RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780685|ref|YP_003065098.1| flagellar basal body rod
protein FlgF [Candidatus Liberibacter asiaticus str. psy62]
(243 letters)
>gnl|CDD|34397 COG4786, FlgG, Flagellar basal body rod protein [Cell motility and
secretion].
Length = 265
Score = 141 bits (357), Expect = 2e-34
Identities = 66/266 (24%), Positives = 118/266 (44%), Gaps = 25/266 (9%)
Query: 1 MQTSFNIGLAAQLALEQRLSTVADNMSNTDTVGFRTIKVKFSEVV-------------GA 47
M + +A +++L +++N++N +T GF+ + +F +++
Sbjct: 1 MLRGLYTAASGMMAQQRKLDVISNNLANVNTTGFKRDRAEFEDLLYQTINTAGAPNSNST 60
Query: 48 IKNDIDQKISFVASGKEYLSKEVGSFISTGTELDFALEGDAWFALESPRG-IILTRDGRF 106
Q V + Y GS T LD A+ GD +F +++P G I TRDG F
Sbjct: 61 TSPSGGQVGLGVRVNETYTVFTQGSLQKTDNPLDLAITGDGFFQIQTPDGTIAYTRDGSF 120
Query: 107 KVTDDGSLVSASGKYPVLDMASVPIQIPQKDEIFNVGEKGEIS------QKGKVIATMGL 160
V ++G LV+++G YPVLD PI IP +G+ G +S + +GL
Sbjct: 121 TVDEEGQLVTSNG-YPVLDSGGNPITIPNNAGSITIGKDGTVSVTIRGNTDPVQVGQIGL 179
Query: 161 YSVDMSQGFVRRENSGISPNIPPTPLEDLSG----VTVKRGFLEDSNANSMYEMGQMIHL 216
+ D G + N+ P+ + G +++GFLE SN N + EM MI
Sbjct: 180 VNFDNPAGLKKIGNNLYQETAASGPIVGVPGDNGFGAIRQGFLEASNVNVVEEMTDMIEA 239
Query: 217 TQKFNSITTLIDENEKSMLEAIRNIA 242
+ + + + +I ++ + +A +
Sbjct: 240 QRAYEANSKVIQTADEMLGKANNLLR 265
>gnl|CDD|34398 COG4787, FlgF, Flagellar basal body rod protein [Cell motility and
secretion].
Length = 251
Score = 72.3 bits (177), Expect = 1e-13
Identities = 68/250 (27%), Positives = 108/250 (43%), Gaps = 26/250 (10%)
Query: 7 IGLAAQLALEQRLSTVADNMSNTDTVGFRTIKVKFSEVVGAIKNDIDQKISFVASGKEYL 66
+G A+QL +Q ++ A+N++N T GFR V + D +FV +
Sbjct: 9 MGAASQLLEQQAVT--ANNLANASTTGFRAQLNAARAV--QVHGDSLPTRTFVMASTPGT 64
Query: 67 SKEVGSFISTGTELDFALEGDAWFALESPRGI-ILTRDGRFKVTDDGSLVSASGKYPVLD 125
GS TG LD A++GD W A++ G TR+G ++ G L + G +PV+
Sbjct: 65 DMSPGSLDYTGRPLDVAIQGDGWLAVQDADGSEAYTRNGNIQIDATGQL-TIQG-HPVIG 122
Query: 126 MASVPIQIPQKDEIFNVGEKGEIS-----QKGKVIATMG-LYSVDMSQGFVRRENSGI-- 177
PI +P + G IS +A +G L V + V+R + G+
Sbjct: 123 EGG-PITVP-PGAKVTIAADGTISALNPGDPANTVAVVGRLKLVQATGQEVQRGDDGLFR 180
Query: 178 -SPNIP----PTPLEDLSGVTVKRGFLEDSNANSMYEMGQMIHLTQKFN---SITTLIDE 229
+ D S V V G LE SN N++ EM MI L ++F + + D+
Sbjct: 181 LTAETQQPRGQVLKADPS-VRVMSGALEGSNVNAVEEMTDMISLARQFEMQMKMISTADD 239
Query: 230 NEKSMLEAIR 239
N + + +R
Sbjct: 240 NAGAANQLLR 249
>gnl|CDD|31935 COG1749, FlgE, Flagellar hook protein FlgE [Cell motility and
secretion].
Length = 423
Score = 67.3 bits (164), Expect = 4e-12
Identities = 35/124 (28%), Positives = 62/124 (50%), Gaps = 3/124 (2%)
Query: 1 MQTSFNIGLAAQLALEQRLSTVADNMSNTDTVGFRTIKVKFSEVV-GAIKNDIDQKISFV 59
M SF G++ A + L +++N++N +T GF+ + +FS++ ++ V
Sbjct: 1 MLRSFYNGVSGMNAHQFALDVISNNIANANTTGFKRSRAEFSDMFSQSLVGASTYTALGV 60
Query: 60 ASGKEYLSKEVGSFISTGTELDFALEGDAWFALESPRG--IILTRDGRFKVTDDGSLVSA 117
GSF STG+ LD A+ G+ +F ++ G TR G F++ +G LV+
Sbjct: 61 GVSSISQIFTQGSFQSTGSNLDLAISGNGFFIVQDDSGGTNFYTRAGSFRLDKNGYLVNP 120
Query: 118 SGKY 121
+G Y
Sbjct: 121 AGLY 124
>gnl|CDD|109515 pfam00460, Flg_bb_rod, Flagella basal body rod protein.
Length = 31
Score = 31.8 bits (73), Expect = 0.16
Identities = 8/31 (25%), Positives = 18/31 (58%)
Query: 5 FNIGLAAQLALEQRLSTVADNMSNTDTVGFR 35
++A A + L +A+N++N +T G++
Sbjct: 1 LYTAVSALNAQQIALDVIANNIANANTTGYK 31
>gnl|CDD|32000 COG1815, FlgB, Flagellar basal body protein [Cell motility and
secretion].
Length = 133
Score = 31.8 bits (72), Expect = 0.17
Identities = 11/53 (20%), Positives = 23/53 (43%)
Query: 15 LEQRLSTVADNMSNTDTVGFRTIKVKFSEVVGAIKNDIDQKISFVASGKEYLS 67
R +A+N++N DT G++ V F V+ + ++ + +L
Sbjct: 18 RSLRQEVIANNIANADTPGYKAKDVDFESVLKKALAGNNTTLALAKTSTRHLG 70
>gnl|CDD|145473 pfam02343, TRA-1_regulated, TRA-1 regulated protein R03H10.4. This
family of proteins represents the protein product of the
gene R03H10.4 which is located near a sequence that
matches the TRA-1 binding consensus. TRA-1 is a
transcription factor which controls sexual
differentiation in C.elegans. R03H10.4 shows
male-enriched reporter gene expression and acts as a
direct target of TRA-1 regulation.
Length = 129
Score = 29.2 bits (66), Expect = 0.95
Identities = 15/44 (34%), Positives = 20/44 (45%), Gaps = 4/44 (9%)
Query: 85 EGDAWFALESPRGIILTRDGRFKVTDDGSLVSASG-KYPVLDMA 127
E + W A + P GI DG + DGSL G K +L +
Sbjct: 88 EDNKWKATKYPNGIAYGDDGTEILGADGSL---DGKKSKLLQIR 128
>gnl|CDD|38873 KOG3669, KOG3669, KOG3669, Uncharacterized conserved protein,
contains dysferlin, TECPR and PH domains [General
function prediction only].
Length = 705
Score = 28.9 bits (64), Expect = 1.4
Identities = 17/98 (17%), Positives = 32/98 (32%), Gaps = 25/98 (25%)
Query: 82 FALEGDAWFALESPRG------IILTRDGRFKVTDDGSL------------------VSA 117
EGD+W + +PR I + + + +DG+L
Sbjct: 258 QNPEGDSWKDIVTPRQALEPVCISVGTQTLWALDNDGNLWFRRGIISKKPEGDHDHEWQV 317
Query: 118 SGKYPV-LDMASVPIQIPQKDEIFNVGEKGEISQKGKV 154
S V D + D++F + + +I + V
Sbjct: 318 SITDYVVTDQCISFQSVIHNDQVFAISAQAKIEVREGV 355
>gnl|CDD|185748 cd09235, V_Alix, Middle V-domain of mammalian Alix and related
domains are dimerization and protein interaction
modules. This family contains the middle V-shaped (V)
domain of mammalian Alix (apoptosis-linked gene-2
interacting protein X) and related domains. It belongs
to the V_Alix_like superfamily which includes the
V-domains of Bro1 and Rim20 (also known as PalA) from
Saccharomyces cerevisiae, mammalian His-Domain type N23
protein tyrosine phosphatase (HD-PTP, also known as
PTPN23), and related domains. Alix, also known as
apoptosis-linked gene-2 interacting protein 1 (AIP1), is
part of the ESCRT (Endosomal Sorting Complexes Required
for Transport) system, and participates in membrane
remodeling processes, including the budding of enveloped
viruses, vesicle budding inside late endosomal
multivesicular bodies (MVBs), the abscission reactions
of mammalian cell division, and in apoptosis. The Alix
V-domain is a dimerization domain, and contains a
binding site, partially conserved in the V_Alix_like
superfamily, for the retroviral late assembly (L) domain
YPXnL motif. In addition to the V-domain, Alix also has
an N-terminal Bro1-like domain, which binds components
of the ESCRT-III complex, in particular CHMP4. The
Bro1-like domain of Alix can also bind to human
immunodeficiency virus type 1 (HIV-1) nucleocapsid. Alix
also has a C-terminal proline-rich region (PRR) that
binds multiple partners including Tsg101 (tumor
susceptibility gene 101, a component of ESCRT-1), and
the apoptotic protein ALG-2.
Length = 339
Score = 28.4 bits (64), Expect = 1.9
Identities = 18/57 (31%), Positives = 29/57 (50%), Gaps = 2/57 (3%)
Query: 183 PTPLEDLSGVTVKRGFLEDSNANSMYEMGQMIHLTQKFNSITTLIDENEKSMLEAIR 239
P +ED+SG TV + LE S + E G + + Q + L+ N + + EA+R
Sbjct: 43 PAAIEDVSGDTVPQSLLEKSRT--VIEKGGIQTIDQLIKELPELLQRNREILDEALR 97
>gnl|CDD|31443 COG1251, NirB, NAD(P)H-nitrite reductase [Energy production and
conversion].
Length = 793
Score = 27.1 bits (60), Expect = 4.5
Identities = 13/30 (43%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 175 SGISPNIPPTPLEDLSGVTVKRGFLEDSNA 204
+G P I P P DL GV V R ++D A
Sbjct: 109 TGSYPFILPIPGSDLPGVFVYRT-IDDVEA 137
>gnl|CDD|31746 COG1558, FlgC, Flagellar basal body rod protein [Cell motility
and secretion].
Length = 137
Score = 27.1 bits (60), Expect = 4.8
Identities = 14/51 (27%), Positives = 26/51 (50%), Gaps = 6/51 (11%)
Query: 1 MQTSFNIGLAAQLALEQRLSTVADNMSNTDTVG------FRTIKVKFSEVV 45
+ + FNI +A A RL+ ++ N++N D+ +R +V FS +
Sbjct: 3 LFSIFNIAGSALSAQSLRLNVISSNIANADSTRTPDGGPYRRKQVVFSAEL 53
>gnl|CDD|30374 COG0024, Map, Methionine aminopeptidase [Translation, ribosomal
structure and biogenesis].
Length = 255
Score = 26.7 bits (59), Expect = 5.5
Identities = 9/43 (20%), Positives = 16/43 (37%)
Query: 73 FISTGTELDFALEGDAWFALESPRGIILTRDGRFKVTDDGSLV 115
I+TG+ D W + + + VT+DG +
Sbjct: 206 MINTGSGEVVEGPSDRWTLVTKDGSLSAQFEHTVIVTEDGCEI 248
>gnl|CDD|30829 COG0481, LepA, Membrane GTPase LepA [Cell envelope biogenesis,
outer membrane].
Length = 603
Score = 25.9 bits (57), Expect = 9.3
Identities = 12/39 (30%), Positives = 19/39 (48%), Gaps = 1/39 (2%)
Query: 54 QKISFVASGKEYLSKEVGSFISTGTELDFALEGD-AWFA 91
KI +++GKEY EVG F ++D G+ +
Sbjct: 226 DKIRMMSTGKEYEVDEVGIFTPKMVKVDELKAGEVGYII 264
>gnl|CDD|36772 KOG1559, KOG1559, KOG1559, Gamma-glutamyl hydrolase [Coenzyme
transport and metabolism].
Length = 340
Score = 26.1 bits (57), Expect = 9.3
Identities = 21/94 (22%), Positives = 35/94 (37%), Gaps = 4/94 (4%)
Query: 148 ISQKGKVIATMGLYSVDMSQGFVRREN--SGISPNIPPTPLEDLSGVTVKRGFLEDSNAN 205
ISQ ++ V S FV N + PP L+ LS + + +
Sbjct: 164 ISQNRDILERFDAVDVASSLQFVGNVNIHGTMFQRFPPELLKKLSTDCLVMQNHKFGISP 223
Query: 206 SMYEMGQMIHLTQKFNSITTLIDENEKSMLEAIR 239
++ L+ FN +TT D N K+ + +
Sbjct: 224 KNFQGN--PALSSFFNILTTCTDGNSKTFVSTVE 255
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.314 0.132 0.358
Gapped
Lambda K H
0.267 0.0670 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 2,689,713
Number of extensions: 135097
Number of successful extensions: 239
Number of sequences better than 10.0: 1
Number of HSP's gapped: 232
Number of HSP's successfully gapped: 20
Length of query: 243
Length of database: 6,263,737
Length adjustment: 91
Effective length of query: 152
Effective length of database: 4,297,318
Effective search space: 653192336
Effective search space used: 653192336
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: 42 (22.0 bits)
S2: 56 (25.5 bits)