RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13775
(119 letters)
>gnl|CDD|236448 PRK09281, PRK09281, F0F1 ATP synthase subunit alpha; Validated.
Length = 502
Score = 99.8 bits (250), Expect = 8e-26
Identities = 33/89 (37%), Positives = 53/89 (59%), Gaps = 2/89 (2%)
Query: 33 RRLPILL--GQYVPMAIEEQVAVIYCGVRGHLDKLDPAKITTFEKEFLAHIKSSERGLLE 90
+RL LL QY P+ +EEQV ++Y G G+LD + K+ FE E LA+++S+ LLE
Sbjct: 414 QRLVELLKQPQYSPLPVEEQVVILYAGTNGYLDDVPVEKVRRFEAELLAYLRSNHADLLE 473
Query: 91 SIKKEGKITEDTDAKLKTVVTNFLANFTG 119
I++ ++++ +AKLK + F F
Sbjct: 474 EIRETKDLSDEIEAKLKAAIEEFKKTFAA 502
>gnl|CDD|223134 COG0056, AtpA, F0F1-type ATP synthase, alpha subunit [Energy
production and conversion].
Length = 504
Score = 80.3 bits (199), Expect = 6e-19
Identities = 30/78 (38%), Positives = 49/78 (62%)
Query: 41 QYVPMAIEEQVAVIYCGVRGHLDKLDPAKITTFEKEFLAHIKSSERGLLESIKKEGKITE 100
QY P+++EEQV ++Y G G+LD + K+ FEKE LA+++S + LLE I+ ++ +
Sbjct: 424 QYSPLSVEEQVLILYAGTNGYLDDVPVEKVADFEKELLAYLRSDHKELLEEIRTTKELDD 483
Query: 101 DTDAKLKTVVTNFLANFT 118
+ +AKLK + F F
Sbjct: 484 EIEAKLKAAIKEFKKTFA 501
>gnl|CDD|233211 TIGR00962, atpA, proton translocating ATP synthase, F1 alpha
subunit. The sequences of ATP synthase F1 alpha and
beta subunits are related and both contain a
nucleotide-binding site for ATP and ADP. They have a
common amino terminal domain but vary at the C-terminus.
The beta chain has catalytic activity, while the alpha
chain is a regulatory subunit. The alpha-subunit
contains a highly conserved adenine-specific
noncatalytic nucleotide-binding domain. The conserved
amino acid sequence is Gly-X-X-X-X-Gly-Lys. Proton
translocating ATP synthase F1, alpha subunit is
homologous to proton translocating ATP synthase
archaeal/vacuolar(V1), B subunit [Energy metabolism,
ATP-proton motive force interconversion].
Length = 501
Score = 77.8 bits (192), Expect = 5e-18
Identities = 30/77 (38%), Positives = 49/77 (63%)
Query: 41 QYVPMAIEEQVAVIYCGVRGHLDKLDPAKITTFEKEFLAHIKSSERGLLESIKKEGKITE 100
QY P+++EEQV +++ G +G+LD + KI FE+ LA++ ++ +LE I K+TE
Sbjct: 423 QYKPLSVEEQVVILFAGTKGYLDDIPVDKIRKFEQALLAYLDANHPDILEEINTTKKLTE 482
Query: 101 DTDAKLKTVVTNFLANF 117
+ +AKLK + NF F
Sbjct: 483 ELEAKLKEALKNFKKTF 499
>gnl|CDD|176999 CHL00059, atpA, ATP synthase CF1 alpha subunit.
Length = 485
Score = 66.9 bits (164), Expect = 3e-14
Identities = 30/87 (34%), Positives = 45/87 (51%), Gaps = 2/87 (2%)
Query: 33 RRLPILL--GQYVPMAIEEQVAVIYCGVRGHLDKLDPAKITTFEKEFLAHIKSSERGLLE 90
+RL LL Q P+ +EEQVA IY G G+LD L+ ++ F E ++K+++ E
Sbjct: 393 QRLRELLKQSQSAPLTVEEQVATIYTGTNGYLDSLEIGQVRKFLVELRTYLKTNKPQFQE 452
Query: 91 SIKKEGKITEDTDAKLKTVVTNFLANF 117
I TE+ +A LK + L F
Sbjct: 453 IISSTKTFTEEAEALLKEAIQEQLELF 479
>gnl|CDD|183987 PRK13343, PRK13343, F0F1 ATP synthase subunit alpha; Provisional.
Length = 502
Score = 63.8 bits (156), Expect = 4e-13
Identities = 25/88 (28%), Positives = 44/88 (50%), Gaps = 2/88 (2%)
Query: 33 RRLPILLGQ--YVPMAIEEQVAVIYCGVRGHLDKLDPAKITTFEKEFLAHIKSSERGLLE 90
RRL LL Q + P+++EEQ+A++Y G LD + A I FE+ L + + L
Sbjct: 414 RRLRELLKQPRFSPLSVEEQIALLYALNEGLLDAVPLANIQAFEERLLEKLDARFAALSL 473
Query: 91 SIKKEGKITEDTDAKLKTVVTNFLANFT 118
+++ ++ E A L+ ++ F
Sbjct: 474 ALESPRELDEAWLAALEEILREAGERFA 501
>gnl|CDD|215848 pfam00306, ATP-synt_ab_C, ATP synthase alpha/beta chain, C terminal
domain.
Length = 110
Score = 35.7 bits (83), Expect = 0.001
Identities = 21/74 (28%), Positives = 27/74 (36%), Gaps = 13/74 (17%)
Query: 33 RRLPILL--GQYVPM-------AIEEQVAVIYCGVRGHLDKLDPAKITTFEKEFLAHIKS 83
RR+ L QY P +EE + + Y +RG D L + LA K
Sbjct: 41 RRIEEFLKQNQYSPEPVEKQYVPVEETIDLFYALLRGKFDDLPEDALYRIGTIDLAKYKD 100
Query: 84 SERGLLESIKKEGK 97
L E KK K
Sbjct: 101 ----LEEKFKKLKK 110
>gnl|CDD|237576 PRK13979, PRK13979, DNA topoisomerase IV subunit A; Provisional.
Length = 957
Score = 28.9 bits (65), Expect = 0.67
Identities = 18/43 (41%), Positives = 23/43 (53%), Gaps = 9/43 (20%)
Query: 62 LDKLDPAKITTFEKEF---------LAHIKSSERGLLESIKKE 95
L +L +I FEKE+ L I SSE+ LL+ IKKE
Sbjct: 440 LYRLTGLEIVAFEKEYKELEKLIKKLTKILSSEKELLKVIKKE 482
>gnl|CDD|236791 PRK10902, PRK10902, FKBP-type peptidyl-prolyl cis-trans isomerase;
Provisional.
Length = 269
Score = 27.4 bits (61), Expect = 1.6
Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 4/48 (8%)
Query: 68 AKITTFEKEFLAH--IKSSERGLLESIKKEGKITEDTDAKLKTVVTNF 113
AK + ++F +K++ GLL ++KEG D+ TVV N+
Sbjct: 126 AKGKKYREKFAKEKGVKTTSTGLLYKVEKEGTGEAPKDS--DTVVVNY 171
>gnl|CDD|113869 pfam05114, DUF692, Protein of unknown function (DUF692). This
family consists of several uncharacterized bacterial
proteins.
Length = 275
Score = 27.0 bits (60), Expect = 2.3
Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 5/49 (10%)
Query: 33 RRLPILLGQYVPMAIEEQVAVIYCGVRGHLDKLDPAKITTFEKEFLAHI 81
R L L ++ P + E ++ YC GHL L P F +E + H+
Sbjct: 77 RALKELAERHDPPLVSEHLS--YCRDGGHLYDLLP---LPFTEEAVDHV 120
>gnl|CDD|214794 smart00731, SprT, SprT homologues. Predicted to have roles in
transcription elongation. Contains a conserved HExxH
motif, indicating a metalloprotease function.
Length = 146
Score = 26.5 bits (59), Expect = 2.4
Identities = 12/36 (33%), Positives = 15/36 (41%), Gaps = 2/36 (5%)
Query: 3 WNVRLLPQKAGYHYSNFTARIGLNKSLMLSRRLPIL 38
WN RL +K G +A I LN L+ L
Sbjct: 26 WNKRL--RKTGGRCLLKSAEIRLNPKLLTENGRDRL 59
>gnl|CDD|180627 PRK06569, PRK06569, F0F1 ATP synthase subunit B'; Validated.
Length = 155
Score = 26.0 bits (57), Expect = 4.4
Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 3/51 (5%)
Query: 62 LDKLDPAKITTFEKEFLAHIKSSERGLLESIKKEGKITEDTDAKLKTVVTN 112
+D+L KI + E EFL K+ E+ L SI + ED + K TN
Sbjct: 78 IDRLKKEKIDSLESEFLIKKKNLEQDLKNSINQN---IEDINLAAKQFRTN 125
>gnl|CDD|181319 PRK08246, PRK08246, threonine dehydratase; Provisional.
Length = 310
Score = 26.1 bits (58), Expect = 4.7
Identities = 12/21 (57%), Positives = 15/21 (71%), Gaps = 1/21 (4%)
Query: 37 ILLGQYVPMAIEEQVAVIYCG 57
+L G YVP A E+VAV+ CG
Sbjct: 282 LLSGAYVP-APGERVAVVLCG 301
>gnl|CDD|226374 COG3856, Sbp, Uncharacterized conserved protein (small basic
protein) [Function unknown].
Length = 113
Score = 25.1 bits (55), Expect = 7.1
Identities = 9/42 (21%), Positives = 23/42 (54%)
Query: 23 IGLNKSLMLSRRLPILLGQYVPMAIEEQVAVIYCGVRGHLDK 64
IG+ L+ + +P + Y+ +A+ + ++ G+R +L +
Sbjct: 10 IGIVLGLVFNPGVPDVYSPYLSIAVLAALDTVFGGIRAYLQR 51
>gnl|CDD|179934 PRK05094, PRK05094, dsDNA-mimic protein; Reviewed.
Length = 107
Score = 24.9 bits (55), Expect = 7.9
Identities = 12/28 (42%), Positives = 13/28 (46%), Gaps = 6/28 (21%)
Query: 63 DKLDPAKITTFEKEFLAHIKSSERGLLE 90
D LDPA I F +F ERG E
Sbjct: 26 DNLDPADILLFNLQF------EERGGAE 47
>gnl|CDD|200523 cd11262, Sema_4G, The Sema domain, a protein interacting module,
of semaphorin 4G (Sema4G). The Sema4G and Sema4C genes
are expressed in the developing cerebellar cortex.
Sema4G and Sema4C proteins specifically bind to Plexin
B2 expressed in the cerebellar granule cells. Sema4G
and Sema4C are involved in neural tube closure and
cerebellar granule cell development through Plexin
B2.Sema4G belongs to the class 4 transmembrane
semaphorin family of proteins. Semaphorins are
regulatory molecules involved in the development of the
nervous system and in axonal guidance. They also play
important roles in other biological processes, such as
angiogenesis, immune regulation, respiration systems
and cancer. The Sema domain is located at the
N-terminus and contains four disulfide bonds formed by
eight conserved cysteine residues. It serves as a
receptor-recognition and -binding module.
Length = 457
Score = 25.5 bits (56), Expect = 8.2
Identities = 8/31 (25%), Positives = 17/31 (54%)
Query: 42 YVPMAIEEQVAVIYCGVRGHLDKLDPAKITT 72
Y + +E++ +Y G RG + L+ + I+
Sbjct: 10 YSTLLLEDESGRLYVGARGAIFSLNASDISD 40
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 0.136 0.391
Gapped
Lambda K H
0.267 0.0722 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,023,528
Number of extensions: 529030
Number of successful extensions: 449
Number of sequences better than 10.0: 1
Number of HSP's gapped: 448
Number of HSP's successfully gapped: 28
Length of query: 119
Length of database: 10,937,602
Length adjustment: 82
Effective length of query: 37
Effective length of database: 7,300,574
Effective search space: 270121238
Effective search space used: 270121238
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: 53 (24.2 bits)