RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11632
(450 letters)
>gnl|CDD|110998 pfam02055, Glyco_hydro_30, O-Glycosyl hydrolase family 30.
Length = 495
Score = 306 bits (785), Expect = 2e-99
Identities = 148/372 (39%), Positives = 206/372 (55%), Gaps = 42/372 (11%)
Query: 95 GISYAFGRVPIGGCDFSTRAYTYDDIPNDKKLEKFNLTTEDFQYKIPLIQQANRLRGEPL 154
G++ FGRVPI CDFS R YTY D P+D ++ F+L ED Q+KIP I +A + + L
Sbjct: 111 GLNLQFGRVPIASCDFSIRVYTYADTPDDYQMHNFSLPEEDTQWKIPYIHRAQKY-NQRL 169
Query: 155 RLVGSAWSAPAWMKTNNALTGRGELKTQ----YYQTWAQYLIMFLDFYKREQLSFWALTT 210
+L S W+AP W+KT A+ G+G LK Q Y+QT+A+Y + FL+ Y + + FW L+T
Sbjct: 170 KLFASPWTAPGWLKTTGAVNGKGSLKGQPGDIYHQTYARYFVKFLEEYAKHGIQFWGLST 229
Query: 211 GNEPINGDLPSFLPFVPKFNSMGWHPKSVATWIANNLGPTLRSSQHNA-TKILAIDDQRF 269
NEP G + KF S+G+ + +I +LGP L +S H K+L +DD R
Sbjct: 230 QNEPTAGSDKKY-----KFQSLGFTAEHQRDFIKRDLGPALANSTHGKNVKLLILDDNRG 284
Query: 270 VLPWWLEQVCN----------IGLRMFQDKLPIPEKILRKDIPSMNVVERKYLF-KLYIL 318
LP W + V N I + +QD ++ E L +I
Sbjct: 285 NLPKWADTVLNDPDAAKYVHGIAVHWYQD-----------AEADAHLGETHRLHPNTFIF 333
Query: 319 VYTAFAGIKGLFSDKPWDLIKVQLGSWSRAEQYISDIIENLNHGLVAWLEWNLALNTQGG 378
A G K D V GSW RA Y SDI++NLN+ + W E NLAL+ +GG
Sbjct: 334 GTEASEG------SKSKDQ-SVDYGSWDRAMDYSSDILDNLNNWVTGWTERNLALDAEGG 386
Query: 379 TNWKNNFLDAPIIVNAAKDEFYKQPMFYAIGHFSRFIKPGS-RV-LKANSRSRTVEVLAT 436
+W +NF+DAP+I AK +FYKQPMFYAI HFS FIKPG+ R+ N ++ +E +A
Sbjct: 387 PSWVSNFVDAPVIAFPAKAQFYKQPMFYAIAHFSHFIKPGAVRIDHSLNQKNPELEAVAF 446
Query: 437 IDKDENHVVVVL 448
++ D + VVVVL
Sbjct: 447 LNPDGSKVVVVL 458
Score = 58.4 bits (141), Expect = 4e-09
Identities = 29/97 (29%), Positives = 44/97 (45%), Gaps = 6/97 (6%)
Query: 16 LGPTIKTSNLA--TKIFMLDDQKVPLP-WFITLMTADNSKVESYIDGVGIHWYWDQFIPV 72
LGP + S K+ +LDD + LP W T++ + Y+ G+ +HWY D
Sbjct: 261 LGPALANSTHGKNVKLLILDDNRGNLPKWADTVLN--DPDAAKYVHGIAVHWYQDAEADA 318
Query: 73 TVVDTVHKKYPRLLLINTEASIGISYAFGRVPIGGCD 109
+ +T H+ +P + TEAS G V G D
Sbjct: 319 HLGET-HRLHPNTFIFGTEASEGSKSKDQSVDYGSWD 354
>gnl|CDD|227807 COG5520, COG5520, O-Glycosyl hydrolase [Cell envelope biogenesis,
outer membrane].
Length = 433
Score = 91.9 bits (228), Expect = 4e-20
Identities = 68/366 (18%), Positives = 112/366 (30%), Gaps = 85/366 (23%)
Query: 95 GISYAFGRVPIGGCDFSTRAYTYDDIPNDKKLEKFNLTTEDFQYKIPLIQQANRLRGEPL 154
+ ++ RVPI DFS + D YK + A +
Sbjct: 77 QLGFSILRVPIDSNDFSLGG------------------SADNWYK--ELSTAKSAINPGM 116
Query: 155 RLVGSAWSAPAWMKTNNALTG--RGELKTQYYQTWAQYLIMFLDFYKREQLSFWALTTGN 212
+ S WS PA MKT N G G LK + Y +A YL F+ K ++ +AL+ N
Sbjct: 117 IVFASPWSPPASMKTTNNRNGGNAGRLKYEKYADYADYLNDFVLEMKNNGVNLYALSVQN 176
Query: 213 EPINGDLPSFLPFVPKFNSMGWHPKSVATWIANNLGPTLRSSQHNATKILAIDDQRFVLP 272
EP + P ++ W P+ ++ L +++ +
Sbjct: 177 EPD---------YAPTYDWCWWTPQEELRFMRQYLASINAE-----MRVIIPES------ 216
Query: 273 WWLEQVCNIGLRMFQDKLPIPEKILRKDIPSMNVVERKYLFKLYILVYTA--FAGIKGLF 330
F+D + + IL + L +Y L
Sbjct: 217 -------------FKDLPNMSDPILNDP------KALANMDILGTHLYGGQVSDQPYPLA 257
Query: 331 SDKPWD----LIKVQLGSW-------SRAEQYISDIIENLNHGLVAWLEWNLALNTQG-- 377
KP + + + I G A++ WN+ L+ G
Sbjct: 258 KQKPAGKDLWMTECYPPESDPNSADREALHVALHIHIGMTEGGFQAYVWWNIRLDYGGGP 317
Query: 378 --GTNWKNNFLDAPIIVNAAKDEFY----KQPMFYAIGHFSRFIKPGSRVLKANSRSRTV 431
G N K + A K P Y + S ++ P V+ A ++ T
Sbjct: 318 NHGGNSKRGYCMAHFSKFVQNGYVRLDATKSP--YGNVYVSAYVGPNKVVIVAINKG-TY 374
Query: 432 EVLATI 437
V +
Sbjct: 375 PVNQSF 380
>gnl|CDD|221224 pfam11790, Glyco_hydro_cc, Glycosyl hydrolase catalytic core. This
family is probably a glycosyl hydrolase, and is
conserved in fungi and some Proteobacteria. The pombe
member is annotated as being from IPR013781.
Length = 186
Score = 29.6 bits (67), Expect = 2.1
Identities = 13/49 (26%), Positives = 20/49 (40%), Gaps = 7/49 (14%)
Query: 39 LPWFITLMTADNSKVESYIDGVGIHWYW---DQFIPVTVVDTVHKKYPR 84
L W M A + +D + +HWY D F + +D H Y +
Sbjct: 69 LDWLDQFMEACSGG--CKVDFIAVHWYGTDFDGFK--SYIDEFHNTYGK 113
>gnl|CDD|233550 TIGR01733, AA-adenyl-dom, amino acid adenylation domain. This
model represents a domain responsible for the specific
recognition of amino acids and activation as adenylyl
amino acids. The reaction catalyzed is aa + ATP ->
aa-AMP + PPi. These domains are usually found as
components of multi-domain non-ribosomal peptide
synthetases and are usually called "A-domains" in that
context (for a review, see ). A-domains are almost
invariably followed by "T-domains" (thiolation domains,
pfam00550) to which the amino acid adenylate is
transferred as a thiol-ester to a bound pantetheine
cofactor with the release of AMP (these are also called
peptide carrier proteins, or PCPs. When the A-domain
does not represent the first module (corresponding to
the first amino acid in the product molecule) it is
usually preceded by a "C-domain" (condensation domain,
pfam00668) which catalyzes the ligation of two amino
acid thiol-esters from neighboring modules. This domain
is a subset of the AMP-binding domain found in Pfam
(pfam00501) which also hits substrate--CoA ligases and
luciferases. Sequences scoring in between trusted and
noise for this model may be ambiguous as to whether they
activate amino acids or other molecules lacking an alpha
amino group.
Length = 409
Score = 29.5 bits (67), Expect = 3.8
Identities = 17/63 (26%), Positives = 24/63 (38%), Gaps = 13/63 (20%)
Query: 70 IPVTVVDTVHKKYPRLLLIN----TEASIGISYA---------FGRVPIGGCDFSTRAYT 116
+ +VD + P LIN TE ++ + VPIG +TR Y
Sbjct: 247 LTPALVDRWRARGPGARLINLYGPTETTVWSTATLVDPDDAPRESPVPIGRPLANTRLYV 306
Query: 117 YDD 119
DD
Sbjct: 307 LDD 309
>gnl|CDD|213941 TIGR04328, cas4_PREFRAN, CRISPR-associated protein Cas4, subtype
PREFRAN. Members of this family are the Cas4 protein of
a novel CRISPR subtype, PREFRAN, found in Prevotella
bryantii B14, Prevotella disiens FB035-09AN, Francisella
tularensis subsp. novicida, Francisella philomiragia,
Butyrivibrio proteoclasticus B316, Helcococcus kunzii
ATCC 51366, etc.
Length = 178
Score = 28.7 bits (64), Expect = 4.1
Identities = 11/40 (27%), Positives = 19/40 (47%), Gaps = 1/40 (2%)
Query: 182 QYYQTWAQYLIMFLDFYKREQLSFWALTTGNEPINGDLPS 221
YQ +AQY + YK + F+++ N+ D+P
Sbjct: 97 YIYQLYAQYFCLLEMGYKVNSIEFYSIDD-NKHYPIDIPC 135
>gnl|CDD|131997 TIGR02952, Sig70_famx2, RNA polymerase sigma-70 factor, TIGR02952
family. This group of sigma factors are members of the
sigma-70 family (TIGR02937). They and appear by
homology, tree building, bidirectional best hits and
one-to-a-genome distribution, to represent a conserved
family. This family is found in a limited number of
Gram-positive bacterial lineages.
Length = 170
Score = 28.6 bits (64), Expect = 4.3
Identities = 30/138 (21%), Positives = 52/138 (37%), Gaps = 24/138 (17%)
Query: 322 AFAGIKGLFSDKPWDLIKVQLGSWSRAEQYISDIIENLNHGLVAWLEWNLALNTQGGTNW 381
AFA I +SD+ + I ++G AE S++ E L
Sbjct: 12 AFARIYETYSDRVYRYIYYRVGCKYTAEDLTSEVFER-------------VLRKIDSFKE 58
Query: 382 KNNFLDA---PIIVNAAKDEF---YKQPMFYAIGHF----SRFIKPGSRVLKANSRSRTV 431
+ N +A I N D F + P+F ++ F S P +LK + + +
Sbjct: 59 QKNSFEAWLFTIARNVVNDYFRGSKRHPLF-SLDVFKELLSNEPNPEEAILKEEANEKLL 117
Query: 432 EVLATIDKDENHVVVVLF 449
+ L + + HV+ + F
Sbjct: 118 KALKILTPKQQHVIALRF 135
>gnl|CDD|237605 PRK14086, dnaA, chromosomal replication initiation protein;
Provisional.
Length = 617
Score = 29.4 bits (66), Expect = 4.8
Identities = 14/37 (37%), Positives = 23/37 (62%)
Query: 401 KQPMFYAIGHFSRFIKPGSRVLKANSRSRTVEVLATI 437
K + +AIGH++R + PG+RV +S T E + +I
Sbjct: 327 KTHLLHAIGHYARRLYPGTRVRYVSSEEFTNEFINSI 363
>gnl|CDD|214830 smart00813, Alpha-L-AF_C, Alpha-L-arabinofuranosidase C-terminus.
This entry represents the C terminus (approximately 200
residues) of bacterial and eukaryotic
alpha-L-arabinofuranosidase. This catalyses the
hydrolysis of non-reducing terminal
alpha-L-arabinofuranosidic linkages in
L-arabinose-containing polysaccharides.
Length = 189
Score = 28.0 bits (63), Expect = 7.4
Identities = 14/74 (18%), Positives = 27/74 (36%), Gaps = 12/74 (16%)
Query: 387 DAPIIVNAAKDEFYKQPMFYAIGHFSRFIKPGSRVLKANSRSRT----------VEVLAT 436
P ++ + ++ +Y FS+ G VL S T ++ A+
Sbjct: 52 INPDMLTFNGGQAWRTTTYYVFQLFSKH--QGGTVLPVTISSPTYDGEDSDVPALDASAS 109
Query: 437 IDKDENHVVVVLFN 450
D+D + V + N
Sbjct: 110 KDEDGGSLTVKVVN 123
>gnl|CDD|132852 cd07213, Pat17_PNPLA8_PNPLA9_like1, Patatin-like phospholipase.
Patatin is a storage protein of the potato tuber that
shows Phospholipase A2 activity (PLA2; EC 3.1.1.4).
Patatin catalyzes the nonspecific hydrolysis of
phospholipids, glycolipids, sulfolipids, and mono- and
diacylglycerols, thereby showing lipid acyl hydrolase
activity. The active site includes an oxyanion hole with
a conserved GGxR motif; it is found in almost all the
members of this family. The catalytic dyad is formed by
a serine and an aspartate. Patatin belongs to the
alpha-beta hydrolase family which is identified by a
characteristic nucleophile elbow with a consensus
sequence of Sm-X-Nu-Sm (Sm = small residue, X = any
residue and Nu = nucleophile). Members of this family
have been found also in vertebrates. This family
includes subfamily of PNPLA8 (iPLA2-gamma) and PNPLA9
(iPLA2-beta) like phospholipases from human as well as
the Pat17 isozyme from Solanum cardiophyllum.
Length = 288
Score = 28.0 bits (63), Expect = 9.5
Identities = 9/34 (26%), Positives = 13/34 (38%)
Query: 347 RAEQYISDIIENLNHGLVAWLEWNLALNTQGGTN 380
R Y+ + GL+ WL L L G +
Sbjct: 208 RPPSYLDGANGYGDWGLLQWLPDLLDLFMDAGVD 241
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 0.138 0.439
Gapped
Lambda K H
0.267 0.0757 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 23,551,909
Number of extensions: 2294836
Number of successful extensions: 1699
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1687
Number of HSP's successfully gapped: 23
Length of query: 450
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 350
Effective length of database: 6,502,202
Effective search space: 2275770700
Effective search space used: 2275770700
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 (27.2 bits)