RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11420
(315 letters)
>gnl|CDD|217559 pfam03441, FAD_binding_7, FAD binding domain of DNA photolyase.
Length = 276
Score = 227 bits (582), Expect = 8e-74
Identities = 82/219 (37%), Positives = 112/219 (51%), Gaps = 12/219 (5%)
Query: 61 GGETEALKRLEKSLANKEWVRKFEKPNTAPNSLEPSTTVLSPYLKFGCLSVRLFYHELKK 120
GGE ALKRLE L KE + + K P T+ LSPYL FG +S R Y ++K
Sbjct: 1 GGEKAALKRLESFL--KERLADYAKDRDDPA--ADGTSRLSPYLHFGEISPRQVYQAVRK 56
Query: 121 ILATGP---HAKPPVSLLGQIYWREFYYVVGSDTPNFDKMKGNKICCQVDWDTNEKY--- 174
P + + L ++ WREFY + P+ ++ N + W +
Sbjct: 57 AQGDSPEGGAKQGAEAFLSELIWREFYIQLLYHNPDLERENLNDAYDGLPWAKDRPDEYL 116
Query: 175 LEAWSHGKTGYPFIDAIMRQLRLEGWIHHLARHAVACFLTRGDLYLSWEEGQSVFEELLL 234
LEAW G+TGYP +DA MRQLR GW+H+ R VA FLT+ L + W EG+ F E L+
Sbjct: 117 LEAWEEGRTGYPLVDAAMRQLRQTGWMHNRLRMIVASFLTK-KLLIDWREGEEYFAETLI 175
Query: 235 DADWAMNAGNWMWLSAS-AFFHQFFRVYSPVAFGKKTDK 272
DAD A N G W W + + +FR+++PV K D
Sbjct: 176 DADPASNNGGWQWQAGTGTDAAPYFRIFNPVKQSDKFDP 214
>gnl|CDD|223492 COG0415, PhrB, Deoxyribodipyrimidine photolyase [DNA replication,
recombination, and repair].
Length = 461
Score = 154 bits (391), Expect = 2e-43
Identities = 88/268 (32%), Positives = 122/268 (45%), Gaps = 33/268 (12%)
Query: 14 PKPKPADDAPTSLPRECQGILHPDEHLVPTMKEMGLDESSIPLCKFPGGETEALKRLEKS 73
+P PA D +L E P+E +P D S + F GGE AL RL+
Sbjct: 161 LRPVPAPDVLDALRDE---EPPPEEISLP-------DFSKFDVLLFTGGEKAALARLQDF 210
Query: 74 LANKEWVRKFEKPNTAPNSL-EPSTTVLSPYLKFGCLSVRLFYHELKKILATGPHAKPPV 132
LA + + T+ LSPYL FG +S R Y L +
Sbjct: 211 LA-----EGLDDYERTRDFPALDGTSRLSPYLAFGVISPREVYAALLAAESDAREGTAA- 264
Query: 133 SLLGQIYWREFYYVV------GSDTPNFDKMKGNKICCQVDWDTNEKYLEAWSHGKTGYP 186
L+ ++ WREFY + S F + N + W+ N + +AW GKTGYP
Sbjct: 265 -LINELIWREFYQHLLYHYPSLSRFEPFAEKTLN-----IPWEDNPAHFQAWQEGKTGYP 318
Query: 187 FIDAIMRQLRLEGWIHHLARHAVACFLTRGDLYLSWEEGQSVFEELLLDADWAMNAGNWM 246
+DA MRQL G++H+ R VA FLT+ DL + W EG+ F L+D D A N G W
Sbjct: 319 IVDAAMRQLNQTGYMHNRMRMIVASFLTK-DLLIDWREGEKYFMRQLIDGDPASNNGGWQ 377
Query: 247 WLSASAFF--HQFFRVYSPVAFGKKTDK 272
W +AS +FR+++PV +K D
Sbjct: 378 W-AASTGTDAAPYFRIFNPVTQAEKFDP 404
>gnl|CDD|132595 TIGR03556, photolyase_8HDF, deoxyribodipyrimidine photo-lyase,
8-HDF type. This model describes a narrow clade of
cyanobacterial deoxyribodipyrimidine photo-lyase. This
group, in contrast to several closely related proteins,
uses a chromophore that, in other lineages is modified
further to become coenzyme F420. This chromophore is
called 8-HDF in most articles on the DNA photolyase and
FO in most literature on coenzyme F420 [DNA metabolism,
DNA replication, recombination, and repair].
Length = 471
Score = 126 bits (318), Expect = 5e-33
Identities = 85/273 (31%), Positives = 128/273 (46%), Gaps = 25/273 (9%)
Query: 11 ESLPKPKPADDAPTSLPRECQGILHPDEHL---------VPTMKEMGLDESSIPLCKFPG 61
SLPKP P + P E +G L E +PT K++G D L PG
Sbjct: 155 SSLPKPTP-----VATPTELEG-LTEAELEAAAPLGVIALPTAKDLGFDWDG-DLILEPG 207
Query: 62 GETEALKRLEKSLANKEWVRKFEKPNTAPNSLEPSTTVLSPYLKFGCLSVRLFYHELKKI 121
ET A RLE+ + +++ P T+ LSP LKFG + +R + ++
Sbjct: 208 -ETAAQARLEEFCDRA--IADYQEQRNFPA--LDGTSQLSPALKFGVIGIRTVWQATQEA 262
Query: 122 LATGPHAKPPVSL---LGQIYWREFYYVVGSDTPNFDKMKGNKICCQVDWDTNEKYLEAW 178
+ S+ ++ WREFY P + W+ NE + +AW
Sbjct: 263 HENSRSEEARNSIRTWQQELAWREFYQHALYHFPELADGPYRSLFQNFPWENNEAHFQAW 322
Query: 179 SHGKTGYPFIDAIMRQLRLEGWIHHLARHAVACFLTRGDLYLSWEEGQSVFEELLLDADW 238
G+TGYP +DA MRQL GW+H+ R VA FLT+ DL ++W+ G+ F + L+D D
Sbjct: 323 CEGRTGYPIVDAAMRQLNETGWMHNRCRMIVASFLTK-DLIINWQWGEKYFMQKLIDGDL 381
Query: 239 AMNAGNWMWLSASAFFHQFFRVYSPVAFGKKTD 271
A N G W W ++S + R+++P + +K D
Sbjct: 382 AANNGGWQWSASSGMDPKPLRIFNPASQAQKFD 414
>gnl|CDD|234002 TIGR02765, crypto_DASH, cryptochrome, DASH family. Photolyases and
cryptochromes are related flavoproteins. Photolyases
harness the energy of blue light to repair DNA damage by
removing pyrimidine dimers. Cryptochromes do not repair
DNA and are presumed to act instead in some other
(possibly unknown) process such as entraining circadian
rhythms. This model describes the cryptochrome DASH
subfamily, one of at least five major subfamilies, which
is found in plants, animals, marine bacteria, etc.
Members of this family bind both folate and FAD. They
may show weak photolyase activity in vitro but have not
been shown to affect DNA repair in vivo. Rather, DASH
family cryptochromes have been shown to bind RNA (Vibrio
cholerae VC1814), or DNA, and seem likely to act in
light-responsive regulatory processes [Cellular
processes, Adaptations to atypical conditions,
Regulatory functions, DNA interactions].
Length = 429
Score = 123 bits (311), Expect = 3e-32
Identities = 77/253 (30%), Positives = 115/253 (45%), Gaps = 20/253 (7%)
Query: 2 TYQKLVSVLESLPKPKPADDAPTSLPRECQGILHPDEHLVPTMKEMGLDESSIPLC-KFP 60
++K V S+ P PA P LP +PT++++G + S + F
Sbjct: 155 QFRKQVEAKCSIRPPLPA---PEKLPPLPSVDDPGW---IPTLEDLGEESSEVDRGLPFV 208
Query: 61 GGETEALKRLEKSLANKEWVRKFEKPNTAPNSLEPS-TTVLSPYLKFGCLSVRLFYHELK 119
GGET L RL++ +K+ E N L P +T SP+L GC+S R Y EL+
Sbjct: 209 GGETAGLARLKEYFWSKDLKSYKETRN---GMLGPDYSTKFSPWLALGCVSPRQIYEELQ 265
Query: 120 KILATGPHAKPPVSLLGQIYWREFYYVV----GSDTPNFDKMKGNKICCQVDWDTNEKYL 175
+ ++ ++ WR+++ G+ F ++G W + K
Sbjct: 266 RYETERGANDSTYWVIFELLWRDYFRFYALKYGNRLFRFGGLRGK----HPKWSFDAKRF 321
Query: 176 EAWSHGKTGYPFIDAIMRQLRLEGWIHHLARHAVACFLTRGDLYLSWEEGQSVFEELLLD 235
E W G TGYP +DA MR+L G++ + R VA FL + DL L W G FE L+D
Sbjct: 322 EQWKTGTTGYPLVDANMRELNATGFMSNRGRQNVASFLVK-DLGLDWRYGAEWFETQLVD 380
Query: 236 ADWAMNAGNWMWL 248
D N GNW +L
Sbjct: 381 YDVCSNWGNWQYL 393
>gnl|CDD|236734 PRK10674, PRK10674, deoxyribodipyrimidine photolyase; Provisional.
Length = 472
Score = 118 bits (297), Expect = 5e-30
Identities = 79/232 (34%), Positives = 111/232 (47%), Gaps = 39/232 (16%)
Query: 59 FPGGETEALKRLEKSLANKEWVRKFEKPNTAPNSLEPSTTVLSPYLKFGCLSVRLFYHEL 118
FP GE A+ +L + ++ ++E+ P T+ LS YL G LS R H L
Sbjct: 201 FPVGEKAAIAQLRQFC--QQGAGEYEQQRDFPAV--DGTSRLSAYLATGVLSPRQCLHRL 256
Query: 119 KKILATGPHA--KPPVSL-LGQIYWREFYYVVGSDTPNFDKMKGNKICCQ---------- 165
LA P A S+ L ++ WREFY + M C+
Sbjct: 257 ---LAEQPQALDGGAGSVWLNELIWREFYRHL---------MVAYPSLCKHRPFIAWTDR 304
Query: 166 VDWDTNEKYLEAWSHGKTGYPFIDAIMRQLRLEGWIHHLARHAVACFLTRGDLYLSWEEG 225
V W +N +L+AW GKTGYP +DA MRQL GW+H+ R A FL + DL + W EG
Sbjct: 305 VQWQSNPAHLQAWQQGKTGYPIVDAAMRQLNSTGWMHNRLRMITASFLVK-DLLIDWREG 363
Query: 226 QSVFEELLLDADWAMNAGNWMWLSAS-----AFFHQFFRVYSPVAFGKKTDK 272
+ F L+D D A N G W W +AS A +FR+++P G++ D+
Sbjct: 364 ERYFMSQLIDGDLAANNGGWQW-AASTGTDAA---PYFRIFNPTTQGERFDR 411
>gnl|CDD|131813 TIGR02766, crypt_chrom_pln, cryptochrome, plant family. At least
five major families of cryptochomes and photolyases
share FAD cofactor binding, sequence homology, and the
ability to react to short wavelengths of visible light.
Photolysases are responsible for light-dependent DNA
repair by removal of two types of uv-induced DNA
dimerizations. Cryptochromes have other functions, often
regulatory and often largely unknown, which may include
circadian clock entrainment and control of development.
Members of this subfamily are known so far only in
plants; they may show some photolyase activity in vitro
but appear mostly to be regulatory proteins that respond
to blue light.
Length = 475
Score = 81.8 bits (202), Expect = 3e-17
Identities = 61/183 (33%), Positives = 89/183 (48%), Gaps = 8/183 (4%)
Query: 96 STTVLSPYLKFGCLSVRLFYH--ELKKILAT---GPHAKPPVSL-LGQIYWREFYYVVGS 149
+T++LSPYL FG +SVR +H +K+I + V+L L I RE+ +
Sbjct: 232 TTSLLSPYLHFGEVSVRKVFHLVRMKQIAWANEGNSAGEESVNLFLRSIGLREYSRYISF 291
Query: 150 DTPNFDKMKGNKICCQVDWDTNEKYLEAWSHGKTGYPFIDAIMRQLRLEGWIHHLARHAV 209
+ P + W +E Y +AW G+TGYP +DA MR+L GW+H R V
Sbjct: 292 NHPFSHEKPLLGHLKFFPWAVDENYFKAWRQGRTGYPLVDAGMRELWATGWLHDRIRVVV 351
Query: 210 ACFLTRGDLYLSWEEGQSVFEELLLDADWAMNAGNWMWLSAS-AFFHQFFRVYSPVAFGK 268
+ F + L L W G F + LLDAD +A W ++S S + R+ +P G
Sbjct: 352 SSFFVKV-LQLPWRWGMKYFWDTLLDADLESDALGWQYISGSLPDGRELDRIDNPQLEGY 410
Query: 269 KTD 271
K D
Sbjct: 411 KFD 413
>gnl|CDD|204569 pfam10982, DUF2789, Protein of unknown function (DUF2789). This
bacterial family of proteins has no known function.
Length = 74
Score = 28.7 bits (65), Expect = 0.80
Identities = 10/21 (47%), Positives = 11/21 (52%), Gaps = 2/21 (9%)
Query: 222 WEEGQSVF--EELLLDADWAM 240
W Q+ F E L DADWA
Sbjct: 45 WTPAQAAFLKEALEEDADWAE 65
>gnl|CDD|225722 COG3181, COG3181, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 319
Score = 30.4 bits (69), Expect = 1.1
Identities = 19/62 (30%), Positives = 28/62 (45%), Gaps = 7/62 (11%)
Query: 41 VPTMKEMGLD-ESSIPLCKFPGGETEALKR------LEKSLANKEWVRKFEKPNTAPNSL 93
VPT+KE G D SI F T L+K+LA+ EW ++ ++ P+ L
Sbjct: 233 VPTLKEQGYDVVMSIWRGVFAPAGTPDEIIAKLSAALKKALASPEWQKRLKELGLVPSYL 292
Query: 94 EP 95
Sbjct: 293 TG 294
>gnl|CDD|227664 COG5371, COG5371, Golgi nucleoside diphosphatase [Carbohydrate
transport and metabolism / Posttranslational
modification, protein turnover, chaperones].
Length = 549
Score = 28.7 bits (64), Expect = 4.8
Identities = 12/95 (12%), Positives = 23/95 (24%), Gaps = 10/95 (10%)
Query: 10 LESLPKPKPADDAPTSLPRECQGILHPDEHLVPT-MKEMGLDESSIPLCKFPGGETEALK 68
+ + D P SL CQ + D + + I
Sbjct: 99 ATAAMRLLSQDSQPCSLIHLCQYVKMIDAGSTGSRSNIYQFIDGEIE----GQYLWLNTN 154
Query: 69 RLEKSLANKEWVRKFEKPNTAPNSLEPSTTVLSPY 103
LE L++ + +S + +
Sbjct: 155 YLEPGLSDFD-----TDTVGFADSGGALLQIAFEF 184
>gnl|CDD|99852 cd06149, ISG20, DEDDh 3'-5' exonuclease domain of Interferon
Stimulated Gene product of 20 kDa, and similar proteins.
Interferon (IFN) Stimulated Gene product of 20 kDa
(ISG20) is an IFN-induced antiviral exonuclease with a
strong preference for single-stranded RNA and minor
activity towards single-stranded DNA. It was also
independently identified by its response to estrogen and
was called HEM45 (human estrogen regulated transcript).
ISG20 is a DEDDh-type DnaQ-like 3'-5' exonuclease
containing three conserved sequence motifs termed ExoI,
ExoII and ExoIII with a specific Hx(4)D conserved
pattern at ExoIII. These motifs are clustered around the
active site and contain four conserved acidic residues
that serve as ligands for the two metal ions required
for catalysis. ISG20 may be a major effector of innate
immunity against pathogens including viruses, bacteria,
and parasites. It is located in promyelocytic leukemia
(PML) nuclear bodies, sites for oncogenic DNA viral
transcription and replication. It may carry out its
function by degrading viral RNAs as part of the
IFN-regulated antiviral response.
Length = 157
Score = 27.8 bits (62), Expect = 5.0
Identities = 14/37 (37%), Positives = 18/37 (48%), Gaps = 4/37 (10%)
Query: 45 KEMGLDESSIPL----CKFPGGETEALKRLEKSLANK 77
K M D S+IPL FP +LK L K L ++
Sbjct: 98 KHMTRDTSTIPLLNRKAGFPENCRVSLKVLAKRLLHR 134
>gnl|CDD|224025 COG1100, COG1100, GTPase SAR1 and related small G proteins [General
function prediction only].
Length = 219
Score = 28.0 bits (62), Expect = 5.3
Identities = 32/168 (19%), Positives = 47/168 (27%), Gaps = 32/168 (19%)
Query: 114 FYHELKKILATGPHA--KPPVSLLGQIYWREF----YYVVGSDTPNFDKMKGNKICCQVD 167
+ + KI+ G K +LL ++ EF +G+ P +
Sbjct: 1 LFMKEFKIVVLGDGGVGK--TTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQL 58
Query: 168 WDT--NEKYLEAWSH---GKTGYPFIDAIMRQLRL----EGWIHHLARHA---VACFLTR 215
WDT E+Y G G + + E W+ L A V L
Sbjct: 59 WDTAGQEEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVG 118
Query: 216 G--DLYLSWEEG---------QSVFEELLLDADWAMNAGNWMWLSASA 252
DL+ + V L A N L SA
Sbjct: 119 NKIDLFDEQSSSEEILNQLNREVVLLVLAPKAV-LPEVANPALLETSA 165
>gnl|CDD|234458 TIGR04076, TIGR04076, TIGR04076 family protein. Members of this
protein family are uncharacterized. The only invariant
residue, and one of three other residues better than 90
percent conserved are both Cys. Phylogenetic profiling
results and occasional fusion genes suggest a role for
members of this family in redox reactions or iron
cluster metabolism. Species occasionally have two or
three copies.
Length = 89
Score = 26.5 bits (59), Expect = 5.6
Identities = 7/37 (18%), Positives = 13/37 (35%), Gaps = 3/37 (8%)
Query: 175 LEAWSHGKTGYPFIDAIMRQLRLEGWIHHLARHAVAC 211
L A + P++ A+ R W++ C
Sbjct: 40 LYALA---AILPYVPALQRGGSPNDWMNDDGVAIFCC 73
>gnl|CDD|216232 pfam00996, GDI, GDP dissociation inhibitor.
Length = 439
Score = 28.5 bits (64), Expect = 5.7
Identities = 20/60 (33%), Positives = 27/60 (45%), Gaps = 11/60 (18%)
Query: 58 KFPGGETEALKR-----LEKSLANK--EWVRKFE--KPNTAPNSLEP-STTVLSPYLKFG 107
K P E EAL EK K +V+ ++ P T + L+P T+L Y KFG
Sbjct: 118 KVPANEMEALSSPLMGIFEKRRFRKFLTYVQDYDEDDPKTH-DGLDPRKRTMLEVYKKFG 176
>gnl|CDD|234330 TIGR03723, T6A_YgjD, tRNA threonylcarbamoyl adenosine modification
protein YgjD. This model represents bacterial members
of a protein family that is widely distributed. In a few
pathogenic species, the protein is exported in a way
that may represent an exceptional secondary function.
This model plus companion (archaeal) model TIGR03722
together span the prokaryotic member sequences of
TIGR00329, a protein family that appears universal in
life, and whose broad function is unknown. A member of
TIGR03722 has been characterized as a DNA-binding
protein with apurinic endopeptidase activity. In
contrast, the rare characterized members of the present
family show O-sialoglycoprotein endopeptidase (EC.
3.4.24.57) activity after export. These include
glycoprotease (gcp) from Pasteurella haemolytica A1 and
a cohemolysin from Riemerella anatipestifer
(GB|AAG39646.1). The member from Staphylococcus aureus
is essential and is related to cell wall dynamics and
the modulation of autolysis, but members are also found
in the Mycoplasmas (which lack a cell wall). A
reasonable hypothesis is that virulence-related
activities after export are secondary to a bacterial
domain-wide unknown function [Protein synthesis, tRNA
and rRNA base modification].
Length = 314
Score = 28.2 bits (64), Expect = 5.9
Identities = 11/42 (26%), Positives = 15/42 (35%), Gaps = 14/42 (33%)
Query: 177 AWSHGKTGYPFIDAIMRQLRLEGWIHHLARHAVACFLTRGDL 218
A + K P I ++HL H +A FL L
Sbjct: 97 ALALNK---PLIG-----------VNHLEGHLLAPFLEDKPL 124
>gnl|CDD|132772 cd06862, PX_SNX9_18_like, The phosphoinositide binding Phox
Homology domain of Sorting Nexins 9 and 18. The PX
domain is a phosphoinositide (PI) binding module present
in many proteins with diverse functions. Sorting nexins
(SNXs) make up the largest group among PX domain
containing proteins. They are involved in regulating
membrane traffic and protein sorting in the endosomal
system. The PX domain of SNXs binds PIs and targets the
protein to PI-enriched membranes. SNXs differ from each
other in PI-binding specificity and affinity, and the
presence of other protein-protein interaction domains,
which help determine subcellular localization and
specific function in the endocytic pathway. This
subfamily consists of SNX9, SNX18, and similar proteins.
They contain an N-terminal Src Homology 3 (SH3) domain,
a PX domain, and a C-terminal Bin/Amphiphysin/Rvs (BAR)
domain. SNX9 is localized to plasma membrane endocytic
sites and acts primarily in clathrin-mediated
endocytosis, while SNX18 is localized to peripheral
endosomal structures, and acts in a trafficking pathway
that is clathrin-independent but relies on AP-1 and
PACS1.
Length = 125
Score = 27.3 bits (61), Expect = 6.3
Identities = 12/23 (52%), Positives = 16/23 (69%), Gaps = 2/23 (8%)
Query: 187 FIDAIMRQLRLEGWIHHLARHAV 209
FI+ R+ RLE W++ LARH V
Sbjct: 73 FIE--KRRERLELWMNRLARHPV 93
>gnl|CDD|99859 cd06106, ScCit3_like, Saccharomyces cerevisiae (Sc) 2-methylcitrate
synthase Cit3-like. 2-methylcitrate synthase (2MCS)
catalyzes the condensation of propionyl-coenzyme A
(PrCoA) and oxaloacetate (OAA) to form 2-methylcitrate
and CoA. Citrate synthase (CS) catalyzes the
condensation of acetyl coenzyme A (AcCoA) with OAA to
form citrate and CoA, the first step in the citric acid
cycle (TCA or Krebs cycle). The overall CS reaction is
thought to proceed through three partial reactions and
involves both closed and open conformational forms of
the enzyme: a) the carbanion or equivalent is generated
from AcCoA by base abstraction of a proton, b) the
nucleophilic attack of this carbanion on OAA to generate
citryl-CoA, and c) the hydrolysis of citryl-CoA to
produce citrate and CoA. There are two types of CSs:
type I CS and type II CSs. Type I CSs are found in
eukarya, gram-positive bacteria, archaea, and in some
gram-negative bacteria and are homodimers with both
subunits participating in the active site. Type II CSs
are unique to gram-negative bacteria and are
homohexamers of identical subunits (approximated as a
trimer of dimers). ScCit3 is mitochondrial and functions
in the metabolism of PrCoA; it is a dual specificity CS
and 2MCS, having similar catalytic efficiency with both
AcCoA and PrCoA. The pattern of expression of the ScCIT3
gene follows that of the major mitochondrial CS gene
(CIT1, not included in this group) and its expression is
increased in the presence of a CIT1 deletion. This group
also contains Aspergillus nidulans 2MCS; a deletion of
the gene encoding this protein results in a strain
unable to grow on propionate. This group contains
proteins which functions exclusively as either a CS or a
2MCS, as well as those with relaxed specificity which
have dual functions as both a CS and a 2MCS.
Length = 428
Score = 27.9 bits (62), Expect = 8.3
Identities = 10/46 (21%), Positives = 21/46 (45%), Gaps = 1/46 (2%)
Query: 259 RVYSPVAFGKKTDKFELLLDADWAMNAGNWMWLSASAFFHQFFRVY 304
R+Y V +G+ ++ + DW+ N + + + F R+Y
Sbjct: 183 RIYRNV-YGEGHGLGKIDPEVDWSYNFTSMLGYGDNLDFVDLLRLY 227
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
0.321 0.136 0.446
Gapped
Lambda K H
0.267 0.0815 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,645,097
Number of extensions: 1588784
Number of successful extensions: 1263
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1240
Number of HSP's successfully gapped: 29
Length of query: 315
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 218
Effective length of database: 6,635,264
Effective search space: 1446487552
Effective search space used: 1446487552
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 (21.9 bits)
S2: 59 (26.3 bits)