RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11246
(101 letters)
>gnl|CDD|197544 smart00150, SPEC, Spectrin repeats.
Length = 101
Score = 43.9 bits (104), Expect = 4e-07
Identities = 21/63 (33%), Positives = 36/63 (57%), Gaps = 3/63 (4%)
Query: 4 KDLQAEIESHKDVYSSLNTSGKRLLGSLTSQDDAVMLQRRLDEMNQRWHHLKNRSLAIRM 63
+ +AE+E+H++ +LN G++L+ DA ++ RL+E+N+RW LK R
Sbjct: 41 EAFEAELEAHEERVEALNELGEQLIEE--GHPDAEEIEERLEELNERWEELKEL-AEERR 97
Query: 64 QSL 66
Q L
Sbjct: 98 QKL 100
>gnl|CDD|238103 cd00176, SPEC, Spectrin repeats, found in several proteins involved
in cytoskeletal structure; family members include
spectrin, alpha-actinin and dystrophin; the spectrin
repeat forms a three helix bundle with the second helix
interrupted by proline in some sequences; the repeats
are independent folding units; tandem repeats are found
in differing numbers and arrange in an antiparallel
manner to form dimers; the repeats are defined by a
characteristic tryptophan (W) residue in helix A and a
leucine (L) at the carboxyl end of helix C and separated
by a linker of 5 residues; two copies of the repeat are
present here.
Length = 213
Score = 42.4 bits (100), Expect = 5e-06
Identities = 22/63 (34%), Positives = 36/63 (57%), Gaps = 3/63 (4%)
Query: 4 KDLQAEIESHKDVYSSLNTSGKRLLGSLTSQDDAVMLQRRLDEMNQRWHHLKNRSLAIRM 63
+ L+AE+ +H++ +LN G++L+ DA +Q RL+E+NQRW L+ R
Sbjct: 43 EALEAELAAHEERVEALNELGEQLIEE--GHPDAEEIQERLEELNQRWEELREL-AEERR 99
Query: 64 QSL 66
Q L
Sbjct: 100 QRL 102
Score = 39.0 bits (91), Expect = 9e-05
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 2/63 (3%)
Query: 4 KDLQAEIESHKDVYSSLNTSGKRLLGSLTSQDDAVMLQRRLDEMNQRWHHLKNRSLAIRM 63
K+L+ E+E+H+ SLN + LL D ++ +L+E+N+RW L R
Sbjct: 149 KELEEELEAHEPRLKSLNELAEELLEEGHPDADEE-IEEKLEELNERWEELLEL-AEERQ 206
Query: 64 QSL 66
+ L
Sbjct: 207 KKL 209
>gnl|CDD|215918 pfam00435, Spectrin, Spectrin repeat. Spectrin repeat-domains are
found in several proteins involved in cytoskeletal
structure. These include spectrin, alpha-actinin and
dystrophin. The sequence repeat used in this family is
taken from the structural repeat in reference. The
spectrin domain- repeat forms a three helix bundle. The
second helix is interrupted by proline in some
sequences. The repeats are defined by a characteristic
tryptophan (W) residue at position 17 in helix A and a
leucine (L) at 2 residues from the carboxyl end of helix
C. Although the domain occurs in ultiple repeats along
sequences, the domains are actually stable on their own
- ie they act, biophysically, like domains rather than
repeats that along function when aggregated.
Length = 105
Score = 35.4 bits (82), Expect = 7e-04
Identities = 21/63 (33%), Positives = 34/63 (53%), Gaps = 3/63 (4%)
Query: 4 KDLQAEIESHKDVYSSLNTSGKRLLGSLTSQDDAVMLQRRLDEMNQRWHHLKNRSLAIRM 63
K L+AE+ +H+D +LN ++L+ + + Q RL+E+N+RW L A R
Sbjct: 44 KALEAELAAHQDRVEALNELAEKLIAEGHYASEEI--QERLEELNERWEQLLEL-AAERK 100
Query: 64 QSL 66
Q L
Sbjct: 101 QKL 103
>gnl|CDD|203425 pfam06328, Lep_receptor_Ig, Ig-like C2-type domain. This domain
is a ligand-binding immunoglobulin-like domain. The two
cysteine residues form a disulphide bridge.
Length = 89
Score = 27.0 bits (60), Expect = 0.95
Identities = 13/46 (28%), Positives = 19/46 (41%), Gaps = 2/46 (4%)
Query: 54 LKNRSLAIRMQSLIFYSLSVTLQPGIQYPI--DTLAFTTLSDITSL 97
LK L I + L++ P QY DT + T ++ SL
Sbjct: 27 LKQGCLHSVSAKKILWKLNLAKIPEEQYRRINDTTSSVTFPNLNSL 72
>gnl|CDD|185445 PTZ00101, PTZ00101, rhomboid-1 protease; Provisional.
Length = 278
Score = 26.7 bits (59), Expect = 2.4
Identities = 18/69 (26%), Positives = 36/69 (52%), Gaps = 3/69 (4%)
Query: 33 SQDDAVMLQRRLDEMNQRWHHLKNRS--LAIRMQSLIFYSLSVTLQPGIQY-PIDTLAFT 89
SQ + + +D +N + H +S +AI + +I + +SV+++P P D+L T
Sbjct: 29 SQSSFIQRSKPIDVLNLIFPHFTWKSFIMAISIIQIIVFIISVSIKPADFLTPSDSLLVT 88
Query: 90 TLSDITSLI 98
+++ S I
Sbjct: 89 LGANVASRI 97
>gnl|CDD|234052 TIGR02900, spore_V_B, stage V sporulation protein B. SpoVB is the
stage V sporulation protein B of the bacterial endopore
formation program in Bacillus subtilis and various other
Firmcutes. It is nearly universal among
endospore-formers. Paralogs with rather high sequence
similarity to SpoVB exist, including YkvU in B. subtilis
and a number of proteins in the genus Clostridium.
Member sequences for the seed alignment were chosen to
select those proteins, no more than one to a genome,
closest to B. subtilis SpoVB in a neighbor joining tree
[Cellular processes, Sporulation and germination].
Length = 488
Score = 26.5 bits (59), Expect = 2.4
Identities = 19/75 (25%), Positives = 34/75 (45%), Gaps = 9/75 (12%)
Query: 14 KDVYS-SLNTSGKRLLGSLTSQDDAVMLQRRL-------DEMNQRWHHLKNRSLAI-RMQ 64
D++S SL + R +GSL + +++ +RL E + L ++ +
Sbjct: 225 FDLFSVSLPLTLSRFIGSLLYFLETLLVPQRLVIAGVTYREATSLYGKLSGMAMPLLTFP 284
Query: 65 SLIFYSLSVTLQPGI 79
++I SLS L P I
Sbjct: 285 AVITSSLSTALVPDI 299
>gnl|CDD|179473 PRK02794, PRK02794, DNA polymerase IV; Provisional.
Length = 419
Score = 26.4 bits (59), Expect = 3.1
Identities = 13/37 (35%), Positives = 16/37 (43%), Gaps = 1/37 (2%)
Query: 18 SSLNTSGKRLLGSLTSQDDAVMLQRRLDEMNQRWHHL 54
+ L G R +G L D+A L RR M R L
Sbjct: 223 ARLARDGIRTIGDLQRADEA-DLMRRFGSMGLRLWRL 258
>gnl|CDD|239113 cd02647, nuc_hydro_TvIAG, nuc_hydro_ TvIAG: Nucleoside hydrolases
similar to the Inosine-adenosine-guanosine-preferring
nucleoside hydrolase from Trypanosoma vivax.
Nucleoside hydrolases cleave the N-glycosidic bond in
nucleosides generating ribose and the respective base.
Nucleoside hydrolases vary in their substrate
specificity. This group contains eukaryotic and
bacterial proteins similar to the purine specific
inosine-adenosine-guanosine-preferring nucleoside
hydrolase (IAG-NH) from T. vivax. T. vivax IAG-NH is
of the order of a thousand to ten thousand fold more
specific towards the naturally occurring purine
nucleosides, than towards the pyrimidine nucleosides. .
Length = 312
Score = 26.2 bits (58), Expect = 3.2
Identities = 13/64 (20%), Positives = 25/64 (39%), Gaps = 4/64 (6%)
Query: 25 KRLLGSLTSQDDAVMLQRRLDEMNQRWHHLKNRSLAIRMQSLIFYSLSVTLQPGIQYPI- 83
K L L + + + + L+ QR+ + + + Q Y+L L+ Y +
Sbjct: 193 KITLVPLDATNTVPLTREFLETDRQRFAAQRLPASDLAGQ---GYALVKPLEFNSTYYMW 249
Query: 84 DTLA 87
D L
Sbjct: 250 DVLT 253
>gnl|CDD|233362 TIGR01340, aconitase_mito, aconitate hydratase, mitochondrial.
This model represents mitochondrial forms of the TCA
cycle enzyme aconitate hydratase, also known as
aconitase and citrate hydro-lyase [Energy metabolism,
TCA cycle].
Length = 745
Score = 26.0 bits (57), Expect = 4.6
Identities = 9/25 (36%), Positives = 16/25 (64%)
Query: 2 EKKDLQAEIESHKDVYSSLNTSGKR 26
KDL I ++K+V+ L ++GK+
Sbjct: 99 GDKDLARAIATNKEVFDFLESAGKK 123
>gnl|CDD|131660 TIGR02611, TIGR02611, TIGR02611 family protein. Members of this
family are Actinobacterial putative proteins of about
150 amino acids in length with three apparent
transmembrane helix and an unusual motif with consensus
sequence PGPGW [Hypothetical proteins, Conserved].
Length = 121
Score = 25.5 bits (56), Expect = 4.6
Identities = 9/39 (23%), Positives = 16/39 (41%)
Query: 41 QRRLDEMNQRWHHLKNRSLAIRMQSLIFYSLSVTLQPGI 79
+ L+ + H K R+ ++ L+ V L GI
Sbjct: 2 EDALERLQDEHVHAKRRAYGFVVRPLVLVVGWVVLIVGI 40
>gnl|CDD|118103 pfam09567, RE_MamI, MamI restriction endonuclease. This family
includes the MamI (recognises and cleaves GATNN^NNATC)
restriction endonuclease.
Length = 350
Score = 25.6 bits (55), Expect = 5.1
Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 8/59 (13%)
Query: 28 LGSLTSQDDAVMLQ-------RRLDEMNQRWHHLKNRSLAIRMQSLIFYSLSVTL-QPG 78
LGSL S+++ +++ + M QRW L +S M + + S+ L +PG
Sbjct: 1 LGSLESEEEVFLIEDLFVDLFGHIHVMLQRWAALTGQSAQADMGYIAQFLASIVLGEPG 59
>gnl|CDD|218970 pfam06278, DUF1032, Protein of unknown function (DUF1032). This
family consists of several conserved eukaryotic proteins
of unknown function.
Length = 565
Score = 25.7 bits (56), Expect = 5.3
Identities = 11/36 (30%), Positives = 21/36 (58%)
Query: 57 RSLAIRMQSLIFYSLSVTLQPGIQYPIDTLAFTTLS 92
R + +Q Y++ VT QPG++ +DT++ L+
Sbjct: 511 RYMLASLQLANDYTVEVTQQPGLEAAVDTMSLRLLT 546
>gnl|CDD|226875 COG4469, CoiA, Competence protein CoiA-like family, contains a
predicted nuclease domain [General function
prediction only].
Length = 342
Score = 25.5 bits (56), Expect = 5.7
Identities = 21/64 (32%), Positives = 26/64 (40%), Gaps = 7/64 (10%)
Query: 2 EKKDLQAEIESHKDVYSSLNTSGKRLL-GSLTSQDDAVMLQRRLDEMNQRWHHLKNRSLA 60
+ E ES + + GKR L L Q V L+ L E+ QR L N LA
Sbjct: 53 KACAFFNENESEEHL------KGKRQLYQWLKRQGCKVELEPYLPEIKQRPDILVNDKLA 106
Query: 61 IRMQ 64
I Q
Sbjct: 107 IEYQ 110
>gnl|CDD|235657 PRK05967, PRK05967, cystathionine beta-lyase; Provisional.
Length = 395
Score = 25.2 bits (55), Expect = 7.0
Identities = 11/34 (32%), Positives = 14/34 (41%)
Query: 28 LGSLTSQDDAVMLQRRLDEMNQRWHHLKNRSLAI 61
LG DD + R L M R H + +L I
Sbjct: 240 LGLCAGPDDTYQILRGLRTMGIRLEHHRKSALEI 273
>gnl|CDD|212069 cd11500, SLC6sbd_PROT, Na(+)- and Cl(-)-dependent L-proline
transporter PROT; solute-binding domain. PROT is a
high-affinity L-proline transporter that transports
L-proline, and may have a role in excitatory
neurotransmission. Human PROT is encoded by the SLC6A7
gene, a potential susceptible gene for asthma. PROT is
expressed in the brain. This subgroup belongs to the
solute carrier 6 (SLC6) transporter family.
Length = 544
Score = 25.1 bits (55), Expect = 8.1
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 51 WHHLKNRSLAIRMQSLIFYSLSV 73
+H L + + S IFYSL +
Sbjct: 242 FHRLASSQVWYDAASQIFYSLGI 264
>gnl|CDD|182874 PRK10972, PRK10972, Z-ring-associated protein; Provisional.
Length = 109
Score = 24.4 bits (53), Expect = 9.7
Identities = 12/35 (34%), Positives = 19/35 (54%), Gaps = 2/35 (5%)
Query: 34 QDDAVMLQRRLDEMNQRWHHLKNRSLAIRMQSLIF 68
Q DA L + +++NQR LK R+ + L+F
Sbjct: 23 QRDA--LNQAAEDLNQRLQDLKERTRVTNTEQLVF 55
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
0.318 0.131 0.370
Gapped
Lambda K H
0.267 0.0719 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,871,448
Number of extensions: 396391
Number of successful extensions: 424
Number of sequences better than 10.0: 1
Number of HSP's gapped: 418
Number of HSP's successfully gapped: 34
Length of query: 101
Length of database: 10,937,602
Length adjustment: 67
Effective length of query: 34
Effective length of database: 7,965,884
Effective search space: 270840056
Effective search space used: 270840056
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 (21.8 bits)
S2: 53 (24.2 bits)