRV +
Sbjct: 42 VKKHVKPKPTQRSQGGIIEKEAPIHISNVMLFDPKTGKATRVGIRFEEDGKKVRVFK--- 98
Query: 69 ASGSII 74
+G II
Sbjct: 99 KTGEII 104
>gnl|CDD|223276 COG0198, RplX, Ribosomal protein L24 [Translation, ribosomal
structure and biogenesis].
Length = 104
Score = 49.2 bits (118), Expect = 6e-09
Identities = 36/57 (63%), Positives = 40/57 (70%), Gaps = 2/57 (3%)
Query: 11 VKKHIKG-GEGHEGGIFTVEAPIHASNVQVLDPV-TGKPCKVGTKYLEDGTKVRVAR 65
VKKHIK E EGGI EAPIH SNV ++DP TGKP +VG K EDG KVRVA+
Sbjct: 41 VKKHIKPSQENPEGGIINKEAPIHISNVAIIDPNKTGKPTRVGYKVEEDGKKVRVAK 97
>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 = 37.5 bits (88), Expect = 1e-04
Identities = 18/30 (60%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 11 VKKHIK-GGEGHEGGIFTVEAPIHASNVQV 39
VKKH+K E +GGI VEAPIH SNV +
Sbjct: 36 VKKHVKPSQENPQGGIIEVEAPIHISNVML 65
>gnl|CDD|183399 PRK12281, rplX, 50S ribosomal protein L24; Reviewed.
Length = 76
Score = 32.3 bits (74), Expect = 0.010
Identities = 13/33 (39%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 8 CVQVKKHIKGGEGH-EGGIFTVEAPIHASNVQV 39
KK IK + + GG E PIH SNV+
Sbjct: 42 VKIAKKAIKPSQKNPNGGFIEKEMPIHISNVKK 74
>gnl|CDD|214374 CHL00141, rpl24, ribosomal protein L24; Validated.
Length = 83
Score = 30.8 bits (70), Expect = 0.050
Identities = 15/32 (46%), Positives = 18/32 (56%), Gaps = 1/32 (3%)
Query: 12 KKHIKGG-EGHEGGIFTVEAPIHASNVQVLDP 42
KHIK E G I EAPIH+SNV + +
Sbjct: 48 FKHIKPNKENEVGEIKQFEAPIHSSNVMLYNE 79
>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 = 29.9 bits (67), Expect = 0.29
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 31 PIHASNVQVLDPVTGKPCKVGTK 53
P++ +++VLD TG+PC K
Sbjct: 415 PMYGYHLRVLDEATGRPCGPNEK 437
>gnl|CDD|237019 PRK11907, PRK11907, bifunctional 2',3'-cyclic nucleotide
2'-phosphodiesterase/3'-nucleotidase precursor protein;
Reviewed.
Length = 814
Score = 29.1 bits (65), Expect = 0.55
Identities = 20/49 (40%), Positives = 25/49 (51%), Gaps = 6/49 (12%)
Query: 36 NVQVLDPVTG----KPCKVGTKYLEDGTKVRVARGIGASGSIIPRPEIL 80
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 = 0.59
Identities = 7/26 (26%), Positives = 13/26 (50%)
Query: 27 TVEAPIHASNVQVLDPVTGKPCKVGT 52
+V P+ V+++DP T + G
Sbjct: 961 SVGMPLPGVAVRIVDPETFEELPPGE 986
>gnl|CDD|236691 PRK10426, PRK10426, alpha-glucosidase; Provisional.
Length = 635
Score = 28.0 bits (63), Expect = 1.1
Identities = 11/19 (57%), Positives = 12/19 (63%)
Query: 14 HIKGGEGHEGGIFTVEAPI 32
H+ GE GG TVEAPI
Sbjct: 592 HLWTGEAFAGGEITVEAPI 610
>gnl|CDD|238656 cd01346, Maltoporin-like, The Maltoporin-like channels (LamB porin)
form a trimeric structure which facilitate the diffusion
of maltodextrins and other sugars across the outer
membrane of Gram-negative bacteria. The membrane channel
is formed by an 18-strand antiparallel beta-barrel
(18,22). Loop 3 folds into the core to constrict pore
size. Long irregular loops are found on the
extracelllular side, while short turns are in the
periplasm.Tightly-bound water molecules are found in the
eyelet of the passage, and only substrates that can
displace and replace the broken hydrogen bonds are
likely to enter the pore. In the MPR structure, loops
4,6, and 9 have the greatest mobility and are highly
variable; these are postulated to attract maltodextrins.
Length = 392
Score = 26.6 bits (59), Expect = 3.4
Identities = 8/29 (27%), Positives = 10/29 (34%)
Query: 51 GTKYLEDGTKVRVARGIGASGSIIPRPEI 79
G K+ VA A RPE+
Sbjct: 323 GVTDDGSLYKLTVAPTFSAGTDFWSRPEL 351
>gnl|CDD|182517 PRK10524, prpE, propionyl-CoA synthetase; Provisional.
Length = 629
Score = 26.4 bits (59), Expect = 3.5
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 31 PIHASNVQVLDPVTGKPCKVGTK 53
P++ NV++L+ VTG+PC K
Sbjct: 416 PMYGYNVKLLNEVTGEPCGPNEK 438
>gnl|CDD|183498 PRK12395, PRK12395, maltoporin; Provisional.
Length = 419
Score = 26.5 bits (58), Expect = 3.7
Identities = 9/31 (29%), Positives = 15/31 (48%)
Query: 49 KVGTKYLEDGTKVRVARGIGASGSIIPRPEI 79
G+ Y + G K +A G+ + RPE+
Sbjct: 354 HNGSNYKQGGEKYTIALGLAEGPDFLSRPEL 384
>gnl|CDD|236120 PRK07867, PRK07867, acyl-CoA synthetase; Validated.
Length = 529
Score = 26.2 bits (58), Expect = 5.6
Identities = 10/35 (28%), Positives = 13/35 (37%), Gaps = 2/35 (5%)
Query: 34 ASNVQVLDPVTGKPCKVGTKYLEDGTKVRVARGIG 68
V ++DP TG C DG + IG
Sbjct: 321 PPGVAIVDPDTGTECPPAE--DADGRLLNADEAIG 353
>gnl|CDD|100598 PRK00561, ppnK, inorganic polyphosphate/ATP-NAD kinase;
Provisional.
Length = 259
Score = 25.6 bits (56), Expect = 6.1
Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 11/53 (20%)
Query: 69 ASGSII-PRPEILKI----------RTTPRPTVAGPKDTPVDLVMKKTYDAKS 110
A G++I PR ++++I +TT + + P DT V+ +KK +D
Sbjct: 155 AKGAVIFPRIDVIQIIELNPLLHPNQTTIQSPIILPIDTKVEFEIKKAFDHDQ 207
>gnl|CDD|181631 PRK09059, PRK09059, dihydroorotase; Validated.
Length = 429
Score = 25.4 bits (56), Expect = 8.9
Identities = 15/41 (36%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 31 PIHASNVQVLDPVTGKPCKVGTKYLEDGTKVRVARGIGASG 71
PI +N +++DP G ++GT +EDG V +G G G
Sbjct: 4 PILLANARIIDPSRGLD-EIGTVLIEDGVIVAAGKGAGNQG 43
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 0.419
Gapped
Lambda K H
0.267 0.0768 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,974,713
Number of extensions: 510802
Number of successful extensions: 392
Number of sequences better than 10.0: 1
Number of HSP's gapped: 391
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 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.1 bits)