RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13925
(344 letters)
>gnl|CDD|189470 pfam00250, Fork_head, Fork head domain.
Length = 96
Score = 182 bits (464), Expect = 4e-58
Identities = 64/96 (66%), Positives = 78/96 (81%)
Query: 13 KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
KPPYSYI+L MAI SPEKML LS+IY++I D FPYYR+N Q WQNS+RHNLS N CF+
Sbjct: 1 KPPYSYIALITMAIQQSPEKMLTLSEIYQWIMDLFPYYRQNKQGWQNSIRHNLSLNKCFI 60
Query: 73 KIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRR 108
K+PR PD+PGKG+YW L P + +MFENG L+RR+R
Sbjct: 61 KVPRSPDKPGKGSYWTLDPESENMFENGKYLKRRKR 96
>gnl|CDD|214627 smart00339, FH, FORKHEAD. FORKHEAD, also known as a "winged
helix".
Length = 89
Score = 160 bits (406), Expect = 2e-49
Identities = 62/89 (69%), Positives = 72/89 (80%)
Query: 13 KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
KPPYSYI+L AMAI SSP+K L LS+IY++I D FPYYR N WQNS+RHNLS NDCFV
Sbjct: 1 KPPYSYIALIAMAILSSPDKRLTLSEIYKWIEDNFPYYRENRAGWQNSIRHNLSLNDCFV 60
Query: 73 KIPRRPDRPGKGAYWALHPNALDMFENGS 101
K+PR DRPGKG+YW L P A +MFENG+
Sbjct: 61 KVPREGDRPGKGSYWTLDPAAENMFENGN 89
>gnl|CDD|238016 cd00059, FH, Forkhead (FH), also known as a "winged helix". FH
is named for the Drosophila fork head protein, a
transcription factor which promotes terminal rather
than segmental development. This family of
transcription factor domains, which bind to B-DNA as
monomers, are also found in the Hepatocyte nuclear
factor (HNF) proteins, which provide tissue-specific
gene regulation. The structure contains 2 flexible
loops or "wings" in the C-terminal region, hence the
term winged helix.
Length = 78
Score = 152 bits (386), Expect = 2e-46
Identities = 52/78 (66%), Positives = 61/78 (78%)
Query: 13 KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
KPPYSY +L AMAI SSPEK L LS+IY++I+D FPY+R WQNS+RHNLS N CFV
Sbjct: 1 KPPYSYSALIAMAIQSSPEKRLTLSEIYKWISDNFPYFRDAPAGWQNSIRHNLSLNKCFV 60
Query: 73 KIPRRPDRPGKGAYWALH 90
K+PR PD PGKG+YW L
Sbjct: 61 KVPREPDEPGKGSYWTLD 78
>gnl|CDD|227358 COG5025, COG5025, Transcription factor of the Forkhead/HNF3 family
[Transcription].
Length = 610
Score = 82.6 bits (204), Expect = 2e-17
Identities = 51/149 (34%), Positives = 69/149 (46%), Gaps = 13/149 (8%)
Query: 12 QKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCF 71
KP +SY + AI SSP + LS+IY +I+ PYYR WQNS+RHNLS N F
Sbjct: 336 SKPAFSYANSITQAILSSPSGKMTLSEIYSWISSNLPYYRHKPTAWQNSIRHNLSLNKSF 395
Query: 72 VKIPRRPDRPGKGAYWALHPNALDMFENGSLLRRRRRFKLMKSDKDKLENELAALANVNR 131
K+PR +PGKG +W + + + E+ R + +VN
Sbjct: 396 EKVPRSASQPGKGCFWKIDYSYIYEKES-KRNPRSPKKSPSAHSV-----HQKLSLHVND 449
Query: 132 IYLSSQSPTTSDDFEHPESPISNFDEDEE 160
+Y QSP TSD S S + E
Sbjct: 450 LY---QSPATSD----IASSSSQVNSQPE 471
Score = 67.9 bits (166), Expect = 2e-12
Identities = 41/92 (44%), Positives = 53/92 (57%)
Query: 13 KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
PPYSY + +AI +SP+K L LS IY +I + F YY + RWQNS+RHNLS ND F+
Sbjct: 86 VPPYSYATGRGLAILNSPDKPLTLSKIYTWIHNTFFYYAKVVSRWQNSIRHNLSLNDAFI 145
Query: 73 KIPRRPDRPGKGAYWALHPNALDMFENGSLLR 104
KI R KG +W++ P F L
Sbjct: 146 KIEGRNGAKVKGHFWSIGPGHETQFLKSGLRL 177
>gnl|CDD|130673 TIGR01612, 235kDa-fam, reticulocyte binding/rhoptry protein. This
model represents a group of paralogous families in
plasmodium species alternately annotated as reticulocyte
binding protein, 235-kDa family protein and rhoptry
protein. Rhoptry protein is localized on the cell surface
and is extremely large (although apparently lacking in
repeat structure) and is important for the process of
invasion of the RBCs by the parasite. These proteins are
found in P. falciparum, P. vivax and P. yoelii.
Length = 2757
Score = 35.8 bits (82), Expect = 0.039
Identities = 37/151 (24%), Positives = 70/151 (46%), Gaps = 20/151 (13%)
Query: 96 MFENGSLLRRRRRFKLMK---SD----KDKLENELAALAN----VNRIYLSSQSPTT--- 141
+FEN L + + +K SD K+K+ N++ L + +N++ SQ+ T
Sbjct: 1983 IFENQQLYEKIQASNELKDTLSDLKYKKEKILNDVKLLLHKFDELNKLSCDSQNYDTILE 2042
Query: 142 SDDFEHPESPISNFDEDEEIDVIHDFSPKTLDYSLKNLNYSPKSIDKSPEPMESSHAKPF 201
+ + I N+++++E I DF K ++ N K I+K + S
Sbjct: 2043 LSKQDKIKEKIDNYEKEKEKFGI-DFDVKAMEEKFDND---IKDIEKFENNYKHSEKDNH 2098
Query: 202 DFSINSNSLISSSHLEQHTKLSEPSDSEIKK 232
DFS +++I S ++ +L+E ++EIK
Sbjct: 2099 DFSEEKDNIIQSK--KKLKELTEAFNTEIKI 2127
>gnl|CDD|234521 TIGR04247, NosD_copper_fam, nitrous oxide reductase family
maturation protein NosD. Members of this family include
NosD, a repetitive periplasmic protein required for the
maturation of the copper-containing enzyme nitrous-oxide
reductase. NosD appears to be part of a complex with
NosF (an ABC transporter family ATP-binding protein) and
NosY (a six-helix transmembrane protein in the ABC-2
permease family). However, NosDFY-like complexes appear
to occur also in species whose copper requiring enzymes
are something other than nitrous-oxide reductase.
Length = 377
Score = 33.7 bits (78), Expect = 0.13
Identities = 13/47 (27%), Positives = 16/47 (34%), Gaps = 6/47 (12%)
Query: 6 RDTYGDQKPPYSYISLTAMAIWSSPEKML----PLSDIYRFIADRFP 48
D GD PY L +W P L P + R+ FP
Sbjct: 318 GDGIGDV--PYRPNDLFDKLVWRYPAARLLLGSPAVQLLRWAQKAFP 362
>gnl|CDD|140204 PTZ00176, PTZ00176, erythrocyte membrane protein 1 (PfEMP1);
Provisional.
Length = 1317
Score = 32.3 bits (73), Expect = 0.41
Identities = 27/130 (20%), Positives = 50/130 (38%), Gaps = 8/130 (6%)
Query: 132 IYLSSQSPTTSDDFEHPESPISNFDEDEEIDVIHDFSPKTLDYSLKNLNYSPKSIDKSPE 191
+ L T +D +P ++E + DF + L + N NY + +
Sbjct: 1003 VVLEPSKRDTQNDIPSDNTPSYKLTDEEWNQLKDDFISQYLPNTEPNNNYRSGNSPTNTN 1062
Query: 192 PMESSH----AKPFDFSINSNSLISSSHLEQHTKLSEPSDSEIKKSSTSVKRPFDIENLI 247
+SH KPF SI+ +L + + + +S + + K S +V D+ N
Sbjct: 1063 NTTTSHDNMGEKPFIMSIHDRNLYTGEEISYNINMSTNTMDDPKYVSNNVYSGIDLIN-- 1120
Query: 248 STDSFTSQAH 257
D+ + H
Sbjct: 1121 --DTLSGNQH 1128
>gnl|CDD|217503 pfam03344, Daxx, Daxx Family. The Daxx protein (also known as the
Fas-binding protein) is thought to play a role in
apoptosis, but precise role played by Daxx remains to be
determined. Daxx forms a complex with Axin.
Length = 715
Score = 31.0 bits (70), Expect = 0.98
Identities = 19/85 (22%), Positives = 31/85 (36%)
Query: 156 DEDEEIDVIHDFSPKTLDYSLKNLNYSPKSIDKSPEPMESSHAKPFDFSINSNSLISSSH 215
D + + S + + + P+S + P ES A+ + L S
Sbjct: 502 DAERRNSEMAGISRMSEGQQPRGSSVQPESPQEEPLQPESMDAESVGEESDEELLAEESP 561
Query: 216 LEQHTKLSEPSDSEIKKSSTSVKRP 240
L HT+L + K S+S K P
Sbjct: 562 LSSHTELEGVATPVETKISSSRKLP 586
>gnl|CDD|236264 PRK08432, PRK08432, flagellar motor switch protein FliY; Validated.
Length = 283
Score = 30.4 bits (69), Expect = 1.2
Identities = 17/71 (23%), Positives = 31/71 (43%), Gaps = 10/71 (14%)
Query: 169 PKTLDYSLKNLNYSPKSIDKSPEPMESSHAKPFDFSINSNSLISSSHL---EQHTKLSEP 225
PK L+++++N+ + ++ D S +AK F FS + S L E + E
Sbjct: 116 PK-LNFTIENVEFVDENPDL------SDYAKLFLFSFKIEDIKSQIILLMDEAFENIFEK 168
Query: 226 SDSEIKKSSTS 236
E + +T
Sbjct: 169 KPKEEGEETTD 179
>gnl|CDD|219094 pfam06583, Neogenin_C, Neogenin C-terminus. This family represents
the C-terminus of eukaryotic neogenin precursor
proteins, which contains several potential
phosphorylation sites. Neogenin is a member of the N-CAM
family of cell adhesion molecules (and therefore
contains multiple copies of pfam00047 and pfam00041) and
is closely related to the DCC tumour suppressor gene
product - these proteins may play an integral role in
regulating differentiation programmes and/or cell
migration events within many adult and embryonic
tissues.
Length = 295
Score = 30.3 bits (68), Expect = 1.5
Identities = 35/140 (25%), Positives = 50/140 (35%), Gaps = 13/140 (9%)
Query: 184 KSIDKSPEPMESSHAKPF----DFSINSNSLISSSHLEQHTKLSEPSDSEIKKSSTSVKR 239
K+IDKSP P S P D + S+S S Q +SE SS + +R
Sbjct: 18 KNIDKSPHPNPSGTDTPIRSSQDITPVSSSAQSEPQSGQRRNSYRGHESEDSMSSLAARR 77
Query: 240 PFDIENLISTDSFTSQAHCLSPYLLQQPLMFLP----PPGLLSHPSYFPTQPNLLRFPPL 295
+ +I DS Q P + P+ L P L S + LR P
Sbjct: 78 GMRPKMMIPMDSQPPQ-----PVVSAHPIHTLDNPQYPGILPSPRCGYLHHQFSLRPMPF 132
Query: 296 SYPSIPSSLLHPFSLKSCST 315
S ++ H +S +
Sbjct: 133 STLTVQRLYQHGDRAESVES 152
>gnl|CDD|240413 PTZ00423, PTZ00423, glideosome-associated protein 45; Provisional.
Length = 193
Score = 29.7 bits (66), Expect = 1.8
Identities = 27/115 (23%), Positives = 49/115 (42%), Gaps = 16/115 (13%)
Query: 146 EHPESPISNFDEDEEIDVIHDFSPKTLDYSLK-NLNYSPKSIDKSPEPMESSHAKPFDFS 204
+ PE P +E+EE + +DY ++ N ++ K++D +++ +
Sbjct: 48 DQPEEPPEQEEENEEQKPKEE-----IDYPIQENKSFDEKNLDDLERSNSDIYSESHKYD 102
Query: 205 INSNSLISSSHL----------EQHTKLSEPSDSEIKKSSTSVKRPFDIENLIST 249
S+ L + S L +Q TKLSEP+ E ++ P D+ L T
Sbjct: 103 NASDKLETGSQLTLSTDATGIVQQVTKLSEPAHEESIYNTYKSVTPCDMNKLDET 157
>gnl|CDD|107168 PHA02290, PHA02290, hypothetical protein.
Length = 234
Score = 29.4 bits (65), Expect = 2.4
Identities = 14/77 (18%), Positives = 21/77 (27%), Gaps = 7/77 (9%)
Query: 113 KSDKDKLENELAALANVNRIYLSSQSPTTSDDFEHPESPISNFDEDEEIDVIHDFSPKTL 172
K E +A + + T ++ + S D DV+ DF
Sbjct: 17 KEKWVSEEEFTEEVAPPEEPEVEEEKLYTLNELK-----ESLLDAQGLKDVVADFPASKD 71
Query: 173 DYSLKNLNYS--PKSID 187
Y L PK
Sbjct: 72 LYEPNKLYICTIPKGYQ 88
>gnl|CDD|185484 PTZ00155, PTZ00155, 40S ribosomal protein S9; Provisional.
Length = 181
Score = 28.5 bits (64), Expect = 3.3
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 96 MFENGSLLRRRRRFKLMKSDKDKLENELA 124
+FE +LLRR R L+ D+ KL+ L
Sbjct: 70 LFEGEALLRRMHRLGLLDEDERKLDYVLG 98
>gnl|CDD|218060 pfam04393, DUF535, Protein of unknown function (DUF535). Family
member Shigella flexneri VirK is a virulence protein
required for the expression, or correct membrane
localisation of IcsA (VirG) on the bacterial cell
surface. This family also includes Pasteurella
haemolytica lapB, which is thought to be
membrane-associated.
Length = 287
Score = 29.1 bits (66), Expect = 3.6
Identities = 11/42 (26%), Positives = 18/42 (42%), Gaps = 1/42 (2%)
Query: 40 YRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFVKIPRRPDRP 81
+FI Y ++T+R L N D + PR P++
Sbjct: 15 LKFILRSL-LYPKSTKRLLQFLNQNPLLKDLLAQQPRLPEKL 55
>gnl|CDD|99915 cd05532, POLBc_alpha, DNA polymerase type-B alpha subfamily
catalytic domain. Three DNA-dependent DNA polymerases
type B (alpha, delta, and epsilon) have been identified
as essential for nuclear DNA replication in eukaryotes.
DNA polymerase (Pol) alpha is almost exclusively
required for the initiation of DNA replication and the
priming of Okazaki fragments during elongation. In most
organisms no specific repair role, other than check
point control, has been assigned to this enzyme. Pol
alpha contains both polymerase and exonuclease domains,
but lacks exonuclease activity suggesting that the
exonuclease domain may be for structural purposes only.
Length = 400
Score = 28.7 bits (65), Expect = 4.4
Identities = 18/62 (29%), Positives = 26/62 (41%), Gaps = 11/62 (17%)
Query: 67 FNDCFVKIPRRPDRPGKGAYWALHPNALDMFENG-------SLLRRRRRFK-LMKSDKDK 118
+N CF + R L P+ + G L+ RRR+ K LMKS+KD
Sbjct: 41 YNICFTTVDRADPDDEDDEEPPLPPSDQEK---GILPRIIRKLVERRRQVKKLMKSEKDP 97
Query: 119 LE 120
+
Sbjct: 98 DK 99
>gnl|CDD|177831 PLN02174, PLN02174, aldehyde dehydrogenase family 3 member H1.
Length = 484
Score = 28.5 bits (63), Expect = 5.6
Identities = 15/50 (30%), Positives = 29/50 (58%)
Query: 173 DYSLKNLNYSPKSIDKSPEPMESSHAKPFDFSINSNSLISSSHLEQHTKL 222
DY L Y+PK ID + +E+ + K S + + +++S+H ++ +KL
Sbjct: 257 DYILTTKEYAPKVIDAMKKELETFYGKNPMESKDMSRIVNSTHFDRLSKL 306
>gnl|CDD|178492 PLN02904, PLN02904, oxidoreductase.
Length = 357
Score = 28.4 bits (63), Expect = 6.0
Identities = 19/64 (29%), Positives = 28/64 (43%), Gaps = 6/64 (9%)
Query: 250 DSFTSQAHCLSPYLLQQPLMFLPPPGLLSHPSYFPTQPNLLRFPPLSYPSIPSSLLHPFS 309
DSFTS + + P ++ PP S P + + ++ P I SLLH
Sbjct: 11 DSFTSAMTLTNSGVPHVPDRYVLPP------SQRPMLGSSIGTSTITLPVIDLSLLHDPL 64
Query: 310 LKSC 313
L+SC
Sbjct: 65 LRSC 68
>gnl|CDD|177783 PLN00189, PLN00189, 40S ribosomal protein S9; Provisional.
Length = 194
Score = 27.8 bits (62), Expect = 6.0
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 97 FENGSLLRRRRRFKLMKSDKDKLENELA 124
FE +LLRR R+ L+ ++KL+ LA
Sbjct: 73 FEGEALLRRMNRYGLLDESQNKLDYVLA 100
>gnl|CDD|227615 COG5296, COG5296, Transcription factor involved in TATA site
selection and in elongation by RNA polymerase II
[Transcription].
Length = 521
Score = 28.5 bits (63), Expect = 6.9
Identities = 26/115 (22%), Positives = 49/115 (42%), Gaps = 14/115 (12%)
Query: 119 LENELAALANVNRIYLSSQSPTTSDDFEHPESPISNFDEDEEIDVIHDFSPKTLDYSLKN 178
++EL ALA ++ ++S DD + S S+ D +E + D++ S
Sbjct: 4 FQDELLALAGIDDSDVASNRKRAHDDLDDVLSSSSDEDNNENV----DYAE----ESGGE 55
Query: 179 LNY-SPKSIDKSPEPMESSHAKPFDFSINSNSLISSSHLEQHTKLSEPSDSEIKK 232
N S + K+P +E D +++ + +E+ + L E + EI K
Sbjct: 56 GNEKSEEEKFKNPYRLEGKFKDEAD----RAKIMAMTEIERESILFEREE-EISK 105
>gnl|CDD|152726 pfam12291, DUF3623, Protein of unknown function (DUF3623). This
family of proteins is found in bacteria. Proteins in
this family are typically between 261 and 345 amino
acids in length.
Length = 261
Score = 28.0 bits (63), Expect = 7.2
Identities = 15/26 (57%), Positives = 17/26 (65%), Gaps = 5/26 (19%)
Query: 270 FLPPPGLLSH-PSYFPTQP-NLLRFP 293
FLP P L+H SYF +P NLL FP
Sbjct: 168 FLPDP--LAHLKSYFRRRPMNLL-FP 190
>gnl|CDD|223731 COG0658, ComEC, Predicted membrane metal-binding protein [General
function prediction only].
Length = 453
Score = 27.8 bits (62), Expect = 8.8
Identities = 18/81 (22%), Positives = 23/81 (28%), Gaps = 5/81 (6%)
Query: 259 LSPYLLQQ---PLMFLPPPGLLSHPSYFPTQPNLLRFPPLSYPSIPSSLLHPFSLKSCST 315
L+P + L FL L+ F P LL +
Sbjct: 328 LAPLAILSLGFWLSFLAVAALILWSQLFRLLGLSWPLPITLALLATLPLLILQFGRLGLL 387
Query: 316 FLAATI--SPWFSLGILPSLC 334
L + SP SL LP L
Sbjct: 388 GLLLNLIVSPLISLISLPGLL 408
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
0.317 0.133 0.412
Gapped
Lambda K H
0.267 0.0647 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,941,202
Number of extensions: 1703542
Number of successful extensions: 1548
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1542
Number of HSP's successfully gapped: 40
Length of query: 344
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 246
Effective length of database: 6,590,910
Effective search space: 1621363860
Effective search space used: 1621363860
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 (21.7 bits)
S2: 59 (26.7 bits)