RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8378
(230 letters)
>gnl|CDD|217605 pfam03542, Tuberin, Tuberin. Tuberous sclerosis complex (TSC) is
an autosomal dominant disorder and is characterized by
the presence of hamartomas in many organs, such as
brain, skin, heart, lung, and kidney. It is caused by
mutation either TSC1 or TSC2 tumour suppressor gene. The
TSC2 gene codes for tuberin and interacts with hamartin
pfam04388, containing two coiled-coil regions, which
have been shown to mediate binding to tuberin. These two
proteins function within the same pathway(s) regulating
cell cycle, cell growth, adhesion, and vesicular
trafficking.
Length = 356
Score = 153 bits (388), Expect = 5e-45
Identities = 59/110 (53%), Positives = 76/110 (69%), Gaps = 1/110 (0%)
Query: 25 ESERGYSRQEKCITALTTCTLEMEREMVKLLPEVLLNLSKISITTSIAIPILEFVSMLTR 84
E CI+ LT LEM ++ LP++L+ LSK+S T +A+P+LEF+S L
Sbjct: 244 EQGLITRCASVCISTLTILLLEMPDVLMSKLPDLLVELSKMSATVLMALPVLEFLSTLIH 303
Query: 85 LPK-LFSNFVGDQYMSVFAICMPCTNPFKYNHYTVSLAHHVIAVWFLKCR 133
LPK L++NF QYMSVFAI +P TNP +Y+HYTVSLAHHVIA WF+KCR
Sbjct: 304 LPKHLYANFTETQYMSVFAISLPYTNPARYDHYTVSLAHHVIAAWFIKCR 353
>gnl|CDD|234743 PRK00390, leuS, leucyl-tRNA synthetase; Validated.
Length = 805
Score = 153 bits (390), Expect = 7e-43
Identities = 51/89 (57%), Positives = 60/89 (67%), Gaps = 10/89 (11%)
Query: 133 RYWGTPIPMVHCPSCGPVPVPYEALPITLP----PSPPL-PLASNAEWQHCSCPKCGHGG 187
RYWG PIP++HC CG VPVP E LP+ LP P PLA + EW + +CPKCG
Sbjct: 424 RYWGEPIPIIHCEDCGIVPVPEEDLPVVLPEDVVPDGTGSPLAKHPEWVNVTCPKCG-KP 482
Query: 188 ARRETDTMDTFVDSAWYYVRYLGSGGDPN 216
ARRETDTMDTFV S+WYY+RY DP+
Sbjct: 483 ARRETDTMDTFVGSSWYYLRYT----DPH 507
>gnl|CDD|232956 TIGR00396, leuS_bact, leucyl-tRNA synthetase, eubacterial and
mitochondrial family. The leucyl-tRNA synthetases
belong to two families so broadly different that they
are represented by separate models. This model includes
both eubacterial and mitochondrial leucyl-tRNA
synthetases. It generates higher scores for some
valyl-tRNA synthetases than for any archaeal or
eukaryotic cytosolic leucyl-tRNA synthetase. Note that
the enzyme from Aquifex aeolicus is split into alpha and
beta chains; neither chain is long enough to score above
the trusted cutoff, but the alpha chain scores well
above the noise cutoff. The beta chain must be found by
a model and search designed for partial length matches
[Protein synthesis, tRNA aminoacylation].
Length = 842
Score = 121 bits (305), Expect = 1e-31
Identities = 43/83 (51%), Positives = 51/83 (61%), Gaps = 7/83 (8%)
Query: 133 RYWGTPIPMVHCPSCGPVPVPYEALPITLP------PSPPLPLASNAEWQHCSCPKCGHG 186
RYWG PIP++HC G VPVP E LP+ LP PL+ EW + +CP C
Sbjct: 421 RYWGEPIPIIHCEDGGVVPVPEEDLPVILPEDVVYDGDGGSPLSRIPEWVNVTCPSC-GK 479
Query: 187 GARRETDTMDTFVDSAWYYVRYL 209
A RETDTMDTF S+WYY+RYL
Sbjct: 480 PALRETDTMDTFAGSSWYYLRYL 502
>gnl|CDD|223569 COG0495, LeuS, Leucyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 814
Score = 107 bits (270), Expect = 6e-27
Identities = 43/89 (48%), Positives = 52/89 (58%), Gaps = 12/89 (13%)
Query: 133 RYWGTPIPMVHCPSCGPVPVPYEALPITLP----PSPPL-PLASNAEWQHCSCPKCGHGG 187
RYWG PIP++HC CG VPVP + LP+ LP PL + EW S P
Sbjct: 428 RYWGEPIPIIHCEDCGVVPVPEDWLPVKLPERVRGLGTGSPLPWDEEWVIESLPD---ST 484
Query: 188 ARRETDTMDTFVDSAWYYVRYLGSGGDPN 216
A RETDTMDTF+DS+WYY+R+ DP
Sbjct: 485 AYRETDTMDTFIDSSWYYLRFF----DPI 509
>gnl|CDD|178177 PLN02563, PLN02563, aminoacyl-tRNA ligase.
Length = 963
Score = 69.9 bits (171), Expect = 7e-14
Identities = 41/96 (42%), Positives = 51/96 (53%), Gaps = 14/96 (14%)
Query: 129 FLKCRYWGTPIPMVHCPSCG-PVPVPYEALPITLP------PS--PPLPLASNAEWQHCS 179
F + RYWG PIP+V G PVPVP LP+TLP P+ PLA W +
Sbjct: 509 FARQRYWGEPIPVVFLEDSGEPVPVPESDLPLTLPELDDFTPTGTGEPPLAKAVSWVNTV 568
Query: 180 CPKCGHGGARRETDTMDTFVDSAWYYVRYLGSGGDP 215
P G ARRET+TM + S WYY+R++ DP
Sbjct: 569 DPSSG-KPARRETNTMPQWAGSCWYYLRFM----DP 599
>gnl|CDD|237306 PRK13208, valS, valyl-tRNA synthetase; Reviewed.
Length = 800
Score = 56.4 bits (137), Expect = 3e-09
Identities = 27/70 (38%), Positives = 34/70 (48%), Gaps = 10/70 (14%)
Query: 133 RYWGTPIPMVHCPSCG-PVPVPYEALPITLPPSPPLPLASNAEWQHCSCPKCGHGGARRE 191
RY+GTPIP+ +C CG P+ E LP+ P CP+CG G E
Sbjct: 404 RYFGTPIPVWYCKDCGHPILPDEEDLPVD-------PTKDEPPG--YKCPQCGSPGFEGE 454
Query: 192 TDTMDTFVDS 201
TD MDT+ S
Sbjct: 455 TDVMDTWATS 464
>gnl|CDD|223138 COG0060, IleS, Isoleucyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 933
Score = 45.3 bits (108), Expect = 1e-05
Identities = 24/82 (29%), Positives = 32/82 (39%), Gaps = 10/82 (12%)
Query: 133 RYWGTPIPMVHCPSCGPVPVPYEALPITLPPSPPLPLASNAEWQH------CSCPKCGHG 186
RYWG PIP+ +C G + V E L L + + CP+ G
Sbjct: 463 RYWGVPIPVWYCKETGEILVITEEL-EELVGQLVEEKGIDDWHRPDIDELLPPCPEDG-K 520
Query: 187 GARRETDTMDTFVDS--AWYYV 206
RR D +D + DS Y V
Sbjct: 521 EYRRVPDVLDVWFDSGSTPYAV 542
>gnl|CDD|185677 cd00817, ValRS_core, catalytic core domain of valyl-tRNA
synthetases. Valine amino-acyl tRNA synthetase (ValRS)
catalytic core domain. This enzyme is a monomer which
aminoacylates the 2'-OH of the nucleotide at the 3' of
the appropriate tRNA. The core domain is based on the
Rossman fold and is responsible for the ATP-dependent
formation of the enzyme bound aminoacyl-adenylate. It
contains the characteristic class I HIGH and KMSKS
motifs, which are involved in ATP binding. ValRS has an
insertion in the core domain, which is subject to both
deletions and rearrangements. This editing region
hydrolyzes mischarged cognate tRNAs and thus prevents
the incorporation of chemically similar amino acids.
Length = 382
Score = 44.5 bits (106), Expect = 2e-05
Identities = 16/71 (22%), Positives = 25/71 (35%), Gaps = 14/71 (19%)
Query: 133 RYWGTPIPMVHCPSCGPVPV-PYEALPITLPPSPPLPLASNAEWQHCSCPKCGHGGARRE 191
+WG IP +C G V E I +C CG +++
Sbjct: 218 LWWGHRIPAWYCKDGGHWVVAREEDEAIDKA-------------APEACVPCGGEELKQD 264
Query: 192 TDTMDTFVDSA 202
D +DT+ S+
Sbjct: 265 EDVLDTWFSSS 275
>gnl|CDD|223599 COG0525, ValS, Valyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 877
Score = 43.0 bits (102), Expect = 8e-05
Identities = 16/70 (22%), Positives = 25/70 (35%), Gaps = 17/70 (24%)
Query: 133 RYWGTPIPMVHCPSCGPVPVPYEALPITLPPSPPLPLASNAEWQHCSCPKCGHGGARRET 192
+WG IP+ +C CG V V A + KC ++
Sbjct: 405 LWWGHRIPVWYCKECGNVVV-----------------AEEEPEDPAAAEKCPKEELEQDE 447
Query: 193 DTMDTFVDSA 202
D +DT+ S+
Sbjct: 448 DVLDTWFSSS 457
>gnl|CDD|173906 cd00812, LeuRS_core, catalytic core domain of leucyl-tRNA
synthetases. Leucyl tRNA synthetase (LeuRS) catalytic
core domain. This class I enzyme is a monomer which
aminoacylates the 2'-OH of the nucleotide at the 3' of
the appropriate tRNA. The core domain is based on the
Rossman fold and is responsible for the ATP-dependent
formation of the enzyme bound aminoacyl-adenylate. It
contains the characteristic class I HIGH and KMSKS
motifs, which are involved in ATP binding. In Aquifex
aeolicus, the gene encoding LeuRS is split in two, just
before the KMSKS motif. Consequently, LeuRS is a
heterodimer, which likely superimposes with the LeuRS
monomer found in most other organisms. LeuRS has an
insertion in the core domain, which is subject to both
deletions and rearrangements and thus differs between
prokaryotic LeuRS and archaeal/eukaryotic LeuRS. This
editing region hydrolyzes mischarged cognate tRNAs and
thus prevents the incorporation of chemically similar
amino acids.
Length = 314
Score = 42.2 bits (100), Expect = 9e-05
Identities = 19/77 (24%), Positives = 21/77 (27%), Gaps = 50/77 (64%)
Query: 133 RYWGTPIPMVHCPSCGPVPVPYEALPITLPPSPPLPLASNAEWQHCSCPKCGHGGARRET 192
RYWGTPIP T
Sbjct: 173 RYWGTPIPW--------------------------------------------------T 182
Query: 193 DTMDTFVDSAWYYVRYL 209
DTM++ DS WYY RY
Sbjct: 183 DTMESLSDSTWYYARYT 199
>gnl|CDD|173909 cd00818, IleRS_core, catalytic core domain of isoleucyl-tRNA
synthetases. Isoleucine amino-acyl tRNA synthetases
(IleRS) catalytic core domain . This class I enzyme is a
monomer which aminoacylates the 2'-OH of the nucleotide
at the 3' of the appropriate tRNA. The core domain is
based on the Rossman fold and is responsible for the
ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. It contains the characteristic
class I HIGH and KMSKS motifs, which are involved in ATP
binding. IleRS has an insertion in the core domain,
which is subject to both deletions and rearrangements.
This editing region hydrolyzes mischarged cognate tRNAs
and thus prevents the incorporation of chemically
similar amino acids.
Length = 338
Score = 38.0 bits (89), Expect = 0.002
Identities = 20/76 (26%), Positives = 24/76 (31%), Gaps = 38/76 (50%)
Query: 133 RYWGTPIPMVHCPSCGPVPVPYEALPITLPPSPPLPLASNAEWQHCSCPKCGHGGARRET 192
RYWGTPIP+ +C CG V V RR
Sbjct: 198 RYWGTPIPVWYCEDCGEVLV------------------------------------RRVP 221
Query: 193 DTMDTFVDS--AWYYV 206
D +D + DS Y
Sbjct: 222 DVLDVWFDSGSMPYAQ 237
>gnl|CDD|232969 TIGR00422, valS, valyl-tRNA synthetase. The valyl-tRNA synthetase
(ValS) is a class I amino acyl-tRNA ligase and is
particularly closely related to the isoleucyl tRNA
synthetase [Protein synthesis, tRNA aminoacylation].
Length = 861
Score = 35.8 bits (83), Expect = 0.016
Identities = 19/90 (21%), Positives = 33/90 (36%), Gaps = 21/90 (23%)
Query: 113 YNHYTVSLAHHVIAVWFLKCRYWGTPIPMVHCPSCGPVPVPYEALPITLPPSPPLPLASN 172
Y ++ ++ I+ + WG IP+ +C CG V V E P +
Sbjct: 389 YLNWLRNIKDWCIS----RQLIWGHRIPVWYCKECGEVYVAKE----EPLPDDKTNTGPS 440
Query: 173 AEWQHCSCPKCGHGGARRETDTMDTFVDSA 202
E ++TD +DT+ S+
Sbjct: 441 VEL-------------EQDTDVLDTWFSSS 457
>gnl|CDD|237855 PRK14900, valS, valyl-tRNA synthetase; Provisional.
Length = 1052
Score = 34.2 bits (78), Expect = 0.055
Identities = 20/77 (25%), Positives = 29/77 (37%), Gaps = 21/77 (27%)
Query: 134 YWGTPIPMVHCPSCGPVPVPYEALPITLPPSPPLPLASNAEWQHCSCPKCGHGGARRETD 193
+WG IP +CP G V V E P +C CG R++ D
Sbjct: 423 WWGHQIPAWYCPD-GHVTVARET------PE--------------ACSTCGKAELRQDED 461
Query: 194 TMDTFVDSAWYYVRYLG 210
+DT+ S + +G
Sbjct: 462 VLDTWFSSGLWPFSTMG 478
>gnl|CDD|215739 pfam00133, tRNA-synt_1, tRNA synthetases class I (I, L, M and V).
Other tRNA synthetase sub-families are too dissimilar to
be included.
Length = 606
Score = 33.9 bits (78), Expect = 0.070
Identities = 16/74 (21%), Positives = 26/74 (35%), Gaps = 1/74 (1%)
Query: 133 RYWGTPIPMVHCPSCGPVPVPYEALPITLPPSPPLPLASNAEWQHCSCPKCGHGGARRET 192
R+WG PIP + G V V + + + G G ++
Sbjct: 429 RWWGHPIPAWYSKDTGEVYVRGSLKELVAGREEEEGIEAWLHRDAKDLLGKGAGTLEQDE 488
Query: 193 DTMDTFVDSA-WYY 205
D +DT+ S W +
Sbjct: 489 DVLDTWFSSGSWPF 502
>gnl|CDD|232953 TIGR00392, ileS, isoleucyl-tRNA synthetase. The isoleucyl tRNA
synthetase (IleS) is a class I amino acyl-tRNA ligase
and is particularly closely related to the valyl tRNA
synthetase. This model may recognize IleS from every
species, including eukaryotic cytosolic and
mitochondrial forms [Protein synthesis, tRNA
aminoacylation].
Length = 861
Score = 33.5 bits (77), Expect = 0.097
Identities = 20/90 (22%), Positives = 29/90 (32%), Gaps = 29/90 (32%)
Query: 133 RYWGTPIPMVHCPSCGPVPV------PYEALPITLPPSPPLPLASNAEWQHC-------- 178
RYWG PIP+ +C G V E + + +A ++
Sbjct: 469 RYWGIPIPIWYCEDTGEPIVVGSIEELIELIELK---------GIDAWFEDLHRDFLDKI 519
Query: 179 --SCPKCGHGGARRETDTMDTFVDS--AWY 204
G RR D +D + DS Y
Sbjct: 520 TLKSGDGGE--YRRVPDVLDVWFDSGSMPY 547
>gnl|CDD|235681 PRK06039, ileS, isoleucyl-tRNA synthetase; Reviewed.
Length = 975
Score = 32.4 bits (75), Expect = 0.20
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 133 RYWGTPIPMVHCPSCG 148
RYWGTP+P+ C CG
Sbjct: 452 RYWGTPLPIWRCEDCG 467
>gnl|CDD|213729 TIGR02605, CxxC_CxxC_SSSS, putative regulatory protein, FmdB
family. This model represents a region of about 50
amino acids found in a number of small proteins in a
wide range of bacteria. The region begins usually with
the initiator Met and contains two CxxC motifs separated
by 17 amino acids. One member of this family is has been
noted as a putative regulatory protein, designated FmdB
(SP:Q50229, PMID:8841393 ). Most members of this family
have a C-terminal region containing highly degenerate
sequence, such as
SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in
Mycobacterium tuberculosis and
VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces
avermitilis. These low complexity regions, which are not
included in the model, resemble low-complexity
C-terminal regions of some heterocycle-containing
bacteriocin precursors [Regulatory functions, DNA
interactions].
Length = 52
Score = 28.4 bits (64), Expect = 0.41
Identities = 11/48 (22%), Positives = 17/48 (35%), Gaps = 15/48 (31%)
Query: 143 HCPSCGPVPVPYEALPITLPPSPPLPLASNAEWQHCSCPKCGHGGARR 190
C +CG +E L ++ +CP+CG RR
Sbjct: 7 RCTACGHR---FEVL------------QKMSDDPLATCPECGSPKLRR 39
>gnl|CDD|225363 COG2804, PulE, Type II secretory pathway, ATPase PulE/Tfp pilus
assembly pathway, ATPase PilB [Cell motility and
secretion / Intracellular trafficking and secretion].
Length = 500
Score = 30.0 bits (68), Expect = 1.2
Identities = 12/46 (26%), Positives = 16/46 (34%), Gaps = 7/46 (15%)
Query: 144 CPSCGPVPVPYEALPITLPPSPPLPLASNAEWQHCSCPKCGHGGAR 189
CP C P E + L S PL ++ C C G +
Sbjct: 398 CPHCKEECEPEELARLGLSESLPL-------YRAVGCEACNGSGYK 436
>gnl|CDD|182254 PRK10124, PRK10124, putative UDP-glucose lipid carrier transferase;
Provisional.
Length = 463
Score = 28.9 bits (65), Expect = 2.2
Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 5/47 (10%)
Query: 79 VSMLTRLPKLFSNFVGDQYMSVFAICMPCTNPFKYNHYTVSLAHHVI 125
+SM+ R + F G ++ +C F Y H V+L V+
Sbjct: 16 ISMVQRFSDITIMFAG-----LWLVCEVSGLSFLYMHLLVALITLVV 57
>gnl|CDD|132082 TIGR03037, anthran_nbaC, 3-hydroxyanthranilate 3,4-dioxygenase.
Members of this protein family, from both bacteria and
eukaryotes, are the enzyme 3-hydroxyanthranilate
3,4-dioxygenase. This enzyme acts on the tryptophan
metabolite 3-hydroxyanthranilate and produces
2-amino-3-carboxymuconate semialdehyde, which can
rearrange spontaneously to quinolinic acid and feed into
nicotinamide biosynthesis, or undergo further enzymatic
degradation.
Length = 159
Score = 27.8 bits (62), Expect = 3.3
Identities = 13/46 (28%), Positives = 17/46 (36%), Gaps = 7/46 (15%)
Query: 144 CPSCGP----VPVPYEALPITLPPSPPLPLASNAEWQHCSCPKCGH 185
CP CG V E + LPP + + +C CGH
Sbjct: 117 CPQCGHKLHRAEVQLENIVTDLPP---VFEHFYSNEDARTCKNCGH 159
>gnl|CDD|227811 COG5524, COG5524, Bacteriorhodopsin [General function prediction
only].
Length = 285
Score = 28.2 bits (63), Expect = 3.4
Identities = 11/65 (16%), Positives = 27/65 (41%), Gaps = 2/65 (3%)
Query: 67 ITTSIAIPILEFVSMLTRLPKLFSNFVGDQYMSVFAICMPCT-NPFKYNHYTVSLAHHVI 125
+TT + + L ++ + + D M V + T + +K+ +Y + A ++
Sbjct: 111 LTTPLLLLYLGLLAGTSLW-TIAGVVAADIIMIVTGLAAALTHSTYKWAYYAIGAAAFLV 169
Query: 126 AVWFL 130
+ L
Sbjct: 170 VLAVL 174
>gnl|CDD|224119 COG1198, PriA, Primosomal protein N' (replication factor Y) -
superfamily II helicase [DNA replication, recombination,
and repair].
Length = 730
Score = 28.4 bits (64), Expect = 3.8
Identities = 19/62 (30%), Positives = 25/62 (40%), Gaps = 5/62 (8%)
Query: 88 LFSNFVGDQYMSVFAICMPCTNPFKYNHYTVSLAHHVIAVWFLKCRYWGTPIPMV-HCPS 146
LF N G Y + +C C + + L H A L+C Y G P+ CP
Sbjct: 425 LFLNRRG--Y-APLLLCRDCGYIAECPNCDSPLTLHK-ATGQLRCHYCGYQEPIPQSCPE 480
Query: 147 CG 148
CG
Sbjct: 481 CG 482
>gnl|CDD|235588 PRK05743, ileS, isoleucyl-tRNA synthetase; Reviewed.
Length = 912
Score = 28.1 bits (64), Expect = 4.0
Identities = 7/18 (38%), Positives = 10/18 (55%)
Query: 133 RYWGTPIPMVHCPSCGPV 150
R WG PIP+ + G +
Sbjct: 460 RTWGVPIPIFYHKETGEL 477
>gnl|CDD|184098 PRK13507, PRK13507, formate--tetrahydrofolate ligase; Provisional.
Length = 587
Score = 27.4 bits (61), Expect = 7.2
Identities = 13/40 (32%), Positives = 15/40 (37%), Gaps = 9/40 (22%)
Query: 128 WFLKCRYWG---------TPIPMVHCPSCGPVPVPYEALP 158
W LKCR G I + GP VP + LP
Sbjct: 333 WNLKCRLSGLKPDCAVIVATIRALKMHGGGPKVVPGKPLP 372
>gnl|CDD|216346 pfam01177, Asp_Glu_race, Asp/Glu/Hydantoin racemase. This family
contains aspartate racemase, maleate isomerases
EC:5.2.1.1, glutamate racemase, hydantoin racemase and
arylmalonate decarboxylase EC:4.1.1.76.
Length = 209
Score = 27.0 bits (60), Expect = 7.2
Identities = 17/70 (24%), Positives = 26/70 (37%), Gaps = 17/70 (24%)
Query: 44 TLEMEREMVKLLP-----EVLLNLSKISITTSIAIPILEFVSMLTRLPKLFSNFVGDQYM 98
TL +ERE+V+ LP V L+ ++ + L + RL K
Sbjct: 9 TLTVERELVRALPAEDDPGVYLHDTRPPRIEEQLLDRL--LEAARRLAK----------A 56
Query: 99 SVFAICMPCT 108
AI + C
Sbjct: 57 GADAIVIACN 66
>gnl|CDD|173617 PTZ00427, PTZ00427, isoleucine-tRNA ligase, putative; Provisional.
Length = 1205
Score = 27.6 bits (61), Expect = 8.0
Identities = 8/9 (88%), Positives = 9/9 (100%)
Query: 133 RYWGTPIPM 141
RYWGTPIP+
Sbjct: 577 RYWGTPIPI 585
>gnl|CDD|235202 PRK04023, PRK04023, DNA polymerase II large subunit; Validated.
Length = 1121
Score = 27.2 bits (61), Expect = 8.3
Identities = 13/54 (24%), Positives = 15/54 (27%), Gaps = 11/54 (20%)
Query: 131 KCRYWGTPIPMVHCPSCGPVPVPYEALPITLPPSPPLPLASNAEWQHCSCPKCG 184
KC G CP CG P P + + C KCG
Sbjct: 628 KCPSCGKETFYRRCPFCGTHTEPVYRCPRC-------GIEVEED----ECEKCG 670
>gnl|CDD|131585 TIGR02533, type_II_gspE, type II secretion system protein E. This
family describes GspE, the E protein of the type II
secretion system, also called the main terminal branch
of the general secretion pathway. This model separates
GspE from the PilB protein of type IV pilin biosynthesis
[Protein fate, Protein and peptide secretion and
trafficking, Cellular processes, Pathogenesis].
Length = 486
Score = 27.0 bits (60), Expect = 8.9
Identities = 15/49 (30%), Positives = 18/49 (36%), Gaps = 3/49 (6%)
Query: 144 CPSCGPVPVPYEALPITLPPSPPLPLASNAEWQHCSCPKCGHGGARRET 192
CP C PYEA P + P ++ CP C H G T
Sbjct: 382 CPHC---KEPYEATPEEIALFGISPEGPINLYRPVGCPHCNHTGYLGRT 427
>gnl|CDD|214399 MTH00014, ND4, NADH dehydrogenase subunit 4; Validated.
Length = 452
Score = 27.0 bits (60), Expect = 9.0
Identities = 21/77 (27%), Positives = 35/77 (45%), Gaps = 4/77 (5%)
Query: 54 LLPEVLLNLSKISITTSIAIPILEFVSMLTRLPKLFSNFVGDQYMSVFAICMPCTNPFKY 113
LL E++L S +S + S AI + S L LF + Q+ S + P
Sbjct: 369 LLSEIMLLTSILSSSLSTAILLA-ITSFLAAAYSLFL-YTSTQHGSPPSFMNPLNLFTPR 426
Query: 114 NHYTVSLAHHVIAVWFL 130
NH ++L H++ ++ L
Sbjct: 427 NHTLMTL--HLVPLFIL 441
>gnl|CDD|222704 pfam14353, CpXC, CpXC protein. This presumed domain is
functionally uncharacterized. This domain is found in
bacteria and archaea, and is typically between 122 and
134 amino acids in length. It contains four conserved
cysteines forming two CpXC motifs.
Length = 128
Score = 26.2 bits (58), Expect = 9.8
Identities = 12/46 (26%), Positives = 16/46 (34%), Gaps = 3/46 (6%)
Query: 142 VHCPSCG-PVPVPYEALPITLPPSPPL-PLASNAEWQHCSCPKCGH 185
+ CPSCG + P L + +CP CGH
Sbjct: 2 ITCPSCGHEFEAEVWTS-VNADEDPELREAILDGTLFTFTCPSCGH 46
>gnl|CDD|222717 pfam14375, Cys_rich_CWC, Cysteine-rich CWC. This family of
proteins is functionally uncharacterized. This family of
proteins is found in bacteria and archaea. Proteins in
this family are typically between 74 and 102 amino acids
in length. It contains eight conserved cysteines,
including a conserved CWC sequence motif.
Length = 49
Score = 24.8 bits (54), Expect = 10.0
Identities = 7/24 (29%), Positives = 11/24 (45%)
Query: 160 TLPPSPPLPLASNAEWQHCSCPKC 183
++P P L ++ C CP C
Sbjct: 22 SVPFPPALLAYLAERYKDCLCPAC 45
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
0.323 0.139 0.465
Gapped
Lambda K H
0.267 0.0644 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,695,705
Number of extensions: 1042592
Number of successful extensions: 1226
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1207
Number of HSP's successfully gapped: 49
Length of query: 230
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 136
Effective length of database: 6,768,326
Effective search space: 920492336
Effective search space used: 920492336
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 57 (25.9 bits)