RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy977
(485 letters)
>gnl|CDD|189470 pfam00250, Fork_head, Fork head domain.
Length = 96
Score = 188 bits (479), Expect = 8e-59
Identities = 65/96 (67%), Positives = 79/96 (82%)
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 KIPRRPDRPGKGAYWALHPAALDMFENGSFLRRRKR 108
K+PR PD+PGKG+YW L P + +MFENG +L+RRKR
Sbjct: 61 KVPRSPDKPGKGSYWTLDPESENMFENGKYLKRRKR 96
Score = 29.6 bits (67), Expect = 1.1
Identities = 10/17 (58%), Positives = 14/17 (82%)
Query: 272 AALDMFENGSFLRRRKR 288
+ +MFENG +L+RRKR
Sbjct: 80 ESENMFENGKYLKRRKR 96
>gnl|CDD|214627 smart00339, FH, FORKHEAD. FORKHEAD, also known as a "winged
helix".
Length = 89
Score = 165 bits (421), Expect = 2e-50
Identities = 63/89 (70%), Positives = 73/89 (82%)
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 KIPRRPDRPGKGAYWALHPAALDMFENGS 101
K+PR DRPGKG+YW L PAA +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 = 157 bits (400), Expect = 3e-47
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 = 84.9 bits (210), Expect = 2e-17
Identities = 40/96 (41%), Positives = 54/96 (56%)
Query: 12 QKPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCF 71
KP +SY + AI SSP + LS+IY +I+ PYYR WQNS+RHNLS N F
Sbjct: 336 SKPAFSYANSITQAILSSPSGKMTLSEIYSWISSNLPYYRHKPTAWQNSIRHNLSLNKSF 395
Query: 72 VKIPRRPDRPGKGAYWALHPAALDMFENGSFLRRRK 107
K+PR +PGKG +W + + + E+ R K
Sbjct: 396 EKVPRSASQPGKGCFWKIDYSYIYEKESKRNPRSPK 431
Score = 69.1 bits (169), Expect = 2e-12
Identities = 53/189 (28%), Positives = 79/189 (41%), Gaps = 19/189 (10%)
Query: 13 KPPYSYISLTAMAIWSSPEKMLPLSDIYRFIADRFPYYRRNTQRWQNSLRHNLSFNDCFV 72
PPYSY + +AI +SP+K L LS IY +I + F YY + RWQNS+RHNLS ND F+
Sbjct: 86 VPPYSYATGRGLAILNSPDKPLTLSKIYTWIHNTFFYYAKVVSRWQNSIRHNLSLNDAFI 145
Query: 73 KIPRRPDRPGKGAYWALHPAALDMFENGSFLR----RRKRFKLPKVDQSLLEATYPVLKA 128
KI R KG +W++ P F ++ F LP + + TY
Sbjct: 146 KIEGRNGAKVKGHFWSIGPGHETQFLKSGLRLDGGGKQMMFTLPSSTEI--KITYSSTH- 202
Query: 129 ENYTSIKETKSEPLKPTTLSNANK---SFSIDSIISSQPSAALPQSMPQPIFSHFHPPVC 185
S+ +S + SN + S + P+ + H
Sbjct: 203 ----SMPLLESN---DSLNSNNERELLDIIKSSALIRIPADSSSNLDVS--LGHHISQPS 253
Query: 186 LPPPIINPS 194
P+++
Sbjct: 254 THTPVLDNH 262
>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 = 31.8 bits (73), Expect = 0.75
Identities = 12/44 (27%), Positives = 15/44 (34%), Gaps = 6/44 (13%)
Query: 9 YGDQKPPYSYISLTAMAIWSSPEKML----PLSDIYRFIADRFP 48
GD PY L +W P L P + R+ FP
Sbjct: 321 IGDV--PYRPNDLFDKLVWRYPAARLLLGSPAVQLLRWAQKAFP 362
>gnl|CDD|217147 pfam02618, YceG, YceG-like family. This family of proteins is
found in bacteria. Proteins in this family are typically
between 332 and 389 amino acids in length. This family
was previously incorrectly annotated and names as
aminodeoxychorismate lyase. The structure of Escherichia
coli yceG was solved by X-ray crystallography.
Length = 291
Score = 29.8 bits (68), Expect = 3.1
Identities = 12/18 (66%), Positives = 12/18 (66%), Gaps = 1/18 (5%)
Query: 186 LPP-PIINPSYAAIYAAA 202
LPP PI NP AAI AA
Sbjct: 240 LPPGPIANPGKAAIEAAL 257
Score = 29.8 bits (68), Expect = 3.1
Identities = 12/18 (66%), Positives = 12/18 (66%), Gaps = 1/18 (5%)
Query: 366 LPP-PIINPSYAAIYAAA 382
LPP PI NP AAI AA
Sbjct: 240 LPPGPIANPGKAAIEAAL 257
>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 = 29.5 bits (67), Expect = 4.2
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
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
0.318 0.133 0.399
Gapped
Lambda K H
0.267 0.0768 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 24,990,425
Number of extensions: 2416463
Number of successful extensions: 2266
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2257
Number of HSP's successfully gapped: 42
Length of query: 485
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 384
Effective length of database: 6,457,848
Effective search space: 2479813632
Effective search space used: 2479813632
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: 61 (27.2 bits)