RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy269
(345 letters)
>gnl|CDD|128856 smart00588, NEUZ, domain in neuralized proteins.
Length = 123
Score = 144 bits (366), Expect = 5e-43
Identities = 59/122 (48%), Positives = 76/122 (62%), Gaps = 2/122 (1%)
Query: 34 PLYFHQVHGENVRVSRDGTVAKRYES-FCKGVAFSSRPVKINEKVYVKLLEISTNWSGVI 92
PL FH HG N+R+S G VA+R S FC + FS+RP++INE VK+ ++ WSG +
Sbjct: 2 PLRFHHRHGSNIRLSDSGRVARRSASDFCNALVFSARPLRINELFEVKIEKVVRKWSGAL 61
Query: 93 RFGFTANDPAHLKYA-LPRYVCPDLTNKPGYWAKALAERFADQETVLFYYVTAAGDVHFG 151
RFG T DPA L+ A LP CPDL + G+WAKAL E A+Q +L V A G+V
Sbjct: 62 RFGVTTCDPATLRPASLPTNACPDLVDMSGFWAKALGEGLAEQGGILGLDVLAEGEVVGV 121
Query: 152 IN 153
IN
Sbjct: 122 IN 123
Score = 94.7 bits (236), Expect = 6e-24
Identities = 27/76 (35%), Positives = 48/76 (63%)
Query: 260 VPLPFHRTIGRNVRLSNDRTIASRRDTEFSQGYVFTGRPVQLGEKIVIQVLETESRYYGA 319
PL FH G N+RLS+ +A R ++F VF+ RP+++ E +++ + ++ GA
Sbjct: 1 GPLRFHHRHGSNIRLSDSGRVARRSASDFCNALVFSARPLRINELFEVKIEKVVRKWSGA 60
Query: 320 LALGLTSCNPASLKPS 335
L G+T+C+PA+L+P+
Sbjct: 61 LRFGVTTCDPATLRPA 76
>gnl|CDD|115807 pfam07177, Neuralized, Neuralized. This family contains a
conserved region approximately 60 residues long within
eukaryotic neuralized and neuralized-like proteins.
Neuralized belongs to a group of ubiquitin ligases and
is required in a subset of Notch pathway-mediated cell
fate decisions during development of the Drosophila
nervous system. Some family members contain multiple
copies of this region.
Length = 68
Score = 108 bits (271), Expect = 1e-29
Identities = 40/68 (58%), Positives = 52/68 (76%)
Query: 34 PLYFHQVHGENVRVSRDGTVAKRYESFCKGVAFSSRPVKINEKVYVKLLEISTNWSGVIR 93
PL FH HG N+R+S DGT+A+R ESFC + FS+RPV+I E+V VK+L+I NWSG +R
Sbjct: 1 PLQFHPTHGSNIRLSDDGTLARRRESFCDAITFSARPVRIGERVCVKVLKIENNWSGGLR 60
Query: 94 FGFTANDP 101
GFT+ DP
Sbjct: 61 LGFTSLDP 68
Score = 88.6 bits (220), Expect = 2e-22
Identities = 32/69 (46%), Positives = 48/69 (69%), Gaps = 1/69 (1%)
Query: 261 PLPFHRTIGRNVRLSNDRTIASRRDTEFSQGYVFTGRPVQLGEKIVIQVLETESRYYGAL 320
PL FH T G N+RLS+D T+A RR++ F F+ RPV++GE++ ++VL+ E+ + G L
Sbjct: 1 PLQFHPTHGSNIRLSDDGTLARRRES-FCDAITFSARPVRIGERVCVKVLKIENNWSGGL 59
Query: 321 ALGLTSCNP 329
LG TS +P
Sbjct: 60 RLGFTSLDP 68
>gnl|CDD|240467 cd12887, SPRY_NHR_like, SPRY domain in neuralized homology repeat.
This family contains the neuralized homology repeat 1
(NHR1) domain similar to the SPRY domain (known to
mediate specific protein-protein interactions) at the
C-terminus of a conserved region within eukaryotic
neuralized and neuralized-like proteins. In Drosophila,
the neuralized protein (Neur) belongs to a group of
ubiquitin ligases and is required in a subset of Notch
pathway-mediated cell fate decisions during development
of the nervous system. Neur binds to the Notch receptor
ligand Delta through its first NHR1 domain and mediates
its ubiquitination for endocytosis. Multiple copies of
this region are found in some members of the family.
Length = 161
Score = 98.7 bits (247), Expect = 6e-25
Identities = 55/169 (32%), Positives = 83/169 (49%), Gaps = 26/169 (15%)
Query: 36 YFHQVHGENVRVSRDGTVAKR-YESFCKGVAFSSRPVKINEKVYVKLLEISTNWSGVIRF 94
FH+ HG+NVR+S DG A R +SF G+ FSSRP++ E V++ ++ WSG +
Sbjct: 1 RFHENHGKNVRLSNDGRTATRVKDSFNNGIVFSSRPLRPGELFEVRIDKLEDRWSGSLEI 60
Query: 95 GFTANDPAHLKYALPRYVCPDLTN-KPGYWAKALAERFADQETVLFYY------------ 141
G T DP L LP P T+ K G W + + F + V Y
Sbjct: 61 GVTTLDPESLD--LP----PSATDLKSGTWILSGSSVFKNGNKVRENYGPDLDRLRVGDR 114
Query: 142 ----VTAAGDVHFGINGEEKGVFFTGVETRGPLWAMFDIYGNSTAIQLI 186
T G +HF INGE++GV + + P++A+ D+YG + ++
Sbjct: 115 VGVMRTPDGSLHFYINGEDQGVAASNIPQ--PVYAVVDLYGQCEQVSIV 161
Score = 79.9 bits (198), Expect = 4e-18
Identities = 29/70 (41%), Positives = 45/70 (64%)
Query: 264 FHRTIGRNVRLSNDRTIASRRDTEFSQGYVFTGRPVQLGEKIVIQVLETESRYYGALALG 323
FH G+NVRLSND A+R F+ G VF+ RP++ GE +++ + E R+ G+L +G
Sbjct: 2 FHENHGKNVRLSNDGRTATRVKDSFNNGIVFSSRPLRPGELFEVRIDKLEDRWSGSLEIG 61
Query: 324 LTSCNPASLK 333
+T+ +P SL
Sbjct: 62 VTTLDPESLD 71
>gnl|CDD|201573 pfam01052, SpoA, Surface presentation of antigens (SPOA). This
family includes the C-terminal region of flagellar motor
switch proteins FliN and FliM. It is associated with
family FliM, pfam02154.
Length = 77
Score = 31.0 bits (71), Expect = 0.14
Identities = 16/74 (21%), Positives = 27/74 (36%), Gaps = 18/74 (24%)
Query: 245 DTQVPLRALTS--PQDLVPLPFHRTIGRNVRLS-NDRTIASRRDTEFSQGYVFTGRPVQL 301
T++ L L + D++PL + V L N R I F G +
Sbjct: 18 RTELTLGELLNLKVGDVIPLD--KPADDPVTLYVNGRPI-------------FRGELGVI 62
Query: 302 GEKIVIQVLETESR 315
G K+ +++ E
Sbjct: 63 GGKLAVRITELLDP 76
>gnl|CDD|236694 PRK10436, PRK10436, hypothetical protein; Provisional.
Length = 462
Score = 31.1 bits (71), Expect = 0.80
Identities = 33/154 (21%), Positives = 61/154 (39%), Gaps = 34/154 (22%)
Query: 197 RVSTHLSPEELSSPINNNSN----IDLMNRYIVNSMA--AMNVHPQSTPAPLPEDTQVPL 250
++ HL + + P+ + L+N+ + +++ A ++H + P ++ L
Sbjct: 61 QMEQHLQRTQQTLPVADQEKDTPVAQLINQTLQSALQKRASDIHFE----PAQNHYRIRL 116
Query: 251 R------ALTSPQDLVPLPFHRTIGRNVRLSNDRTIASRR---DTEFS-----QGYVFTG 296
R L P + R L N IA RR D +F+ Y F
Sbjct: 117 RIDGVLHPLPDPSPELGA---ALTARLKVLGN-LDIAERRLPQDGQFTVELAGNAYSF-- 170
Query: 297 R----PVQLGEKIVIQVLETESRYYGALALGLTS 326
R P + GEK+V+++L+ + LG+T
Sbjct: 171 RIATLPCRGGEKVVLRLLQQVQQALDLETLGMTP 204
>gnl|CDD|233923 TIGR02551, SpaO_YscQ, type III secretion system apparatus protein
YscQ/HrcQ. Genes in this family are found in type III
secretion operons. The gene (YscQ) in Yersinia is
essential for YOPs secretion , while SpaO in Shigella is
involved in the Surface Presentation of Antigens
apparatus found on the virulence plasmid , and HrcQ is
involved in the Harpin secretory system in organisms
like Pseudomonas syringae [Protein fate, Protein and
peptide secretion and trafficking, Cellular processes,
Pathogenesis].
Length = 298
Score = 30.1 bits (68), Expect = 1.6
Identities = 15/63 (23%), Positives = 25/63 (39%), Gaps = 17/63 (26%)
Query: 250 LRALTSPQDLVPLPFHRTIGRNVRLS-NDRTIASRRDTEFSQGYVFTGRPVQLGEKIVIQ 308
L AL P + L + + VRL N R + G V +G ++ ++
Sbjct: 251 LAALQ-PGSV--LELNVPVDGPVRLRANGRLLGR-------------GELVDVGGRLGVR 294
Query: 309 VLE 311
+LE
Sbjct: 295 ILE 297
>gnl|CDD|200593 cd10971, CE4_DAC_u2_5s, Putative catalytic NodB homology domain of
uncharacterized prokaryotic polysaccharide deacetylases
which consist of a 5-stranded beta/alpha barrel. This
family contains many uncharacterized prokaryotic
polysaccharide deacetylases. Although their biological
functions remain unknown, all members of this family are
predicted to contain a conserved domain with a
5-stranded beta/alpha barrel, which is similar to the
catalytic NodB homology domain of rhizobial NodB-like
proteins, belonging to the larger carbohydrate esterase
4 (CE4) superfamily.
Length = 198
Score = 29.6 bits (67), Expect = 1.9
Identities = 11/30 (36%), Positives = 12/30 (40%), Gaps = 5/30 (16%)
Query: 92 IRFGFT-----ANDPAHLKYALPRYVCPDL 116
R GFT A+ LPRY C D
Sbjct: 168 CRLGFTTEVAIADLDDLEPLELPRYDCNDF 197
>gnl|CDD|240461 cd12881, SPRY_HERC1, SPRY domain in HERC1. This SPRY domain is
found in the HERC1, a large protein related to
chromosome condensation regulator RCC1. It is widely
expressed in many tissues, playing an important role in
intracellular membrane trafficking in the cytoplasm as
well as Golgi apparatus. HERC1 also interacts with
tuberous sclerosis 2 (TSC2, tuberin), which suppresses
cell growth, and results in the destabilization of TSC2.
However, the biological function of HERC1 has yet to be
defined.
Length = 160
Score = 27.7 bits (62), Expect = 6.0
Identities = 12/41 (29%), Positives = 19/41 (46%)
Query: 126 ALAERFADQETVLFYYVTAAGDVHFGINGEEKGVFFTGVET 166
L+ +F + + + FG NGEE GV F V++
Sbjct: 97 RLSPKFTQGDYITCVLDMEERTLSFGKNGEEPGVAFEDVDS 137
>gnl|CDD|179427 PRK02471, PRK02471, bifunctional glutamate--cysteine
ligase/glutathione synthetase; Provisional.
Length = 752
Score = 28.0 bits (63), Expect = 8.3
Identities = 14/61 (22%), Positives = 35/61 (57%), Gaps = 10/61 (16%)
Query: 206 ELSSPINNNSNIDLMNRYI--VNSMAAMNVH------PQSTPAPLPEDTQVPLRALTSPQ 257
EL +P+ ++ I+ + R++ ++ +A+ ++ P S P LP++ ++P+ L + +
Sbjct: 64 ELITPVADS--IEEVYRFLGALHDVASRSLDEDEYLWPLSMPPILPDEEEIPIAQLDNRE 121
Query: 258 D 258
D
Sbjct: 122 D 122
>gnl|CDD|183329 PRK11829, PRK11829, biofilm formation regulator HmsP; Provisional.
Length = 660
Score = 28.0 bits (62), Expect = 9.7
Identities = 22/95 (23%), Positives = 34/95 (35%), Gaps = 10/95 (10%)
Query: 220 MNRYIVNSMAAMNVHPQSTPAPLPEDTQVPLRALTSPQDLVPLPFHRTIGRNVR-LSNDR 278
+NR I++ + AM + Q+ L A +L L R RN + L++
Sbjct: 168 INRLIIHPLRAMAKELEDIGDHGVLHHQLTLPAHHQDDELGVLV--RNYNRNQQLLADAY 225
Query: 279 TIASRRDTEFSQGYVFTGRPVQLGEKIVIQVLETE 313
R F T P + I +LE E
Sbjct: 226 ADMGRISHRFPV----TELP---NRSLFISLLEKE 253
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 0.403
Gapped
Lambda K H
0.267 0.0729 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,691,881
Number of extensions: 1685036
Number of successful extensions: 1330
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1324
Number of HSP's successfully gapped: 16
Length of query: 345
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 247
Effective length of database: 6,590,910
Effective search space: 1627954770
Effective search space used: 1627954770
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 (21.7 bits)
S2: 59 (26.5 bits)