RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8949
(493 letters)
>gnl|CDD|219000 pfam06367, Drf_FH3, Diaphanous FH3 Domain. This region is found in
the Formin-like and and diaphanous proteins.
Length = 197
Score = 120 bits (303), Expect = 8e-32
Identities = 46/84 (54%), Positives = 61/84 (72%)
Query: 224 GGHEIILAAFDNFKEICQESKRFETLMDYFMNYEVFHIEFMVACMQFINIVVHSVEDMNF 283
GGHE +L A NFKE+C+E RF +L+ + E ++E+ VA MQFIN +V+S ED+NF
Sbjct: 1 GGHEKVLEATLNFKEVCRERGRFRSLVGALDSSENDNVEYKVATMQFINALVNSPEDLNF 60
Query: 284 RVHLQYEFSRLGLDSYLDKLRHTE 307
R+HL+ EF+RLGLD LDKLR E
Sbjct: 61 RLHLRSEFTRLGLDRILDKLRELE 84
Score = 95.4 bits (238), Expect = 9e-23
Identities = 48/153 (31%), Positives = 69/153 (45%), Gaps = 32/153 (20%)
Query: 336 HSVEDMNFRVHLQYEFSRLG-LDSYLDKLRHTESEELQVACMQFINIVVHSVEDMNFRVH 394
+E + E R L LD + ++ E +VA MQFIN +V+S ED+NFR+H
Sbjct: 5 KVLEATLNFKEVCRERGRFRSLVGALDSSEN-DNVEYKVATMQFINALVNSPEDLNFRLH 63
Query: 395 LQYEFSRLGLDSYLDKLRHTESEELQERVQAKDPPAHYLSKLRTYLDPKASRSSRVQISA 454
L+ EF+RLGLD LDKLR E+E+L Q+
Sbjct: 64 LRSEFTRLGLDRILDKLRELENEKLD-----------------------------DQLQI 94
Query: 455 YLDNVF-DVAALMEDSETKTAALEKVAELEDEL 486
+ +N DV L+E + L+ EL + L
Sbjct: 95 FEENREEDVEELLERFDDVNVDLDDPVELFELL 127
Score = 86.5 bits (215), Expect = 1e-19
Identities = 49/152 (32%), Positives = 70/152 (46%), Gaps = 25/152 (16%)
Query: 324 QVACMQFINIVVHSVEDMNFRVHLQYEFSRLGLDSYLDKLRHTESEELQVACMQFINIVV 383
+VA MQFIN +V+S ED+NFR+HL+ EF+RLGLD LDKLR E+E+L F
Sbjct: 41 KVATMQFINALVNSPEDLNFRLHLRSEFTRLGLDRILDKLRELENEKLDDQLQIFEENRE 100
Query: 384 HSVEDM-----NFRVHLQYEFSRLGLDSYLDKLRHTESE-----ELQERVQAKDPPAHYL 433
VE++ + V L + L + +K++ TE+E LQ + +D
Sbjct: 101 EDVEELLERFDDVNVDLD-DPVEL-FELLKNKVKDTEAEPHFLSILQHLLLIRDDEEELP 158
Query: 434 SKL-------------RTYLDPKASRSSRVQI 452
RT DP + I
Sbjct: 159 QYWKLLEELVSQIVLHRTKPDPDFDERKNLNI 190
>gnl|CDD|219001 pfam06371, Drf_GBD, Diaphanous GTPase-binding Domain. This domain
is bound to by GTP-attached Rho proteins, leading to
activation of the Drf protein.
Length = 187
Score = 69.6 bits (171), Expect = 7e-14
Identities = 26/67 (38%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 156 ARLNMGDPKDDIHV-CILCLRAIMNNKYGLNMVIKHTEAINSIALSLMHKSLRTKALVLE 214
+ + D D + CL+A+MNNK+G++ V+ H E I +A SL +T+ L LE
Sbjct: 121 RKKSESDEDLDREYEILKCLKALMNNKFGIDHVLGHPEVILLLARSLDSPRPKTRKLALE 180
Query: 215 LLAAICL 221
LL A+CL
Sbjct: 181 LLTALCL 187
>gnl|CDD|163506 TIGR03794, NHLM_micro_HlyD, NHLM bacteriocin system secretion
protein. Members of this protein family are homologs of
the HlyD membrane fusion protein of type I secretion
systems. Their occurrence in prokaryotic genomes is
associated with the occurrence of a novel class of
microcin (small bacteriocins) with a leader peptide
region related to nitrile hydratase. We designate the
class of bacteriocin as Nitrile Hydratase Leader
Microcin, or NHLM. This family, therefore, is designated
as NHLM bacteriocin system secretion protein. Some but
not all NHLM-class putative microcins belong to the TOMM
(thiazole/oxazole modified microcin) class as assessed
by the presence of the scaffolding protein and/or
cyclodehydratase in the same gene clusters [Transport
and binding proteins, Amino acids, peptides and amines,
Cellular processes, Biosynthesis of natural products].
Length = 421
Score = 30.2 bits (68), Expect = 2.3
Identities = 23/87 (26%), Positives = 39/87 (44%), Gaps = 9/87 (10%)
Query: 409 DKLRHTESEELQERVQAKDPPAHYLSKLRTYLDPKASRSSRVQISAYLDNVFDVAALME- 467
D++ + E QE+ A D A + L+T D R+ + + F +A + E
Sbjct: 172 DRILQQQWREEQEKYDAADK-ARAIYALQTKAD---ERNLETVLQSLSQADFQLAGVAEK 227
Query: 468 DSETKTA----ALEKVAELEDELGHRT 490
+ ET A A ++ ELE++L T
Sbjct: 228 ELETVEARIKEARYEIEELENKLNLNT 254
>gnl|CDD|233364 TIGR01346, isocit_lyase, isocitrate lyase. Isocitrate lyase and
malate synthase are the enzymes of the glyoxylate shunt,
a pathway associated with the TCA cycle [Energy
metabolism, TCA cycle].
Length = 527
Score = 30.4 bits (68), Expect = 2.4
Identities = 17/74 (22%), Positives = 35/74 (47%), Gaps = 6/74 (8%)
Query: 375 CMQFINIV-VHSVEDMNFRVH-LQYEFSRLGLDSYLDKLRHTESEELQERVQ-AKDPPAH 431
QFI + HS + + Y+F++ G+ +Y++K++ E E+ + ++ K A
Sbjct: 443 KWQFITLAGFHS---LALGMFDFAYDFAQEGMKAYVEKVQQREMEDGVDALKHQKWSGAG 499
Query: 432 YLSKLRTYLDPKAS 445
Y +L + S
Sbjct: 500 YFDQLLKTVQGGNS 513
>gnl|CDD|189041 cd09871, PIN_UPF0110, PIN domain of the VapC-like UPF0110 protein
Mb0640 and homologs. Virulence associated protein C
(VapC)-like PIN (PilT N terminus) domain of the
Mycobacterium bovis UPF0110 protein Mb0640 and other
uncharacterized homologs are included in this subfamily.
They are similar to the PIN domains of the Mycobacterium
tuberculosis VapC and Neisseria gonorrhoeae FitB toxins
of the prokaryotic toxin/antitoxin operons, VapBC and
FitAB, respectively, which are believed to be involved
in growth inhibition by regulating translation. These
toxins are nearly always co-expressed with an antitoxin,
a cognate protein inhibitor, forming an inert protein
complex. Disassociation of the protein complex activates
the ribonuclease activity of the toxin by an, as yet
undefined mechanism. VapC-like PIN domains are homologs
of flap endonuclease-1 (FEN1)-like PIN domains, but lack
the extensive arch/clamp region and the H3TH
(helix-3-turn-helix) domain, an atypical
helix-hairpin-helix-2-like region, seen in FEN1-like
PIN domains. PIN domains within this subgroup contain
three highly conserved acidic residues. These putative
active site residues are thought to bind Mg2+ and/or
Mn2+ ions and be essential for single-stranded
ribonuclease activity.
Length = 128
Score = 28.7 bits (65), Expect = 3.7
Identities = 8/12 (66%), Positives = 10/12 (83%)
Query: 151 RSRHAARLNMGD 162
+ RH ARLN+GD
Sbjct: 88 KGRHPARLNLGD 99
>gnl|CDD|234769 PRK00451, PRK00451, glycine dehydrogenase subunit 1; Validated.
Length = 447
Score = 29.3 bits (67), Expect = 4.3
Identities = 17/65 (26%), Positives = 25/65 (38%), Gaps = 14/65 (21%)
Query: 431 HYLSKLRTYLDPKASRSSRVQISAYLDNVFDVAALMEDSETKTAA-----------LEKV 479
Y L+TYL + V Y D V D+ AL + TAA +E +
Sbjct: 166 EYREVLKTYLKG---QGIEVVEVPYEDGVTDLEALEAAVDDDTAAVVVQYPNFFGVIEDL 222
Query: 480 AELED 484
E+ +
Sbjct: 223 EEIAE 227
>gnl|CDD|200948 pfam00038, Filament, Intermediate filament protein.
Length = 312
Score = 28.7 bits (65), Expect = 6.6
Identities = 26/101 (25%), Positives = 42/101 (41%), Gaps = 28/101 (27%)
Query: 404 LDSYLDKLRH---------TESEELQERVQA---KDPPAHY--LSKLRTYLDPKASRSSR 449
L SY+DK+R + EEL+++ A + + + +LR LD + +R
Sbjct: 13 LASYIDKVRFLEQQNKELEAKIEELRQKKSAEPSRLYSLYEQEIRELRKQLDELTNERAR 72
Query: 450 VQISAYLDNVFDVAALMEDSETKTAALEKVAELEDELGHRT 490
+Q+ +DN + ED K EDEL R
Sbjct: 73 LQLE--IDN---LRLAAEDFREK---------YEDELNLRQ 99
>gnl|CDD|179615 PRK03634, PRK03634, rhamnulose-1-phosphate aldolase; Provisional.
Length = 274
Score = 28.4 bits (64), Expect = 9.1
Identities = 15/51 (29%), Positives = 19/51 (37%), Gaps = 20/51 (39%)
Query: 154 HAARLNMGDPKDDIHVCILCLRAIMNNKYGLNMVIKHTEAINSIALSLMHK 204
H ARL + KD R IM H A N IAL+ + +
Sbjct: 125 HIARLKATNGKD---------RVIM-----------HCHATNLIALTYVLE 155
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
0.322 0.135 0.395
Gapped
Lambda K H
0.267 0.0739 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 24,966,403
Number of extensions: 2428189
Number of successful extensions: 1949
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1949
Number of HSP's successfully gapped: 22
Length of query: 493
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 392
Effective length of database: 6,457,848
Effective search space: 2531476416
Effective search space used: 2531476416
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 (21.9 bits)
S2: 61 (27.3 bits)