RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9438
(274 letters)
>gnl|CDD|215700 pfam00080, Sod_Cu, Copper/zinc superoxide dismutase (SODC).
superoxide dismutases (SODs) catalyze the conversion of
superoxide radicals to hydrogen peroxide and molecular
oxygen. Three evolutionarily distinct families of SODs
are known, of which the copper/zinc-binding family is
one. Defects in the human SOD1 gene cause familial
amyotrophic lateral sclerosis (Lou Gehrig's disease).
Structure is an eight-stranded beta sandwich, similar to
the immunoglobulin fold.
Length = 140
Score = 162 bits (413), Expect = 1e-50
Identities = 66/139 (47%), Positives = 83/139 (59%), Gaps = 11/139 (7%)
Query: 133 SGNVTFIQHDDGTVTVKGFVTGLKKNTAGSQEHGFHIHEKGDLREGCASLGGHYNPQQKQ 192
G VTF Q G V V ++GL +HGFHIHE GD GC S GGH+NP K+
Sbjct: 13 VGTVTFTQVGGGGVLVTVDLSGLPPG-----KHGFHIHEFGDCSPGCTSAGGHFNPDGKK 67
Query: 193 HGAPDHEVRHIGDLGNIEASPSGVASFEFEDKIISLTGPYSILGRGLIVHSDKDDFGRGM 252
HG P+ E RH GDLGNI GVA E D ++L+G SI+GR L++H+ +DD
Sbjct: 68 HGGPNDEGRHAGDLGNIVVDADGVAKVEIVDDRVTLSGGDSIIGRSLVIHAGEDDL---- 123
Query: 253 FNDSTTTGHAGSRVACGVI 271
S TG+AG+R+ACGVI
Sbjct: 124 --KSQPTGNAGARLACGVI 140
Score = 71.5 bits (176), Expect = 1e-15
Identities = 32/77 (41%), Positives = 37/77 (48%), Gaps = 10/77 (12%)
Query: 48 AVAVLRPYASSPSVTSPSGNVTFIQHDDGTVTVKGFVTGLKKNTAGSQEHGFHIHEKGDL 107
AVAVL+ G VTF Q G V V ++GL +HGFHIHE GD
Sbjct: 1 AVAVLKGAGGKVV-----GTVTFTQVGGGGVLVTVDLSGLPPG-----KHGFHIHEFGDC 50
Query: 108 REGCASLGGHYNPQQGN 124
GC S GGH+NP
Sbjct: 51 SPGCTSAGGHFNPDGKK 67
>gnl|CDD|238186 cd00305, Cu-Zn_Superoxide_Dismutase, Copper/zinc superoxide
dismutase (SOD). superoxide dismutases catalyse the
conversion of superoxide radicals to molecular oxygen.
Three evolutionarily distinct families of SODs are
known, of which the copper/zinc-binding family is one.
Defects in the human SOD1 gene causes familial
amyotrophic lateral sclerosis (Lou Gehrig's disease).
Cytoplasmic and periplasmic SODs exist as dimers,
whereas chloroplastic and extracellular enzymes exist as
tetramers. Structure supports independent functional
evolution in prokaryotes (P-class) and eukaryotes
(E-class) [PMID:.8176730].
Length = 144
Score = 146 bits (371), Expect = 2e-44
Identities = 72/136 (52%), Positives = 86/136 (63%), Gaps = 6/136 (4%)
Query: 133 SGNVTFIQHDDGTVTVKGFVTGLKKNTAGSQEHGFHIHEKGDLREGCASLGGHYNPQQKQ 192
G VTF Q G VT+ G ++GL T G HGFHIHE GD GC S GGH+NP K+
Sbjct: 15 VGTVTFTQQSGG-VTITGELSGL---TPG--LHGFHIHEFGDCTNGCTSAGGHFNPFGKK 68
Query: 193 HGAPDHEVRHIGDLGNIEASPSGVASFEFEDKIISLTGPYSILGRGLIVHSDKDDFGRGM 252
HG P+ E RH GDLGNI A GVA+ D +ISL G SI+GR L+VH+ +DD G+G
Sbjct: 69 HGGPNDEGRHAGDLGNIVADKDGVATVSVLDPLISLKGGNSIIGRSLVVHAGQDDLGKGP 128
Query: 253 FNDSTTTGHAGSRVAC 268
S TG+AG RVAC
Sbjct: 129 DELSGGTGNAGVRVAC 144
Score = 65.4 bits (160), Expect = 2e-13
Identities = 35/75 (46%), Positives = 40/75 (53%), Gaps = 11/75 (14%)
Query: 48 AVAVLRPYASSPSVTSPSGNVTFIQHDDGTVTVKGFVTGLKKNTAGSQEHGFHIHEKGDL 107
AVAVL+ G VTF Q G VT+ G ++GL T G HGFHIHE GD
Sbjct: 3 AVAVLKGPDGKVV-----GTVTFTQQSGG-VTITGELSGL---TPG--LHGFHIHEFGDC 51
Query: 108 REGCASLGGHYNPQQ 122
GC S GGH+NP
Sbjct: 52 TNGCTSAGGHFNPFG 66
>gnl|CDD|166027 PLN02386, PLN02386, superoxide dismutase [Cu-Zn].
Length = 152
Score = 141 bits (356), Expect = 4e-42
Identities = 76/150 (50%), Positives = 93/150 (62%), Gaps = 8/150 (5%)
Query: 124 NSSPSVTSPSGNVTFIQHDDGTVTVKGFVTGLKKNTAGSQEHGFHIHEKGDLREGCASLG 183
NSS V G + F Q DG TV G ++GLK HGFH+H GD GC S G
Sbjct: 9 NSSEGVK---GTIFFTQEGDGPTTVTGSLSGLKPGL-----HGFHVHALGDTTNGCMSTG 60
Query: 184 GHYNPQQKQHGAPDHEVRHIGDLGNIEASPSGVASFEFEDKIISLTGPYSILGRGLIVHS 243
H+NP K+HGAP+ E RH GDLGN+ G A+F DK I LTGP SI+GR ++VH+
Sbjct: 61 PHFNPAGKEHGAPEDENRHAGDLGNVTVGDDGTATFTIVDKQIPLTGPNSIVGRAVVVHA 120
Query: 244 DKDDFGRGMFNDSTTTGHAGSRVACGVIGL 273
D DD G+G S +TG+AG RVACG+IGL
Sbjct: 121 DPDDLGKGGHELSKSTGNAGGRVACGIIGL 150
Score = 51.4 bits (123), Expect = 3e-08
Identities = 33/73 (45%), Positives = 38/73 (52%), Gaps = 11/73 (15%)
Query: 48 AVAVLRPYASSPSVTSPSGNVTFIQHDDGTVTVKGFVTGLKKNTAGSQEHGFHIHEKGDL 107
AVAVL SS V G + F Q DG TV G ++GLK HGFH+H GD
Sbjct: 4 AVAVL---NSSEGVK---GTIFFTQEGDGPTTVTGSLSGLKPGL-----HGFHVHALGDT 52
Query: 108 REGCASLGGHYNP 120
GC S G H+NP
Sbjct: 53 TNGCMSTGPHFNP 65
>gnl|CDD|178248 PLN02642, PLN02642, copper, zinc superoxide dismutase.
Length = 164
Score = 129 bits (324), Expect = 3e-37
Identities = 71/140 (50%), Positives = 87/140 (62%), Gaps = 5/140 (3%)
Query: 134 GNVTFIQHDDGTVTVKGFVTGLKKNTAGSQEHGFHIHEKGDLREGCASLGGHYNPQQKQH 193
G + F+Q GT V G ++GL HGFHIH GD GC S G H+NP + H
Sbjct: 22 GCLQFVQDIFGTTHVTGKISGLSPGF-----HGFHIHSFGDTTNGCISTGPHFNPLNRVH 76
Query: 194 GAPDHEVRHIGDLGNIEASPSGVASFEFEDKIISLTGPYSILGRGLIVHSDKDDFGRGMF 253
G P+ E RH GDLGNI A GVA +DK I L+G YSILGR ++VH+D DD G+G
Sbjct: 77 GPPNEEERHAGDLGNILAGSDGVAEILIKDKHIPLSGQYSILGRAVVVHADPDDLGKGGH 136
Query: 254 NDSTTTGHAGSRVACGVIGL 273
S +TG+AGSRV CG+IGL
Sbjct: 137 KLSKSTGNAGSRVGCGIIGL 156
Score = 43.5 bits (102), Expect = 2e-05
Identities = 24/55 (43%), Positives = 29/55 (52%), Gaps = 5/55 (9%)
Query: 66 GNVTFIQHDDGTVTVKGFVTGLKKNTAGSQEHGFHIHEKGDLREGCASLGGHYNP 120
G + F+Q GT V G ++GL HGFHIH GD GC S G H+NP
Sbjct: 22 GCLQFVQDIFGTTHVTGKISGLSPGF-----HGFHIHSFGDTTNGCISTGPHFNP 71
>gnl|CDD|224943 COG2032, SodC, Cu/Zn superoxide dismutase [Inorganic ion transport
and metabolism].
Length = 179
Score = 107 bits (268), Expect = 1e-28
Identities = 52/146 (35%), Positives = 69/146 (47%), Gaps = 17/146 (11%)
Query: 134 GNVTFIQHDDGTVTVKGFVTGLKKNTAGSQEHGFHIHEKGD------LREGCASLGGHYN 187
G VT + G + F L G EHGFHIHEKG S GGH++
Sbjct: 44 GTVTITETGYGLL----FTPALGGLPPG--EHGFHIHEKGSCTPKDGKPVDFLSAGGHFD 97
Query: 188 PQQ-KQHGAPDHEVRHIGDLGNIEASPSGVASFEFEDKIISLTGPYSILGRGLIVHSDKD 246
PQ K+HG P+ + H GDL N+ + G A+ + L G + GR L++H+ D
Sbjct: 98 PQNTKKHGGPNADGGHAGDLPNLFVNADGKATLPVLAPRLKLKGLLEVKGRALVIHAGGD 157
Query: 247 DFGRGMFNDSTTTGHAGSRVACGVIG 272
D+ G AG+RVACGVI
Sbjct: 158 DYS----TQPEPLGGAGARVACGVIK 179
Score = 45.1 bits (107), Expect = 7e-06
Identities = 33/120 (27%), Positives = 45/120 (37%), Gaps = 17/120 (14%)
Query: 66 GNVTFIQHDDGTVTVKGFVTGLKKNTAGSQEHGFHIHEKGD------LREGCASLGGHYN 119
G VT + G + F L G EHGFHIHEKG S GGH++
Sbjct: 44 GTVTITETGYGLL----FTPALGGLPPG--EHGFHIHEKGSCTPKDGKPVDFLSAGGHFD 97
Query: 120 PQQGNS---SPSVTSPSGNVTFIQHD-DGTVTVKGFVTGLKKNTAGS-QEHGFHIHEKGD 174
PQ + +G++ + + DG T+ LK + IH GD
Sbjct: 98 PQNTKKHGGPNADGGHAGDLPNLFVNADGKATLPVLAPRLKLKGLLEVKGRALVIHAGGD 157
>gnl|CDD|215516 PLN02957, PLN02957, copper, zinc superoxide dismutase.
Length = 238
Score = 52.4 bits (126), Expect = 5e-08
Identities = 43/145 (29%), Positives = 62/145 (42%), Gaps = 18/145 (12%)
Query: 112 ASLGGHYNPQQGNSSPSV-----TSPSGNVTFIQHDDGTVTVKGFVTGLKKNTAGSQEHG 166
A L G +P+ S +V G V F Q ++ +GL T HG
Sbjct: 67 ARLIGQGDPEDFLVSAAVAEFKGPDIFGVVRFAQVSMELARIEAAFSGLSPGT-----HG 121
Query: 167 FHIHEKGDLREGCASLGGHYNPQQKQHGAPDHEVRHIGDLGNIEASPSGVASFEFEDKII 226
+ I+E GDL G AS G YNP +GDLG +EA +G A+F + +
Sbjct: 122 WSINEYGDLTRGAASTGKVYNPSDDDTDE-----EPLGDLGTLEADENGEATFSGTKEKL 176
Query: 227 SLTGPYSILGRGLIVHSDKDDFGRG 251
+ ++GR L V++ D G G
Sbjct: 177 KVW---DLIGRSLAVYATADKSGPG 198
Score = 41.3 bits (97), Expect = 2e-04
Identities = 29/92 (31%), Positives = 40/92 (43%), Gaps = 9/92 (9%)
Query: 66 GNVTFIQHDDGTVTVKGFVTGLKKNTAGSQEHGFHIHEKGDLREGCASLGGHYNPQQGNS 125
G V F Q ++ +GL T HG+ I+E GDL G AS G YNP ++
Sbjct: 94 GVVRFAQVSMELARIEAAFSGLSPGT-----HGWSINEYGDLTRGAASTGKVYNPSDDDT 148
Query: 126 SPSVTSPSGNV-TFIQHDDGTVTVKGFVTGLK 156
P G++ T ++G T G LK
Sbjct: 149 D---EEPLGDLGTLEADENGEATFSGTKEKLK 177
>gnl|CDD|182357 PRK10290, PRK10290, superoxide dismutase; Provisional.
Length = 173
Score = 51.4 bits (123), Expect = 5e-08
Identities = 41/119 (34%), Positives = 57/119 (47%), Gaps = 20/119 (16%)
Query: 164 EHGFHIHEKGD----LREGCAS----LGGHYNPQQK-QHGAPDHEVRHIGDLGNIEASPS 214
EHGFHIH KG ++G AS GGH +PQ +H P+ H+GDL + +
Sbjct: 63 EHGFHIHAKGSCQPATKDGKASAAEAAGGHLDPQNTGKHEGPEGA-GHLGDLPALVVNND 121
Query: 215 GVASFEFEDKIIS--LTGPYSILGRGLIVHSDKDDFGRGMFNDSTTTGHAGSRVACGVI 271
G A+ D +I+ L + + L+VH D+ M + G G R ACGVI
Sbjct: 122 GKAT----DPVIAPRLKSLDEVKDKALMVHVGGDN----MSDQPKPLGGGGERYACGVI 172
Score = 34.8 bits (80), Expect = 0.020
Identities = 17/35 (48%), Positives = 20/35 (57%), Gaps = 8/35 (22%)
Query: 96 EHGFHIHEKGD----LREGCAS----LGGHYNPQQ 122
EHGFHIH KG ++G AS GGH +PQ
Sbjct: 63 EHGFHIHAKGSCQPATKDGKASAAEAAGGHLDPQN 97
>gnl|CDD|185286 PRK15388, PRK15388, Cu/Zn superoxide dismutase; Provisional.
Length = 177
Score = 42.4 bits (99), Expect = 7e-05
Identities = 32/117 (27%), Positives = 56/117 (47%), Gaps = 17/117 (14%)
Query: 165 HGFHIHEKG----DLREG----CASLGGHYNP-QQKQHGAPDHEVRHIGDLGNIEASPSG 215
HGFH+H +++G GGH +P + +H P ++ H+GDL + + G
Sbjct: 66 HGFHVHTNPSCMPGMKDGKEVPALMAGGHLDPEKTGKHLGPYNDKGHLGDLPGLVVNADG 125
Query: 216 VASFE-FEDKIISLTGPYSILGRGLIVHSDKDDFGRGMFNDSTTTGHAGSRVACGVI 271
A++ ++ SL+ + G L++H D++ + G G+R ACGVI
Sbjct: 126 TATYPLLAPRLKSLS---ELKGHSLMIHKGGDNYS----DKPAPLGGGGARFACGVI 175
>gnl|CDD|215307 PLN02567, PLN02567, alpha,alpha-trehalase.
Length = 554
Score = 33.1 bits (76), Expect = 0.14
Identities = 15/38 (39%), Positives = 19/38 (50%), Gaps = 2/38 (5%)
Query: 87 LKKNTAGSQEHGFHIHEKGDLRE-GCASLGGHYNPQQG 123
L+ N ++ G +HEK D R G GG Y PQ G
Sbjct: 493 LRSNYVAYKKTG-AMHEKYDARYCGEVGGGGEYIPQTG 529
>gnl|CDD|235671 PRK06010, fliQ, flagellar biosynthesis protein FliQ; Reviewed.
Length = 88
Score = 29.2 bits (66), Expect = 0.67
Identities = 17/58 (29%), Positives = 24/58 (41%), Gaps = 16/58 (27%)
Query: 10 GVVVLEIERSIMWTTL---APVFFSFLVV-------QVLSE------DFAGKIVAVAV 51
L+I R +WT L P + +VV Q L++ F KIVA+ V
Sbjct: 3 EADALDIVRDAIWTVLVASGPAVLAAMVVGVAIALFQALTQIQEMTLTFVPKIVAIFV 60
>gnl|CDD|220232 pfam09421, FRQ, Frequency clock protein. The frequency clock
protein, is the central component of the frq-based
circadian negative feedback loop, regulates various
aspects of the circadian clock in Neurospora crassa.
This protein has been shown to interact with itself via
a coiled-coil.
Length = 989
Score = 31.1 bits (70), Expect = 0.75
Identities = 32/129 (24%), Positives = 44/129 (34%), Gaps = 9/129 (6%)
Query: 33 LVVQVLSEDFAGKIVAVAVLR-PYASSPSVTSPSGNVTFIQHDDGTVTVKGFVTGLKKNT 91
LVV+ L + F GKI V R +PSV + V Q +G +
Sbjct: 298 LVVRRLEQIFTGKISGRNVRRTQSTLTPSVDAALPPVQAQQQ-------EGTQMAPPQPP 350
Query: 92 AGSQEHGFHIHEKGDLREGCASLGGHYNPQQGNSSPSVTSPSGNVTFIQHDDGTVTVKGF 151
+ + F + LRE NP + S S S + GT T G
Sbjct: 351 SNFITNPFSSVPEP-LREARILPQEGQNPHKKRRSKDNGSASNSNGDQTESGGTGTSSGD 409
Query: 152 VTGLKKNTA 160
G NT+
Sbjct: 410 GNGSGNNTS 418
>gnl|CDD|226742 COG4292, COG4292, Predicted membrane protein [Function unknown].
Length = 387
Score = 29.7 bits (67), Expect = 1.8
Identities = 14/38 (36%), Positives = 17/38 (44%), Gaps = 5/38 (13%)
Query: 6 IIYLGVVVLEIERSIM-----WTTLAPVFFSFLVVQVL 38
II LG +L I S T+ FFSFL+ L
Sbjct: 208 IIALGESILTIGSSSFSITLSLYTILVYFFSFLITVSL 245
>gnl|CDD|234717 PRK00293, dipZ, thiol:disulfide interchange protein precursor;
Provisional.
Length = 571
Score = 28.6 bits (65), Expect = 4.0
Identities = 13/89 (14%), Positives = 29/89 (32%), Gaps = 22/89 (24%)
Query: 5 FIIYLGVVVLEIER-------SIMWTTLAPVFFSFLVVQVLSEDFAGKIVAVAVL----- 52
F++ L + V +ER +W+ L FF + +Q L + +L
Sbjct: 369 FVL-LALPVFLLERVLPGVWGLRLWSLLGVAFFGWAFIQSLKAKRGWMRLLGQILLLAAL 427
Query: 53 ---------RPYASSPSVTSPSGNVTFIQ 72
+ + + ++ F +
Sbjct: 428 LASVRPLQDWAFGGAAAGAQTQAHLNFQR 456
>gnl|CDD|224794 COG1882, PflD, Pyruvate-formate lyase [Energy production and
conversion].
Length = 755
Score = 28.5 bits (64), Expect = 4.5
Identities = 8/28 (28%), Positives = 14/28 (50%)
Query: 111 CASLGGHYNPQQGNSSPSVTSPSGNVTF 138
L H+N + G +P V + + NV +
Sbjct: 586 MDKLRKHHNYRGGEPTPGVLTITSNVVY 613
>gnl|CDD|116017 pfam07395, Mig-14, Mig-14. This family contains a number of
bacterial mig-14 proteins (approximately 270 residues
long). In Salmonella, mig-14 contributes to resistance
to antimicrobial peptides, although the mechanism is not
fully understood.
Length = 264
Score = 27.9 bits (62), Expect = 5.1
Identities = 11/47 (23%), Positives = 19/47 (40%), Gaps = 8/47 (17%)
Query: 167 FHIHEKGDLREGCASLGGHY---NPQQKQHGAPDHEVRHIGDLGNIE 210
H + G+++ + G H K+ G + + DLGN E
Sbjct: 19 LHWEQAGEIKAAIPTWGRHLALSKDVLKRIGK-----KRLFDLGNAE 60
>gnl|CDD|227624 COG5308, NUP170, Nuclear pore complex subunit [Intracellular
trafficking and secretion].
Length = 1263
Score = 28.4 bits (63), Expect = 6.0
Identities = 22/112 (19%), Positives = 39/112 (34%), Gaps = 15/112 (13%)
Query: 40 EDFAGKIVAVAVLRPYASS--PSV-------TSPSGNVTFIQHDDGTVTVKGFVTGLKKN 90
+DF+ I+ V ++RP A++ + T + + D T + F TGL +
Sbjct: 119 DDFSHTILKVKLVRPKANTFVSRISHLLFVATEKEVMILGVSKDTKTGELSLFNTGLVVS 178
Query: 91 TAGSQEHGFHIHEKGDLREGCASLGG----HYNPQQG--NSSPSVTSPSGNV 136
G E G + G + Y NS S + ++
Sbjct: 179 VQGINVRCIVSEEDGRIFFGGENDPNVYELVYKSSDSWFNSKCSKICLTKSI 230
>gnl|CDD|227502 COG5175, MOT2, Transcriptional repressor [Transcription].
Length = 480
Score = 28.1 bits (62), Expect = 6.3
Identities = 9/45 (20%), Positives = 17/45 (37%)
Query: 35 VQVLSEDFAGKIVAVAVLRPYASSPSVTSPSGNVTFIQHDDGTVT 79
++L A ++S S+ P+ N + H + T T
Sbjct: 298 DKILFPPLDFTNTQSATPVTLSNSSSINLPTLNDSLGHHTETTTT 342
>gnl|CDD|222862 PHA02539, 18, tail sheath protein; Provisional.
Length = 648
Score = 27.3 bits (61), Expect = 9.1
Identities = 18/92 (19%), Positives = 30/92 (32%), Gaps = 17/92 (18%)
Query: 66 GNVTFIQHDDGTVTVKGFVTGLKKNT------AGSQEHGFHIHEKGDLREGCASLGGHYN 119
G+ ++++ V G VT + + S + G +LG
Sbjct: 113 GDKITVKYNTAVVEEAGKVTKVDTDGKIVAVFIPSAKIIAKAKSVGVY----PTLGS--- 165
Query: 120 PQQGNSSPSVTSPSGNVTFIQHDDGTVTVKGF 151
N + ++S SG V G VT G
Sbjct: 166 ----NWTTEISSASGGVAATLTLGGIVTDSGI 193
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 0.137 0.408
Gapped
Lambda K H
0.267 0.0723 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,147,360
Number of extensions: 1356205
Number of successful extensions: 1070
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1053
Number of HSP's successfully gapped: 32
Length of query: 274
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 179
Effective length of database: 6,723,972
Effective search space: 1203590988
Effective search space used: 1203590988
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 (21.6 bits)
S2: 58 (26.1 bits)