RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 024515
(266 letters)
>gnl|CDD|235523 PRK05592, rplO, 50S ribosomal protein L15; Reviewed.
Length = 146
Score = 181 bits (462), Expect = 4e-58
Identities = 83/155 (53%), Positives = 100/155 (64%), Gaps = 10/155 (6%)
Query: 75 RLNNLGPQPGSRKRGKRKGRGIAAGQGNSCGFGMRGQKSRSGPGVRKGFEGGQMPLYRRI 134
+LN L P PGSRK KR GRGI +G G + G G +GQK+RSG GVR GFEGGQMPLYRR+
Sbjct: 2 KLNELKPAPGSRKARKRVGRGIGSGLGKTAGRGHKGQKARSGGGVRPGFEGGQMPLYRRL 61
Query: 135 PKLRGIAGGMHAGLPKYVPVNLKDIEAAGFLEGDEVSLETLKKKGLINPSGRERKLPLKI 194
PK RG +Y VNL D+ F EG EV+LE LK GLI R+ +K+
Sbjct: 62 PK-RGFTNIFRK---EYAVVNLGDLNK--FEEGTEVTLEALKAAGLI----RKNIKGVKV 111
Query: 195 LGDGELSKKLNFKARAFSTSAKEKLEAAGCTLTVL 229
LG+GEL+KKL KA FS SAKE +EAAG + +
Sbjct: 112 LGNGELTKKLTVKAHKFSKSAKEAIEAAGGKVEEI 146
>gnl|CDD|233260 TIGR01071, rplO_bact, ribosomal protein L15, bacterial/organelle.
[Protein synthesis, Ribosomal proteins: synthesis and
modification].
Length = 145
Score = 145 bits (368), Expect = 6e-44
Identities = 74/154 (48%), Positives = 98/154 (63%), Gaps = 10/154 (6%)
Query: 75 RLNNLGPQPGSRKRGKRKGRGIAAGQGNSCGFGMRGQKSRSGPGVRKGFEGGQMPLYRRI 134
+LN L P G++KR KR GRGI +G G + G G +GQK+RSG VR+GFEGGQMPLYRR+
Sbjct: 1 KLNELKPAKGAKKRRKRVGRGIGSGLGKTSGRGHKGQKARSGGKVRRGFEGGQMPLYRRL 60
Query: 135 PKLRGIAGGMHAGLPK-YVPVNLKDIEAAGFLEGDEVSLETLKKKGLINPSGRERKLPLK 193
PK G + K Y VNL + F G+ V+LETLK+KGLI ++ +K
Sbjct: 61 PKR----GFSNKRFKKEYAEVNLGKLAKL-FPNGEVVTLETLKEKGLIT----KKIKFVK 111
Query: 194 ILGDGELSKKLNFKARAFSTSAKEKLEAAGCTLT 227
+LG+G+L+K L KA S SAK +EAAG ++
Sbjct: 112 VLGNGKLTKPLTVKAHRVSKSAKAAIEAAGGSVE 145
>gnl|CDD|223278 COG0200, RplO, Ribosomal protein L15 [Translation, ribosomal
structure and biogenesis].
Length = 152
Score = 123 bits (311), Expect = 3e-35
Identities = 75/157 (47%), Positives = 100/157 (63%), Gaps = 9/157 (5%)
Query: 75 RLNNLGPQPGSRKRGKRKGRGIAAGQGNSCGFGMRGQKSRSGPG-VRKGFEGGQMPLYRR 133
RLN+L P GS+K KR GRGI +G G + G G +GQK+RSG VR GFEGGQMPLYRR
Sbjct: 2 RLNDLKPARGSKKTRKRVGRGIGSGLGKTGGRGHKGQKARSGHKWVRPGFEGGQMPLYRR 61
Query: 134 IPKLRGIAGGMHAGLPKYVPVNLKDIEAAGFLEGDEVSLETLKKKGLINPSGRERKLPLK 193
+PK RG +Y VNL + A EG+EV+L +LK G+I R+ K +K
Sbjct: 62 LPK-RGFTNSKFK-KVEYAVVNLGKL-AELLPEGEEVTLASLKAAGVI----RKLKDLVK 114
Query: 194 ILGDGELSKKLNFKARA-FSTSAKEKLEAAGCTLTVL 229
+LG+G+L+K + K +A S SA EK+EAAG + ++
Sbjct: 115 VLGNGKLTKAVPVKVKAKASKSAIEKIEAAGGKVELI 151
>gnl|CDD|216140 pfam00828, Ribosomal_L18e, Ribosomal protein L18e/L15. This family
includes eukaryotic L18 as well as prokaryotic L15.
Length = 122
Score = 96.9 bits (242), Expect = 2e-25
Identities = 50/130 (38%), Positives = 70/130 (53%), Gaps = 10/130 (7%)
Query: 100 QGNSCGFGMRGQKSRSGPGVRKGFEGGQMPLYRRIPKLRGIAGGMHAGLPKYVPVNLKDI 159
G + G G +G + R+G FEGGQ+PLYRR+ K RG + PVNL +
Sbjct: 3 IGKTRGRGRKGGRGRAGGQKHH-FEGGQVPLYRRLGK-RGFRK-LFKSRKNRPPVNLSKL 59
Query: 160 EAAGFLEGDEVSLETLKKKGLINPSGRERKLPLKILGDGELSKKLNFKARAFSTSAKEKL 219
+ +G+EV ETL G + +K+LG+GEL+K L KA FS SA+EK+
Sbjct: 60 DRKMLKDGEEVDGETLVVVGTV-------TDDVKVLGNGELTKPLTVKALKFSKSAREKI 112
Query: 220 EAAGCTLTVL 229
E AG + +L
Sbjct: 113 EKAGGEVVLL 122
>gnl|CDD|235799 PRK06419, rpl15p, 50S ribosomal protein L15P; Reviewed.
Length = 148
Score = 44.4 bits (106), Expect = 8e-06
Identities = 17/31 (54%), Positives = 23/31 (74%)
Query: 193 KILGDGELSKKLNFKARAFSTSAKEKLEAAG 223
K+LG G++++ L KA AFS A EK+EAAG
Sbjct: 109 KVLGGGKVTRPLVIKADAFSEKAIEKIEAAG 139
>gnl|CDD|235196 PRK04005, PRK04005, 50S ribosomal protein L18e; Provisional.
Length = 111
Score = 40.2 bits (95), Expect = 1e-04
Identities = 17/34 (50%), Positives = 23/34 (67%)
Query: 191 PLKILGDGELSKKLNFKARAFSTSAKEKLEAAGC 224
P K+LG G+L K+ A +FS +AKEK+E AG
Sbjct: 56 PGKVLGSGKLDHKVTVAALSFSETAKEKIEEAGG 89
>gnl|CDD|224641 COG1727, RPL18A, Ribosomal protein L18E [Translation, ribosomal
structure and biogenesis].
Length = 122
Score = 37.7 bits (88), Expect = 0.001
Identities = 18/35 (51%), Positives = 24/35 (68%)
Query: 191 PLKILGDGELSKKLNFKARAFSTSAKEKLEAAGCT 225
P K+LGDG+L KK+ A FS +A+EK+E AG
Sbjct: 67 PGKVLGDGKLDKKVTVAALRFSKTAREKIEEAGGE 101
>gnl|CDD|185489 PTZ00160, PTZ00160, 60S ribosomal protein L27a; Provisional.
Length = 147
Score = 36.9 bits (86), Expect = 0.003
Identities = 50/156 (32%), Positives = 68/156 (43%), Gaps = 25/156 (16%)
Query: 85 SRKRGKRKGRGIAAGQGNSCGFGMRGQKSRSGPGVRKGFEGGQMPLYRRI------PKLR 138
+R + RK RG S G+G G K R PG R G GGQ + RI P
Sbjct: 3 TRFKKCRKMRGHV-----SHGYGRVG-KHRKHPGGR-GNAGGQH--HHRINFDKYHPGYF 53
Query: 139 GIAGGMHAGL---PKYVP-VNLKDIEAAGFLEGDEVSLETLKKKGLINPSGRERKLPLKI 194
G G H L Y P +N+ + + L +E + KK + K+
Sbjct: 54 GKVGMRHFHLKKNKYYCPTINVDKLWS---LVPEETRYKYAKKGDKAPVIDVTKAGYFKV 110
Query: 195 LGDGELSKK-LNFKARAFSTSAKEKLEAAG--CTLT 227
LG G L K+ + KAR FS A++K++A G C LT
Sbjct: 111 LGKGHLPKQPVIVKARYFSKKAEKKIKAVGGACVLT 146
>gnl|CDD|146808 pfam04361, DUF494, Protein of unknown function (DUF494). Members
of this family of uncharacterized proteins are often
named Smg.
Length = 155
Score = 30.3 bits (69), Expect = 0.65
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 159 IEAAGFLEGDEVSLETLK 176
I+ A L+G+E+SL+ LK
Sbjct: 105 IDRAMALDGEEISLDDLK 122
>gnl|CDD|178145 PLN02530, PLN02530, histidine-tRNA ligase.
Length = 487
Score = 29.3 bits (66), Expect = 2.4
Identities = 25/70 (35%), Positives = 32/70 (45%), Gaps = 16/70 (22%)
Query: 123 FEGGQMPLYRRIPKLRGIAGGMHAG-----LPKYVPVNLKDIEAAGFLEGDEVSLETLKK 177
FEG + R KLR I GG G L + +D A GF GD V +E LK+
Sbjct: 343 FEG-----FDRAGKLRAICGG---GRYDRLLSTF---GGEDTPACGFGFGDAVIVELLKE 391
Query: 178 KGLINPSGRE 187
KGL+ +
Sbjct: 392 KGLLPELPHQ 401
>gnl|CDD|219208 pfam06865, DUF1255, Protein of unknown function (DUF1255). This
family consists of several conserved hypothetical
bacterial proteins of around 95 residues in length. The
function of this family is unknown.
Length = 94
Score = 27.1 bits (61), Expect = 3.1
Identities = 12/28 (42%), Positives = 14/28 (50%), Gaps = 1/28 (3%)
Query: 211 FSTSAKEKLEAAGCTLTV-LPGRKKWVK 237
F TSA E +E L V LPG +W
Sbjct: 37 FGTSAPEIMEVVSGALEVKLPGSDEWQT 64
>gnl|CDD|239188 cd02787, MopB_CT_ydeP, The MopB_CT_ydeP CD includes a group of
related uncharacterized bacterial molybdopterin-binding
oxidoreductase-like domains with a putative
molybdopterin cofactor binding site. This CD is of the
conserved molybdopterin_binding C-terminal (MopB_CT)
region present in many, but not all, MopB homologs.
Length = 112
Score = 26.9 bits (60), Expect = 4.9
Identities = 14/44 (31%), Positives = 18/44 (40%), Gaps = 5/44 (11%)
Query: 136 KLRGIAGGMHAGLPKYVPVNLKDIEAAGFLEGDEVSLETLKKKG 179
+ RG+ G V +N DI G GD V LE+ G
Sbjct: 22 RYRGVFGRRDV-----VFMNPDDIARLGLKAGDRVDLESAFGDG 60
>gnl|CDD|236141 PRK08032, fliD, flagellar capping protein; Reviewed.
Length = 462
Score = 27.7 bits (62), Expect = 6.6
Identities = 11/45 (24%), Positives = 23/45 (51%)
Query: 184 SGRERKLPLKILGDGELSKKLNFKARAFSTSAKEKLEAAGCTLTV 228
+G + + + + GD +L+ LN+ + S + + + A LTV
Sbjct: 186 TGTDNAMTISVEGDSKLNDFLNYDSSTGSGNMTQSVAAQNAKLTV 230
>gnl|CDD|217877 pfam04079, DUF387, Putative transcriptional regulators (Ypuh-like).
This family of conserved bacterial proteins are thought
to possibly be helix-turn-helix type transcriptional
regulators.
Length = 159
Score = 27.1 bits (61), Expect = 7.2
Identities = 17/53 (32%), Positives = 23/53 (43%), Gaps = 8/53 (15%)
Query: 159 IEAAGFLEGDEVSLETLKKKGLINPSGRERKLPLKILGDGELSKKLNFKARAF 211
IEA F G+ +SLE L K I S E + L EL ++ + R
Sbjct: 3 IEALLFAAGEPLSLEELAK---ILGSREEVREALD-----ELKEEYEDRDRGL 47
>gnl|CDD|239140 cd02677, MIT_SNX15, MIT: domain contained within Microtubule
Interacting and Trafficking molecules. This MIT domain
sub-family is found in sorting nexin 15 and related
proteins. The molecular function of the MIT domain is
unclear.
Length = 75
Score = 25.8 bits (57), Expect = 7.6
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 228 VLPGRKKWVKPSVAKNLARAEEYF 251
P R++ VK +A+ L RAEE
Sbjct: 44 SSPERREAVKRKIAEYLKRAEEIL 67
>gnl|CDD|214697 smart00498, FH2, Formin Homology 2 Domain. FH proteins control
rearrangements of the actin cytoskeleton, especially in
the context of cytokinesis and cell polarisation.
Members of this family have been found to interact with
Rho-GTPases, profilin and other actin-assoziated
proteins. These interactions are mediated by the
proline-rich FH1 domain, usually located in front of FH2
(but not listed in SMART). Despite this cytosolic
function, vertebrate formins have been assigned
functions within the nucleus. A set of Formin-Binding
Proteins (FBPs) has been shown to bind FH1 with their WW
domain.
Length = 392
Score = 27.3 bits (61), Expect = 8.2
Identities = 17/86 (19%), Positives = 27/86 (31%), Gaps = 18/86 (20%)
Query: 178 KGLINPSGRERKLPLKILGDGELSKKLNFK------------ARAFSTSAKEKLEAAGCT 225
K P + + L L +LS + K FS K K + +
Sbjct: 1 KKEPKPKKKLKPLHWDKLNPSDLSGTVWDKIDEESEGDLDELEELFSAKEKTKSASKDVS 60
Query: 226 LTVLPGRKKWVK------PSVAKNLA 245
+KK + P ++NLA
Sbjct: 61 EKKSILKKKASQEFKILDPKRSQNLA 86
>gnl|CDD|226080 COG3550, HipA, Toxin module HipA, protein kinase of
phosphatidylinositol 3/4-kinase superfamily [General
function prediction only].
Length = 392
Score = 27.4 bits (61), Expect = 8.9
Identities = 19/82 (23%), Positives = 27/82 (32%), Gaps = 3/82 (3%)
Query: 129 PLYRRIPKLRGIAGGMHAGLPKYVPVNLKDIEAAGFLEGDEVSLETLKKKGLINPSGRER 188
L R+ + I G A +P L AG D L L +K P G
Sbjct: 85 ELLLRL-AVGAILEGAVADVPHGEIDQLLRATRAGVAGADA--LTALLRKASGIPDGITP 141
Query: 189 KLPLKILGDGELSKKLNFKARA 210
+ + DG + K N +
Sbjct: 142 TVHIIKAPDGLYAVKSNSDRIS 163
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
0.314 0.132 0.376
Gapped
Lambda K H
0.267 0.0709 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,341,130
Number of extensions: 1277722
Number of successful extensions: 872
Number of sequences better than 10.0: 1
Number of HSP's gapped: 853
Number of HSP's successfully gapped: 25
Length of query: 266
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 171
Effective length of database: 6,723,972
Effective search space: 1149799212
Effective search space used: 1149799212
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 58 (26.2 bits)