RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4907
(308 letters)
>gnl|CDD|215754 pfam00153, Mito_carr, Mitochondrial carrier protein.
Length = 96
Score = 81.9 bits (203), Expect = 8e-20
Identities = 34/91 (37%), Positives = 43/91 (47%), Gaps = 6/91 (6%)
Query: 180 GESSIVTDLCLSSIAGIINVLTTTPLWVVNTRL-----KVSNQYSGLLHGLNKIYKEEGA 234
S + L IAG I T PL VV TRL S +Y G+L KIYKEEG
Sbjct: 1 SPLSFLASLLAGGIAGAIAATVTYPLDVVKTRLQSSAAGGSRKYKGILDCFKKIYKEEGI 60
Query: 235 SALWKGTFASII-LVSNPAIQMSVYELLKRY 264
L+KG +++ + AI YE LK+
Sbjct: 61 RGLYKGLLPNLLRVAPAAAIYFGTYETLKKL 91
Score = 55.3 bits (134), Expect = 5e-10
Identities = 29/86 (33%), Positives = 45/86 (52%), Gaps = 1/86 (1%)
Query: 11 TLVHAIAGATGSVIGVSTFYPLEIVKLRSIINDRNLSHNDQKGILQKFEQIIKEEGLEAL 70
L +AG I + YPL++VK R + + KGIL F++I KEEG+ L
Sbjct: 5 FLASLLAGGIAGAIAATVTYPLDVVKTR-LQSSAAGGSRKYKGILDCFKKIYKEEGIRGL 63
Query: 71 YQGLEPMVKSLYTSNFVYFYSFHALK 96
Y+GL P + + + +YF ++ LK
Sbjct: 64 YKGLLPNLLRVAPAAAIYFGTYETLK 89
Score = 45.3 bits (108), Expect = 2e-06
Identities = 26/74 (35%), Positives = 41/74 (55%), Gaps = 1/74 (1%)
Query: 100 VIGVSTFYPLEIVKLRSIINDRNLSHNDQKGILQKFEQIIKEEGLEALYQGLEPMVKSLY 159
I + YPL++VK R + + KGIL F++I KEEG+ LY+GL P + +
Sbjct: 17 AIAATVTYPLDVVKTR-LQSSAAGGSRKYKGILDCFKKIYKEEGIRGLYKGLLPNLLRVA 75
Query: 160 TSNFVYFYSFHALK 173
+ +YF ++ LK
Sbjct: 76 PAAAIYFGTYETLK 89
>gnl|CDD|240302 PTZ00169, PTZ00169, ADP/ATP transporter on adenylate translocase;
Provisional.
Length = 300
Score = 49.0 bits (117), Expect = 9e-07
Identities = 55/246 (22%), Positives = 108/246 (43%), Gaps = 35/246 (14%)
Query: 52 KGILQKFEQIIKEEGLEALYQG-----------------LEPMVKSLY-----TSNFVYF 89
GI+ F ++ KE+G+ +L++G + K+++ ++F F
Sbjct: 53 SGIVNCFRRVSKEQGVLSLWRGNTANVIRYFPTQAFNFAFKDYFKNMFPKYNQKTDFWKF 112
Query: 90 YSFHALKSGSVIGVSTF---YPLEIVKLRSIINDRNLSHNDQKGILQKFEQIIKEEGLEA 146
+ + L SG + G S+ YPL+ + R + + G+ +I K+ G +
Sbjct: 113 FGVNIL-SGGLAGASSLLIVYPLDFARTRLASDIGKGGDREFTGLFDCLMKISKQTGFLS 171
Query: 147 LYQGLEPMVKSLYTSNFVYFYSFHALKSVK-GSGGESSIVTDLCLSSIAGIINVLTTTPL 205
LYQG V+ + YF + + K++ G+ ++I+ ++ I+ L + P
Sbjct: 172 LYQGFGVSVQGIIVYRGAYFGLYDSAKALLFGNDKNTNILYKWAVAQTVTILAGLISYPF 231
Query: 206 WVVNTRL--------KVSNQYSGLLHGLNKIYKEEGASALWKGTFASIILVSNPAIQMSV 257
V R+ K QY+G L KI K EG +KG +A+++ + A+ +
Sbjct: 232 DTVRRRMMMMSGRKAKSEIQYTGTLDCWKKILKNEGLGGFFKGAWANVLRGAGGALVLVF 291
Query: 258 YELLKR 263
Y+ L++
Sbjct: 292 YDELQK 297
>gnl|CDD|237178 PRK12705, PRK12705, hypothetical protein; Provisional.
Length = 508
Score = 30.8 bits (70), Expect = 0.82
Identities = 30/108 (27%), Positives = 48/108 (44%), Gaps = 15/108 (13%)
Query: 4 RNLFTYETL--VHAIAGATGSVIGVSTFYPL--EIVK--LRSIINDRNLSHNDQKGILQK 57
RN+ +E L V I T + +S+F P+ EI + L ++ D + + +QK
Sbjct: 219 RNIRAFEGLTGVDLIIDDTPEAVVISSFNPIRREIARLTLEKLLADGRIHPARIEEYVQK 278
Query: 58 ----FEQIIKEEGLEALYQ----GLEP-MVKSLYTSNFVYFYSFHALK 96
F+Q I E G E L + L+P +V+ L F Y + L
Sbjct: 279 ANEEFKQKIYEIGEEVLEELGIFDLKPGLVRLLGRLYFRTSYGQNVLS 326
Score = 28.5 bits (64), Expect = 5.1
Identities = 23/86 (26%), Positives = 39/86 (45%), Gaps = 13/86 (15%)
Query: 101 IGVSTFYPL--EIVK--LRSIINDRNLSHNDQKGILQK----FEQIIKEEGLEALYQ--- 149
+ +S+F P+ EI + L ++ D + + +QK F+Q I E G E L +
Sbjct: 241 VVISSFNPIRREIARLTLEKLLADGRIHPARIEEYVQKANEEFKQKIYEIGEEVLEELGI 300
Query: 150 -GLEP-MVKSLYTSNFVYFYSFHALK 173
L+P +V+ L F Y + L
Sbjct: 301 FDLKPGLVRLLGRLYFRTSYGQNVLS 326
>gnl|CDD|227917 COG5630, ARG2, Acetylglutamate synthase [Amino acid transport and
metabolism].
Length = 495
Score = 31.1 bits (70), Expect = 0.83
Identities = 24/122 (19%), Positives = 46/122 (37%), Gaps = 16/122 (13%)
Query: 75 EPMVKSLYTSNFVYFYSFHALKSGSVIGVSTFYPLEIVKLRSIIND---RNLS-HNDQKG 130
+ ++ + V+ +FH + G+ +T+ L++ +L+ +I R L H +
Sbjct: 312 KKVLVTTVLKKGVHIKTFHVPEKGAK-PSTTWKDLDLPRLQHLIQSSFKRTLDPHYYETR 370
Query: 131 ILQKFEQIIKEEGLEAL----YQGLEPMVKSLYTSNFVYFYSFHALKSVKGSGGESSIVT 186
I + I Y+G +N Y F L +GS G S V
Sbjct: 371 INTPLARAIVSGDYRGAAILTYEGSG-------ENNVPYLDKFAVLDDAQGSEGISDAVF 423
Query: 187 DL 188
++
Sbjct: 424 NI 425
>gnl|CDD|185494 PTZ00168, PTZ00168, mitochondrial carrier protein; Provisional.
Length = 259
Score = 29.1 bits (65), Expect = 2.5
Identities = 49/180 (27%), Positives = 84/180 (46%), Gaps = 29/180 (16%)
Query: 92 FHALKSGSVIGV---STFYPLEIVKLRSIINDRNLSHNDQKGILQKFEQIIKEEGLEALY 148
FH L +G++ GV + YP++ +K +I ++ S +D K LY
Sbjct: 4 FHNLVTGALSGVIVDAVLYPIDSIK-TNIQAKKSFSFSDIK----------------KLY 46
Query: 149 QGLEP-MVKSLYTSNFVYFYSFHAL-KSVKGSGGESSIVTDLCL--SSIAGIINVLTTTP 204
G+ P +V ++ S F FY F+ L K + E+ T+L L +SIA I + P
Sbjct: 47 SGILPTLVGTVPASAF--FYCFYELSKKLLTEYRENISKTNLYLISTSIAEITACIVRLP 104
Query: 205 LWVVNTRLKVSNQYSGLLHGLNKIYKEEGASALWKGTFASIILVSNP--AIQMSVYELLK 262
+V ++VS S +L + +I + EG + ++ +I+ P IQ ++E LK
Sbjct: 105 FEIVKQNMQVSGNIS-VLKTIYEITQREGLPSFLGKSYFVMIVREIPFDCIQYFLWETLK 163
>gnl|CDD|216510 pfam01450, IlvC, Acetohydroxy acid isomeroreductase, catalytic
domain. Acetohydroxy acid isomeroreductase catalyzes
the conversion of acetohydroxy acids into dihydroxy
valerates. This reaction is the second in the synthetic
pathway of the essential branched side chain amino acids
valine and isoleucine.
Length = 146
Score = 28.4 bits (64), Expect = 2.7
Identities = 14/41 (34%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 136 EQIIKEEGLEALYQ-GLEPMVKSLYTSNFVYFYSFHALKSV 175
EQ + GL+ L + G E +V++ Y+ YF + H LK +
Sbjct: 12 EQAVLCGGLQGLIKAGFETLVEAGYSPEIAYFETLHELKLI 52
Score = 28.0 bits (63), Expect = 4.2
Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 59 EQIIKEEGLEALYQ-GLEPMVKSLYTSNFVYFYSFHALKS 97
EQ + GL+ L + G E +V++ Y+ YF + H LK
Sbjct: 12 EQAVLCGGLQGLIKAGFETLVEAGYSPEIAYFETLHELKL 51
>gnl|CDD|132370 TIGR03327, AMP_phos, AMP phosphorylase. This enzyme family is
found, so far, strictly in the Archaea, and only in
those with a type III Rubisco enzyme. Most of the
members previously were annotated as thymidine
phosphorylase, or DeoA. The AMP metabolized by this
enzyme may be produced by ADP-dependent sugar kinases.
Length = 500
Score = 29.3 bits (66), Expect = 2.7
Identities = 19/67 (28%), Positives = 28/67 (41%), Gaps = 7/67 (10%)
Query: 55 LQKFEQIIKEEGLEALYQGLEPMVKSLYTSNFVYFYSFHALKSGSVIGVSTFYPLEIVKL 114
L+KF++II QG +P VKS Y Y+ A G V + +I +
Sbjct: 387 LEKFKEIIAA-------QGGDPDVKSEDIQVGDYTYTITAPTDGYVTDIDNKAITQIARE 439
Query: 115 RSIINDR 121
ND+
Sbjct: 440 AGAPNDK 446
>gnl|CDD|233383 TIGR01373, soxB, sarcosine oxidase, beta subunit family,
heterotetrameric form. This model describes the beta
subunit of a family of known and putative
heterotetrameric sarcosine oxidases. Five operons of
such oxidases are found in Mesorhizobium loti and three
in Agrobacterium tumefaciens, a high enough copy number
to suggest that not all members are share the same
function. The model is designated as subfamily rather
than equivalog for this reason. Sarcosine oxidase
catalyzes the oxidative demethylation of sarcosine to
glycine. The reaction converts tetrahydrofolate to
5,10-methylene-tetrahydrofolate. The enzyme is known in
monomeric and heterotetrameric (alpha,beta,gamma,delta)
forms [Energy metabolism, Amino acids and amines].
Length = 407
Score = 29.0 bits (65), Expect = 2.9
Identities = 25/90 (27%), Positives = 39/90 (43%), Gaps = 14/90 (15%)
Query: 19 ATGSVIGVSTFYPLEIVKLRSIINDRNLS-----HNDQKGILQKFEQIIKEEGLEALY-Q 72
G VIGV T R I + + H+ + F I+ L+AL +
Sbjct: 213 DGGRVIGVET--------TRGFIGAKKVGVAVAGHSSVVAAMAGFRLPIESHPLQALVSE 264
Query: 73 GLEPMVKSLYTSNFVYFYSFHALKSGSVIG 102
L+P++ ++ SN V+FY + K VIG
Sbjct: 265 PLKPIIDTVVMSNAVHFYVSQSDKGELVIG 294
>gnl|CDD|222469 pfam13949, ALIX_LYPXL_bnd, ALIX V-shaped domain binding to HIV.
The binding of the LYPxL motif of late HIV p6Gag and
EIAV p9Gag to this domain is necessary for viral
budding.This domain is generally central between an
N-terminal Bro1 domain, pfam03097 and a C-terminal
proline-rich domain. The retroviruses thus used this
domain to hijack the ESCRT system of the cell.
Length = 292
Score = 28.0 bits (63), Expect = 6.8
Identities = 23/109 (21%), Positives = 47/109 (43%), Gaps = 20/109 (18%)
Query: 33 EIVKLRSIINDRNLSHNDQKGILQKFEQIIKEEGLEALYQGLEPMVKSLYTSNFVYFYSF 92
E+ K R + S +D + + K E+ EE LE L E + L +S+
Sbjct: 85 ELRKYRGYLE--QASESDAQ-LRSKLEEH--EENLELLSGPEEELEALLPSSSPS----- 134
Query: 93 HALKSGSVIGVSTFYPLEIVKLRSIINDRNLSHNDQKGILQKFEQIIKE 141
K+ V +I +LR ++N N +++ +L++ ++ ++
Sbjct: 135 ---KTPEVSE-------QISRLRELLNKLNELKAEREKLLEELKEKAQD 173
>gnl|CDD|173938 cd08179, NADPH_BDH, NADPH-dependent butanol dehydrogenase
involved in the butanol and ethanol formation pathway
in bacteria. NADPH-dependent butanol dehydrogenase
(BDH) is involved in the butanol and ethanol formation
pathway of some bacteria. The fermentation process is
characterized by an acid producing growth phase,
followed by a solvent producing phase. The latter phase
is associated with the induction of solventogenic
enzymes such as butanol dehydrogenase. The activity of
the enzymes require NADPH as cofactor, as well as
divalent ions zinc or iron. This family is a member of
the iron-containing alcohol dehydrogenase superfamily.
Protein structure has a dehydroquinate synthase-like
fold.
Length = 375
Score = 28.0 bits (63), Expect = 7.5
Identities = 11/25 (44%), Positives = 17/25 (68%), Gaps = 1/25 (4%)
Query: 53 GILQKFEQIIKEEGLE-ALYQGLEP 76
G L K E +KE G+E +++G+EP
Sbjct: 39 GFLDKVEAYLKEAGIEVEVFEGVEP 63
Score = 28.0 bits (63), Expect = 7.5
Identities = 11/25 (44%), Positives = 17/25 (68%), Gaps = 1/25 (4%)
Query: 130 GILQKFEQIIKEEGLE-ALYQGLEP 153
G L K E +KE G+E +++G+EP
Sbjct: 39 GFLDKVEAYLKEAGIEVEVFEGVEP 63
>gnl|CDD|223614 COG0540, PyrB, Aspartate carbamoyltransferase, catalytic chain
[Nucleotide transport and metabolism].
Length = 316
Score = 27.6 bits (62), Expect = 9.1
Identities = 18/83 (21%), Positives = 33/83 (39%), Gaps = 23/83 (27%)
Query: 36 KLRSIINDRNLSHNDQKGILQK---FEQIIKEEGLEALYQGLEPMVKSLYTSNFVYFY-- 90
K+R +I+ +LS + + +L F+ + + E L +G K + F+
Sbjct: 6 KMRHLISIEDLSREELELLLDTADEFKAVARAEKKLDLLKG-----KVVAN----LFFEP 56
Query: 91 ------SFH-ALK--SGSVIGVS 104
SF A+K V+ S
Sbjct: 57 STRTRLSFETAMKRLGADVVNFS 79
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
0.320 0.135 0.381
Gapped
Lambda K H
0.267 0.0730 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,278,823
Number of extensions: 1453841
Number of successful extensions: 1482
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1467
Number of HSP's successfully gapped: 30
Length of query: 308
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 211
Effective length of database: 6,635,264
Effective search space: 1400040704
Effective search space used: 1400040704
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 (21.8 bits)
S2: 59 (26.5 bits)