RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 021839
(307 letters)
>gnl|CDD|234799 PRK00578, prfB, peptide chain release factor 2; Validated.
Length = 367
Score = 230 bits (588), Expect = 1e-73
Identities = 73/153 (47%), Positives = 112/153 (73%), Gaps = 1/153 (0%)
Query: 144 QTSFSGAEVMPLLPEESMDVQIPEEDLEISFSRAGGKGGQNVNKVETAVRITHIPTGVTV 203
TSF+ EV P + +++++++I +DL I R+ G GGQ+VNK ++AVRITHIPTG+ V
Sbjct: 212 HTSFASVEVYPEV-DDTIEIEINPKDLRIDTYRSSGAGGQHVNKTDSAVRITHIPTGIVV 270
Query: 204 RCTEERSQLANKIKALSRLKAKLLVIAEEQRASEIKQIRGDAVKAEWGQQIRNYVFHPYK 263
+C ERSQ NK A+ LKAKL + E+RA+E ++G+ + WG QIR+YV HPY+
Sbjct: 271 QCQNERSQHQNKASAMKMLKAKLYELELEKRAAEKDALKGEKKEIGWGSQIRSYVLHPYQ 330
Query: 264 LVKDVRTGHETSDIVSVMDGELEPFIKSYLKYK 296
+VKD+RTG+ET + +V+DG+L+ FI++YL+++
Sbjct: 331 MVKDLRTGYETGNTQAVLDGDLDGFIEAYLRWR 363
Score = 125 bits (316), Expect = 3e-33
Identities = 50/140 (35%), Positives = 84/140 (60%), Gaps = 2/140 (1%)
Query: 5 YNLRKDVEAASDRVEEIRASAGLQQLEKELAELEMKAADSSFWDNRAEAQETLQALTDVK 64
+ + ++ +++E IR + L++ L ELE +A D FW+++ AQ+ + L+ +K
Sbjct: 3 NEISERLKDLDEKLENIRGVLDVDALKERLEELEAEAEDPDFWNDQERAQKVTKELSSLK 62
Query: 65 DKINLLTDFKTKMDDAVTIVKLTEEMDSTDAGLLEEAASIIKELNKALDQFELTQLLSGP 124
K++ L + + ++DD +++L EE D D L EA + +K L K L EL +LLSG
Sbjct: 63 AKLDTLEELRQRLDDLEELLELAEEED--DEETLAEAEAELKALEKKLAALELERLLSGE 120
Query: 125 YDKEGAVISITAGAGGTDAQ 144
YD A+++I AGAGGT+AQ
Sbjct: 121 YDANNAILTIHAGAGGTEAQ 140
>gnl|CDD|224107 COG1186, PrfB, Protein chain release factor B [Translation,
ribosomal structure and biogenesis].
Length = 239
Score = 196 bits (500), Expect = 6e-62
Identities = 72/153 (47%), Positives = 100/153 (65%), Gaps = 1/153 (0%)
Query: 144 QTSFSGAEVMPLLPEESMDVQIPEEDLEISFSRAGGKGGQNVNKVETAVRITHIPTGVTV 203
TSF+ EV P L S++++IP++DL I RA G GGQ+VNK ++AVR+TH+PTG+ V
Sbjct: 87 HTSFASVEVFPELDI-SIEIEIPDDDLRIDTYRASGAGGQHVNKTDSAVRLTHLPTGIVV 145
Query: 204 RCTEERSQLANKIKALSRLKAKLLVIAEEQRASEIKQIRGDAVKAEWGQQIRNYVFHPYK 263
C ERSQ NK A LK KL ++A+E+R+ E + R WG QIR+YV PY+
Sbjct: 146 LCQNERSQHLNKALARKMLKGKLYILAQEKRSQEKNRERALKKLIGWGNQIRSYVLDPYQ 205
Query: 264 LVKDVRTGHETSDIVSVMDGELEPFIKSYLKYK 296
KD+RTG E + V+DG+ + FIK+YLK+
Sbjct: 206 PTKDLRTGVERRNKSKVLDGDKDGFIKAYLKWD 238
>gnl|CDD|232785 TIGR00020, prfB, peptide chain release factor 2. In many but not
all taxa, there is a conserved real translational
frameshift at a TGA codon. RF-2 helps terminate
translation at TGA codons and can therefore regulate its
own production by readthrough when RF-2 is insufficient.
There is a PFAM model called "RF-1" for the superfamily
of RF-1, RF-2, mitochondrial, RF-H, etc [Protein
synthesis, Translation factors].
Length = 364
Score = 184 bits (468), Expect = 1e-55
Identities = 108/364 (29%), Positives = 177/364 (48%), Gaps = 71/364 (19%)
Query: 3 DFYNLRKDVEAASDRVEEIRASAGLQQLEKELAELEMKAADSSFWDNRAEAQE------- 55
+ + +E + R++ +R S ++ + L ELE + D +FW+++ AQ
Sbjct: 1 EINEVNNRIEDLTSRLDTVRGSLDPEKKKARLEELEKEMEDPNFWNDQERAQAVIKERSS 60
Query: 56 ------TLQALTDVKDKINLLTDFKTKMDDAVT--------------------IVKLTEE 89
TL+ L + + ++ L + + DD T L+ E
Sbjct: 61 LEAVLDTLEELKNSLEDLSELLELAVEEDDEETFNELDAELKALEKKLAELELRTMLSGE 120
Query: 90 MDSTDAGLLEEA----------ASIIKELNK--ALDQFELTQLLSGPYDKEGAVISITAG 137
D+ +A L +A AS++ + A + +++ +E + S+T
Sbjct: 121 YDANNAYLTIQAGAGGTEAQDWASMLYRMYLRWAERRGFKVEIIDYSEGEEAGIKSVTIL 180
Query: 138 AGGTDA-------------------------QTSFSGAEVMPLLPEESMDVQIPEEDLEI 172
G A TSF+ VMP + ++ +D++I EDL I
Sbjct: 181 IKGPYAYGYLKSEQGVHRLVRISPFDANGRRHTSFASVFVMPEVDDD-IDIEIKPEDLRI 239
Query: 173 SFSRAGGKGGQNVNKVETAVRITHIPTGVTVRCTEERSQLANKIKALSRLKAKLLVIAEE 232
RA G GGQ+VNK ++AVRITHIPTG+ V+C +RSQ NK A+ LKAKL + E
Sbjct: 240 DTYRASGAGGQHVNKTDSAVRITHIPTGIVVQCQNDRSQHKNKDSAMKVLKAKLYELEME 299
Query: 233 QRASEIKQIRGDAVKAEWGQQIRNYVFHPYKLVKDVRTGHETSDIVSVMDGELEPFIKSY 292
+ +E G+ + WG QIR+YV HPY +VKD+RTG+ET ++ +V+DG+++ FI++Y
Sbjct: 300 KEQAEKDAKEGEKSEIGWGSQIRSYVLHPYSMVKDLRTGYETGNVQAVLDGDIDQFIEAY 359
Query: 293 LKYK 296
LK+K
Sbjct: 360 LKWK 363
>gnl|CDD|235520 PRK05589, PRK05589, peptide chain release factor 2; Provisional.
Length = 325
Score = 173 bits (440), Expect = 5e-52
Identities = 82/151 (54%), Positives = 108/151 (71%), Gaps = 1/151 (0%)
Query: 144 QTSFSGAEVMPLLPEESMDVQIPEEDLEISFSRAGGKGGQNVNKVETAVRITHIPTGVTV 203
QTSF+ EV+P L ++ D++I EDL+I RAGG GGQ+VNK E+AVRITHIPTG+ V
Sbjct: 173 QTSFASVEVLPELTDDQ-DIEIRSEDLKIDTYRAGGAGGQHVNKTESAVRITHIPTGIVV 231
Query: 204 RCTEERSQLANKIKALSRLKAKLLVIAEEQRASEIKQIRGDAVKAEWGQQIRNYVFHPYK 263
+C ERSQ +NK A+ LK+KL+ + E +I+ + G+ WG QIR+YVFHPY
Sbjct: 232 QCQNERSQHSNKETAMKMLKSKLVELKERAHKEKIEDLTGELKDMGWGSQIRSYVFHPYN 291
Query: 264 LVKDVRTGHETSDIVSVMDGELEPFIKSYLK 294
LVKD RTG ETS++ SVMDG+++ FI YLK
Sbjct: 292 LVKDHRTGVETSNVDSVMDGDIDNFITQYLK 322
Score = 70.6 bits (173), Expect = 7e-14
Identities = 31/102 (30%), Positives = 59/102 (57%), Gaps = 3/102 (2%)
Query: 43 DSSFWDNRAEAQETLQALTDVKDKINLLTDFKTKMDDAVTIVKLTEEMDSTDAGLLEEAA 102
+ +FW++ EAQE +KDK++ + +++D + ++ E D +E
Sbjct: 3 EPNFWNDIKEAQEITSEEKYLKDKLDKYNHLRNRIEDIEVLCEMMSEEDDEMK---KEII 59
Query: 103 SIIKELNKALDQFELTQLLSGPYDKEGAVISITAGAGGTDAQ 144
S +K + + +D+F++ LLSG YD+ A++++ +G GGTDAQ
Sbjct: 60 SEVKNIKEEIDRFKIETLLSGEYDRNNAILTLHSGVGGTDAQ 101
>gnl|CDD|201249 pfam00472, RF-1, RF-1 domain. This domain is found in peptide
chain release factors such as RF-1 and RF-2, and a
number of smaller proteins of unknown function. This
domain contains the peptidyl-tRNA hydrolase activity.
The domain contains a highly conserved motif GGQ, where
the glutamine is thought to coordinate the water that
mediates the hydrolysis.
Length = 114
Score = 148 bits (375), Expect = 8e-45
Identities = 53/113 (46%), Positives = 73/113 (64%), Gaps = 2/113 (1%)
Query: 158 EESMDVQIPEEDLEISFSRAGGKGGQNVNKVETAVRITHIPTGVTVRCTEERSQLANKIK 217
+E ++++IPE DL I R+ G GGQNVNK E+AVR+TH+PTG+ V+C EERSQ N+ K
Sbjct: 3 DEEVEIEIPESDLRIDTFRSSGPGGQNVNKTESAVRLTHLPTGIVVKCQEERSQHKNREK 62
Query: 218 ALSRLKAKLLVIAEEQRASEIKQIRGDAVKA-EWGQQIRNYVFHPYKLVKDVR 269
AL RLKAKL +++ + K R V+ + ++IR Y P VKD R
Sbjct: 63 ALERLKAKLYEAELQKKREKTKPTRASQVRRGDRKEKIRTY-NFPQGRVKDHR 114
>gnl|CDD|75726 PRK06746, PRK06746, peptide chain release factor 2; Provisional.
Length = 326
Score = 141 bits (357), Expect = 8e-40
Identities = 73/153 (47%), Positives = 103/153 (67%), Gaps = 1/153 (0%)
Query: 144 QTSFSGAEVMPLLPEESMDVQIPEEDLEISFSRAGGKGGQNVNKVETAVRITHIPTGVTV 203
TSF EV+P +E +++++ EDL+I RA G GGQ+VN ++AVRITH PT V
Sbjct: 174 HTSFVSCEVVPEFNDE-VEIEVRTEDLKIDTYRASGAGGQHVNTTDSAVRITHTPTNTVV 232
Query: 204 RCTEERSQLANKIKALSRLKAKLLVIAEEQRASEIKQIRGDAVKAEWGQQIRNYVFHPYK 263
C ERSQ+ N+ A+ LKAKL E++ +E+ +IRG+ + WG QIR+YVFHPY
Sbjct: 233 TCQSERSQIKNREHAMKMLKAKLYQKKLEEQQAELDEIRGEQKEIGWGSQIRSYVFHPYS 292
Query: 264 LVKDVRTGHETSDIVSVMDGELEPFIKSYLKYK 296
LVKD RT E ++ +VMDGE++PFI +YL+ +
Sbjct: 293 LVKDHRTNTEVGNVQAVMDGEIDPFIDAYLRSR 325
Score = 55.9 bits (134), Expect = 7e-09
Identities = 33/103 (32%), Positives = 58/103 (56%), Gaps = 6/103 (5%)
Query: 44 SSFWDNRAEAQETLQALTDVKDKINLLTDFKTKMDDAVTIVKLTEEM--DSTDAGLLEEA 101
+ FWD++ AQ + +KD + ++D+ +++T E+ + D L EE
Sbjct: 4 AGFWDDQQGAQAVINEANALKDMVGKFR----QLDETFENLEITHELLKEEYDEDLHEEL 59
Query: 102 ASIIKELNKALDQFELTQLLSGPYDKEGAVISITAGAGGTDAQ 144
S +K L + ++++EL LLS PYDK A++ + GAGGT++Q
Sbjct: 60 ESEVKGLIQEMNEYELQLLLSDPYDKNNAILELHPGAGGTESQ 102
>gnl|CDD|235997 PRK07342, PRK07342, peptide chain release factor 2; Provisional.
Length = 339
Score = 133 bits (337), Expect = 1e-36
Identities = 64/154 (41%), Positives = 99/154 (64%), Gaps = 1/154 (0%)
Query: 145 TSFSGAEVMPLLPEESMDVQIPEEDLEISFSRAGGKGGQNVNKVETAVRITHIPTGVTVR 204
TSF+ V P++ +++++V + E D+ I R+ G GGQ+VN ++AVRITHIPTG+ V+
Sbjct: 177 TSFASIWVYPVI-DDNIEVDVNESDVRIDTYRSSGAGGQHVNTTDSAVRITHIPTGIVVQ 235
Query: 205 CTEERSQLANKIKALSRLKAKLLVIAEEQRASEIKQIRGDAVKAEWGQQIRNYVFHPYKL 264
C +ERSQ N+ KA S L+A+L ++R WG QIR+YV PY+L
Sbjct: 236 CQQERSQHKNRAKAWSMLRARLYEEELKKREEATNAAAASKTDIGWGHQIRSYVLQPYQL 295
Query: 265 VKDVRTGHETSDIVSVMDGELEPFIKSYLKYKYS 298
VKD+RTG E+++ V+DG+L F+++ L ++ S
Sbjct: 296 VKDLRTGVESTNPQDVLDGDLNEFMEAALAHRIS 329
Score = 66.1 bits (161), Expect = 3e-12
Identities = 32/106 (30%), Positives = 59/106 (55%), Gaps = 2/106 (1%)
Query: 39 MKAADSSFWDNRAEAQETLQALTDVKDKINLLTDFKTKMDDAVTIVKLTEEMDSTDAGLL 98
KA D S W++ EAQ+ ++ + D IN + + ++D + ++ + EE D ++
Sbjct: 1 NKAEDPSLWNDAQEAQKLMRERQQLDDSINGINHLEQTLNDNIELIAMGEE--EGDKSIV 58
Query: 99 EEAASIIKELNKALDQFELTQLLSGPYDKEGAVISITAGAGGTDAQ 144
E+A I++L +D+ ++ LLSG D + + AGAGGT++Q
Sbjct: 59 EDAEKTIRDLKDEIDRRQIDALLSGEADANDTYLEVHAGAGGTESQ 104
>gnl|CDD|234801 PRK00591, prfA, peptide chain release factor 1; Validated.
Length = 359
Score = 132 bits (335), Expect = 3e-36
Identities = 55/139 (39%), Positives = 79/139 (56%), Gaps = 9/139 (6%)
Query: 156 LPE-ESMDVQIPEEDLEISFSRAGGKGGQNVNKVETAVRITHIPTGVTVRCTEERSQLAN 214
LPE E ++V+I +DL I R+ G GGQ+VN ++AVRITH+PTG+ V C +ERSQ N
Sbjct: 208 LPEAEEVEVEINPKDLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKN 267
Query: 215 KIKALSRLKAKLLVIAEEQRASEIKQIRGDAV----KAEWGQQIRNYVFHPYKLVKDVRT 270
K KA+ L+A+L ++ +E R V ++E +IR Y F P V D R
Sbjct: 268 KAKAMKVLRARLYDAERQKAQAEEAATRKSQVGSGDRSE---RIRTYNF-PQGRVTDHRI 323
Query: 271 GHETSDIVSVMDGELEPFI 289
+ VM+G+L+ I
Sbjct: 324 NLTLYKLDEVMEGDLDELI 342
Score = 37.0 bits (87), Expect = 0.010
Identities = 29/120 (24%), Positives = 57/120 (47%), Gaps = 10/120 (8%)
Query: 27 LQQLEKELAELEMKAADSSFWDNRAEAQETLQALTDVKDKINLLTDFKTKMDDAVTIVKL 86
L+ LE+ ELE +D ++ ++ + +++ + ++K +D ++
Sbjct: 8 LEALEERYEELEALLSDPEVISDQKRFRKLSKEYAELEPIVEAYREYKQAQED----LEE 63
Query: 87 TEEM--DSTDAGLLEEAASIIKELNKALDQFE--LTQLL--SGPYDKEGAVISITAGAGG 140
+EM + +D + E A +KEL + L++ E L LL P D + ++ I AG GG
Sbjct: 64 AKEMLEEESDPEMREMAKEELKELEERLEELEEELKILLLPKDPNDDKNVILEIRAGTGG 123
>gnl|CDD|129130 TIGR00019, prfA, peptide chain release factor 1. This model
describes peptide chain release factor 1 (PrfA, RF-1),
and excludes the related peptide chain release factor 2
(PrfB, RF-2). RF-1 helps recognize and terminate
translation at UAA and UAG stop codons. The
mitochondrial release factors are prfA-like, although
not included above the trusted cutoff for this model.
RF-1 does not have a translational frameshift [Protein
synthesis, Translation factors].
Length = 360
Score = 120 bits (304), Expect = 9e-32
Identities = 56/149 (37%), Positives = 84/149 (56%), Gaps = 4/149 (2%)
Query: 144 QTSFSGAEVMPLLPEESMDVQIPEEDLEISFSRAGGKGGQNVNKVETAVRITHIPTGVTV 203
TS + VMP L E ++V I DL I R+ G GGQ+VN ++AVRITH+PTG+ V
Sbjct: 199 HTSAATVAVMPELEE--VEVDINPADLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVV 256
Query: 204 RCTEERSQLANKIKALSRLKAKLLVIAEEQRASEIKQIRGDAVKA-EWGQQIRNYVFHPY 262
C +ERSQ NK KA+ L+A+L +E++ + R V + + ++IR Y F P
Sbjct: 257 ECQDERSQHKNKDKAMKVLRARLYEAEQEKQQAAQASTRKSQVGSGDRSERIRTYNF-PQ 315
Query: 263 KLVKDVRTGHETSDIVSVMDGELEPFIKS 291
V D R + V++G+L+ I++
Sbjct: 316 NRVTDHRINLTLYKLDEVLEGDLDELIEA 344
Score = 35.4 bits (82), Expect = 0.025
Identities = 26/122 (21%), Positives = 61/122 (50%), Gaps = 9/122 (7%)
Query: 27 LQQLEKELAELEMKAADSSFWDNRAEAQETLQALTDVKDKINLLTDFKTKMDDAVTIVKL 86
L+ L + ELE +D ++ + ++ + + +++ ++ +++ +D K
Sbjct: 9 LESLLERYEELEALLSDPEVISDQDKLRKLSKEYSQLEEIVDCYREYQQAQEDI----KE 64
Query: 87 TEEM-DSTDAGLLEEAASIIKELNKALDQFE--LTQLL--SGPYDKEGAVISITAGAGGT 141
+E+ + +D + E A ++EL + +++ E L LL P D++ ++ I AG GG
Sbjct: 65 AKEILEESDPEMREMAKEELEELEEKIEELEEQLKVLLLPKDPNDEKNVILEIRAGTGGD 124
Query: 142 DA 143
+A
Sbjct: 125 EA 126
>gnl|CDD|223294 COG0216, PrfA, Protein chain release factor A [Translation,
ribosomal structure and biogenesis].
Length = 363
Score = 119 bits (300), Expect = 4e-31
Identities = 55/148 (37%), Positives = 81/148 (54%), Gaps = 4/148 (2%)
Query: 144 QTSFSGAEVMPLLPEESMDVQIPEEDLEISFSRAGGKGGQNVNKVETAVRITHIPTGVTV 203
TS + V+P EE +++I +DL I R+ G GGQ+VN ++AVRITH+PTG+ V
Sbjct: 200 HTSAATVAVLPE-VEEVEEIEINPKDLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVV 258
Query: 204 RCTEERSQLANKIKALSRLKAKLLVIAEEQRASEIKQIRGDAV-KAEWGQQIRNYVFHPY 262
C +ERSQ NK KA+ L+A+L ++ +E R V + ++IR Y F P
Sbjct: 259 ECQDERSQHKNKAKAMKVLRARLYDAERQKAQAEEASERKSQVGSGDRSERIRTYNF-PQ 317
Query: 263 KLVKDVRTGHETSDIVSVMD-GELEPFI 289
V D R + VM+ G+L+ I
Sbjct: 318 NRVTDHRINLTLYKLDEVMEGGKLDEII 345
Score = 43.0 bits (102), Expect = 1e-04
Identities = 30/123 (24%), Positives = 54/123 (43%), Gaps = 10/123 (8%)
Query: 27 LQQLEKELAELEMKAADSSFWDNRAEAQETLQALTDVKDKINLLTDFKTKMDDAVTIVKL 86
L+ L + ELE +D + E ++ + +++ + ++K +D
Sbjct: 9 LESLLERYEELEALLSDPEVISDPDEYRKLSKEYAELEPIVEKYREYKKAQEDLEDA--- 65
Query: 87 TEEM--DSTDAGLLEEAASIIKELNKALDQFE--LTQLLS--GPYDKEGAVISITAGAGG 140
+EM + D + E A IKEL +++ E L LL P D + ++ I AG GG
Sbjct: 66 -KEMLAEEKDPEMREMAEEEIKELEAKIEELEEELKILLLPKDPNDDKNIILEIRAGTGG 124
Query: 141 TDA 143
+A
Sbjct: 125 DEA 127
>gnl|CDD|136970 PRK08787, PRK08787, peptide chain release factor 2; Provisional.
Length = 313
Score = 113 bits (284), Expect = 2e-29
Identities = 64/163 (39%), Positives = 92/163 (56%), Gaps = 2/163 (1%)
Query: 144 QTSFSGAEVMPLLPEESMDVQIPEEDLEISFSRAGGKGGQNVNKVETAVRITHIPTGVTV 203
TSF+ V P + ++++++ I DL R+ G GGQ+VNK E+AVRITHIPT V
Sbjct: 153 HTSFTSVFVSPEV-DDNIEIDINPADLRTDVYRSSGAGGQHVNKTESAVRITHIPTNTVV 211
Query: 204 RCTEERSQLANKIKALSRLKAKLLVIAEEQRASEIKQIRGDAVKAEWGQQIRNYVFHPYK 263
C RSQ N+ A+ L AKL + ++R +E + WG QIRNYV +
Sbjct: 212 ACQTGRSQHQNRDNAMKMLAAKLYELEVQKRNAEKDALEATKSDIGWGSQIRNYVLDQSR 271
Query: 264 LVKDVRTGHETSDIVSVMDGELEPFIKSYLKYKYSMSLSASDA 306
+KD+RTG E SD V+DG+L+ F+++ LK + DA
Sbjct: 272 -IKDLRTGIERSDTQKVLDGDLDEFVEASLKAGLAAGSKRLDA 313
Score = 33.1 bits (75), Expect = 0.13
Identities = 18/49 (36%), Positives = 30/49 (61%), Gaps = 3/49 (6%)
Query: 99 EEAASIIKELNK---ALDQFELTQLLSGPYDKEGAVISITAGAGGTDAQ 144
+ A ++I +L+K +++ E ++ SG D A + I AGAGGT+AQ
Sbjct: 33 DTALAVIADLDKYQAHVEKLEFQRMFSGQMDGANAFVDIQAGAGGTEAQ 81
>gnl|CDD|181271 PRK08179, prfH, peptide chain release factor-like protein;
Reviewed.
Length = 200
Score = 78.2 bits (193), Expect = 2e-17
Identities = 39/97 (40%), Positives = 53/97 (54%), Gaps = 4/97 (4%)
Query: 166 PEEDLEISFS--RAGGKGGQNVNKVETAVRITHIPTGVTVRCTEERSQLANKIKALSRLK 223
E+ EI F R+ G GGQ+VNK ++AVR TH+ +G++V+ ERSQ ANK A +
Sbjct: 103 EEQSDEIRFETLRSSGPGGQHVNKTDSAVRATHLASGISVKVQSERSQHANKRLARLLIA 162
Query: 224 AKLLVIAEEQRASEIKQIRGDAVKAEWGQQIRNYVFH 260
KL +EQ A+ Q R + E G R VF
Sbjct: 163 WKLEQQQQEQSAALKSQRRMFHHQIERGNPRR--VFT 197
>gnl|CDD|213768 TIGR03072, release_prfH, putative peptide chain release factor H.
Members of this protein family are bacterial proteins
homologous to peptide chain release factors 1 (RF-1,
product of the prfA gene), and 2 (RF-2, product of the
prfB gene). The member from Escherichia coli K-12,
designated prfH, appears to be a pseudogene. This class
I release factor is always found as the downstream gene
of a two-gene operon [Protein synthesis, Translation
factors].
Length = 200
Score = 77.5 bits (191), Expect = 5e-17
Identities = 37/99 (37%), Positives = 55/99 (55%), Gaps = 13/99 (13%)
Query: 157 PEESMDVQIPEEDLEISFSRAGGKGGQNVNKVETAVRITHIPTGVTVRCTEERSQLANKI 216
EE+ + +I E L R+ G GGQ+VNK E+AVR TH+ +G++V+ ERSQ ANK
Sbjct: 100 SEEATEDEIRFETL-----RSSGPGGQHVNKTESAVRATHLASGISVKVQSERSQHANKR 154
Query: 217 KALSRLKAKLLVIAEEQRASEIKQ--------IRGDAVK 247
A L +L + +EQ A+ + RG+ V+
Sbjct: 155 LATLLLAVRLADLQQEQAAALRAERRTAHHQIERGNPVR 193
>gnl|CDD|181730 PRK09256, PRK09256, hypothetical protein; Provisional.
Length = 138
Score = 68.6 bits (169), Expect = 2e-14
Identities = 35/89 (39%), Positives = 40/89 (44%), Gaps = 28/89 (31%)
Query: 162 DVQIPEEDLEISFSRAGGKGGQNVNKVETAV-------------------------RITH 196
+ IPE +LE F RA G GGQNVNKV TAV RIT
Sbjct: 7 RLVIPENELEWRFIRASGPGGQNVNKVSTAVELRFDIAASSLPEFYKERLLALAGHRIT- 65
Query: 197 IPTGV-TVRCTEERSQLANKIKALSRLKA 224
GV ++ E RSQ N+ AL RL A
Sbjct: 66 -KDGVIVIKAQEFRSQERNREDALERLVA 93
>gnl|CDD|217573 pfam03462, PCRF, PCRF domain. This domain is found in peptide
chain release factors.
Length = 115
Score = 53.3 bits (129), Expect = 4e-09
Identities = 26/60 (43%), Positives = 35/60 (58%), Gaps = 4/60 (6%)
Query: 89 EMDSTDAGLLEEAASIIKELNKALDQFE--LTQLL--SGPYDKEGAVISITAGAGGTDAQ 144
+ D L EEA ++EL K L++ E L LL PYD + A++ I AGAGGT+AQ
Sbjct: 3 LEEEDDPELREEAEEELEELEKELEELEKELLNLLLPLDPYDDKNAILEIRAGAGGTEAQ 62
>gnl|CDD|214923 smart00937, PCRF, This domain is found in peptide chain release
factors.
Length = 116
Score = 49.8 bits (120), Expect = 7e-08
Identities = 21/65 (32%), Positives = 33/65 (50%), Gaps = 7/65 (10%)
Query: 85 KLTEEMDSTDAGLLEEAASIIKELN----KALDQFELTQLLSG-PYDKEGAVISITAGAG 139
+L EE + D + E A ++EL + L++ LL P D + A++ I AGAG
Sbjct: 1 ELLEEEE--DDEMRELAEEELEELEAELEEELEELLKLLLLPKDPNDDKNAILEIRAGAG 58
Query: 140 GTDAQ 144
G +A
Sbjct: 59 GDEAA 63
>gnl|CDD|219791 pfam08317, Spc7, Spc7 kinetochore protein. This domain is found in
cell division proteins which are required for
kinetochore-spindle association.
Length = 321
Score = 32.7 bits (75), Expect = 0.23
Identities = 30/136 (22%), Positives = 55/136 (40%), Gaps = 19/136 (13%)
Query: 2 QDFYNLRKDVEAASDRVEEIRASAGLQQLEKELAEL-----EMKAADSS-FWDNRAEAQE 55
+D L KD+ + ++R LQ L++E+A L E+ D R E +
Sbjct: 161 RDEELLNKDLNLINSIKPKLRKK--LQALKEEIASLRQLADELNLCDPLELEKARQELRS 218
Query: 56 TLQALTDVKDKINLLTDFKTKMDDAVTIVKLTEEMDSTDAGLLEEAASII--------KE 107
+++ + ++ L ++ A+ LT + S + EA I KE
Sbjct: 219 LSVKISEKRKQLEELQQELQELTIAIE--ALTNKK-SELLEEIAEAEKIREECRGWSAKE 275
Query: 108 LNKALDQFELTQLLSG 123
++K + L Q L+G
Sbjct: 276 ISKLKAKVSLLQKLTG 291
>gnl|CDD|197874 smart00787, Spc7, Spc7 kinetochore protein. This domain is found
in cell division proteins which are required for
kinetochore-spindle association.
Length = 312
Score = 32.3 bits (74), Expect = 0.27
Identities = 31/140 (22%), Positives = 60/140 (42%), Gaps = 27/140 (19%)
Query: 2 QDFYNLRKDVEAASDRVEEIRASAGLQQLEKELAEL-----EMKAADSSFWDN-RAEAQE 55
+D+ L K++E + ++R LE+EL +L E++ D + D + + ++
Sbjct: 158 EDYKLLMKELELLNSIKPKLRDR--KDALEEELRQLKQLEDELEDCDPTELDRAKEKLKK 215
Query: 56 TLQALTDVKDKINLLTDFKTKMDD-AVTIVKLTEEMDSTDAGLLEEAASI---------- 104
LQ ++ K+ L + + ++ + I LT + L E A
Sbjct: 216 LLQ---EIMIKVKKLEELEEELQELESKIEDLTNKKSE----LNTEIAEAEKKLEQCRGF 268
Query: 105 -IKELNKALDQFELTQLLSG 123
KE+ K +Q +L Q L+G
Sbjct: 269 TFKEIEKLKEQLKLLQSLTG 288
>gnl|CDD|205692 pfam13514, AAA_27, AAA domain. This domain is found in a number of
double-strand DNA break proteins. This domain contains a
P-loop motif.
Length = 1118
Score = 32.0 bits (73), Expect = 0.39
Identities = 26/112 (23%), Positives = 49/112 (43%), Gaps = 7/112 (6%)
Query: 7 LRKDVEAASDRVEEIRASAGLQQLEKELAELEMKAADSSFWDNRAEAQETLQALTDVKDK 66
L +++E A V E A+A L + E L L A ++ + A + + +++ +
Sbjct: 813 LAEEIEEAEKEVSE--AAAALDEAEARLTALLRAARCTTIEELLAAVERSDTY-RELRKR 869
Query: 67 INLLTDFKTKMDDAVTIVKLTEEMDSTDA----GLLEEAASIIKELNKALDQ 114
I L + +++ L E + D LEE A I+EL + L++
Sbjct: 870 IAALERTLVRAGGGLSLEALVAEAAALDPDELPARLEELARDIEELEEELNE 921
>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and
chromosome partitioning].
Length = 1163
Score = 31.2 bits (71), Expect = 0.89
Identities = 25/122 (20%), Positives = 56/122 (45%), Gaps = 18/122 (14%)
Query: 6 NLRKDVEAASDRVEEIRASAGLQQLEKELAELEMKAADSSFWDNRAEAQETLQALTDVKD 65
L +++E + +EE A +++L+ EL EL + + E E + + +++
Sbjct: 250 RLEEELEELQEELEE--AEKEIEELKSELEELREELEELQ-----EELLELKEEIEELEG 302
Query: 66 KINLLTD-----FKTKMDDAVTIVKLTEEMDSTDA------GLLEEAASIIKELNKALDQ 114
+I+LL + + + +L E++++ LLEE ++ EL +A ++
Sbjct: 303 EISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLAELEEAKEE 362
Query: 115 FE 116
E
Sbjct: 363 LE 364
>gnl|CDD|236861 PRK11147, PRK11147, ABC transporter ATPase component; Reviewed.
Length = 635
Score = 30.7 bits (70), Expect = 1.1
Identities = 15/59 (25%), Positives = 27/59 (45%), Gaps = 10/59 (16%)
Query: 5 YNLRKDVEAASDRVEEIRASAGLQQLEKELAELEMKAADSSFW-DNRAEAQETLQALTD 62
Y L++++E +E LE E+ L+ + AD+ F+ + Q+ L L D
Sbjct: 564 YKLQRELEQLPQLLE---------DLEAEIEALQAQVADADFFSQPHEQTQKVLADLAD 613
>gnl|CDD|239087 cd02394, vigilin_like_KH, K homology RNA-binding
domain_vigilin_like. The vigilin family is a large and
extended family of multiple KH-domain proteins,
including vigilin, also called high density lipoprotein
binding protien (HBP), fungal Scp160 and bicaudal-C.
Yeast Scp160p has been shown to bind RNA and to
associate with both soluble and membrane-bound
polyribosomes as a mRNP component. Bicaudal-C is a
RNA-binding molecule believed to function in embryonic
development at the post-transcriptional level. In
general, KH binds single-stranded RNA or DNA. It is
found in a wide variety of proteins including ribosomal
proteins, transcription factors and post-transcriptional
modifiers of mRNA.
Length = 62
Score = 27.5 bits (62), Expect = 1.5
Identities = 13/43 (30%), Positives = 20/43 (46%), Gaps = 9/43 (20%)
Query: 179 GKGGQNVNKV--ETAVRITHIPTG------VTVRCTEERSQLA 213
GK G N+ K+ ET V+I P +T+ +E + A
Sbjct: 16 GKKGSNIRKIMEETGVKI-RFPDPGSKSDTITITGPKENVEKA 57
>gnl|CDD|234701 PRK00252, alaS, alanyl-tRNA synthetase; Reviewed.
Length = 865
Score = 30.1 bits (69), Expect = 1.7
Identities = 34/134 (25%), Positives = 53/134 (39%), Gaps = 42/134 (31%)
Query: 7 LRKDVEAASDRVEEIRASAGLQQLEKELAELEMKAADSSFWDNRAEAQETLQALTDVKDK 66
L+ +RVE + L++LEKEL +L+ K A A A + L +V
Sbjct: 710 LKAKPSELPERVEALLEE--LKELEKELEQLKAKLA-------AAAAGDLLAQAKEVNG- 759
Query: 67 INLLT----------------DFKTKMDDAV------------TIVKLTEEMDSTDAGLL 98
+ +L D K K+ V +V +T+ D TD GL
Sbjct: 760 VKVLAAQVEGVDAKALRTLADDLKDKLGSGVVVLATVEDGKVSLVVAVTK--DLTDKGL- 816
Query: 99 EEAASIIKELNKAL 112
+A ++KEL K +
Sbjct: 817 -KAGDLVKELAKIV 829
>gnl|CDD|236729 PRK10636, PRK10636, putative ABC transporter ATP-binding protein;
Provisional.
Length = 638
Score = 29.8 bits (67), Expect = 1.9
Identities = 14/45 (31%), Positives = 22/45 (48%), Gaps = 5/45 (11%)
Query: 28 QQLEK---ELAELEMKAADSSFWDN--RAEAQETLQALTDVKDKI 67
+++EK +LA+ E K DS +D +AE LQ K +
Sbjct: 570 KEMEKLNAQLAQAEEKLGDSELYDQSRKAELTACLQQQASAKSGL 614
>gnl|CDD|236410 PRK09202, nusA, transcription elongation factor NusA; Validated.
Length = 470
Score = 29.5 bits (67), Expect = 2.8
Identities = 17/39 (43%), Positives = 23/39 (58%), Gaps = 7/39 (17%)
Query: 150 AEVMPLLPEE---SMDVQIPEEDLEISFSRAGGKGGQNV 185
AEV ++ +E S DV +P++ L S A GK GQNV
Sbjct: 290 AEVSSVVVDEDEHSADVVVPDDQL----SLAIGKNGQNV 324
>gnl|CDD|234659 PRK00137, rplI, 50S ribosomal protein L9; Reviewed.
Length = 147
Score = 28.1 bits (64), Expect = 3.9
Identities = 20/52 (38%), Positives = 28/52 (53%), Gaps = 13/52 (25%)
Query: 21 IRASAG-LQQLEKELAELEMKAADSSFWDNRAEAQETLQALTDVKDKINLLT 71
+RA+ G L+QLE AELE KAA + AEA+ + +K+ LT
Sbjct: 37 VRATKGNLKQLEARRAELEAKAA-----EELAEAEA-------LAEKLEGLT 76
>gnl|CDD|238817 cd01639, IMPase, IMPase, inositol monophosphatase and related
domains. A family of Mg++ dependent phosphatases,
inhibited by lithium, many of which may act on inositol
monophosphate substrate. They dephosphorylate inositol
phosphate to generate inositol, which may be recycled
into inositol lipids; in eukaryotes IMPase plays a vital
role in intracellular signaling. IMPase is one of the
proposed targets of Li+ therapy in manic-depressive
illness. This family contains some bacterial members of
the inositol monophosphatase family classified as
SuhB-like. E. coli SuhB has been suggested to
participate in posstranscriptional control of gene
expression, and its inositol monophosphatase activity
doesn't appear to be sufficient for its cellular
function. It has been proposed, that SuhB plays a role
in the biosynthesis of phosphatidylinositol in
mycobacteria.
Length = 244
Score = 28.3 bits (64), Expect = 4.2
Identities = 14/55 (25%), Positives = 24/55 (43%), Gaps = 5/55 (9%)
Query: 245 AVKA--EWGQQIRNYVFHPYKLVKDVRTGHETSDIVSVMDGELEPFIKSYLKYKY 297
A++A + G+ + KL +V D+V+ +D +E I LK Y
Sbjct: 5 AIEAARKAGEILLEAY---EKLGLNVEEKGSPVDLVTEVDKAVEKLIIEILKKAY 56
>gnl|CDD|132835 cd00147, cPLA2_like, Cytosolic phospholipase A2, catalytic domain;
hydrolyses arachidonyl phospholipids. Catalytic domain
of cytosolic phospholipase A2 (PLA2; EC 3.1.1.4)
hydrolyzes the sn-2-acyl ester bond of phospholipids to
release arachidonic acid. At the active site, cPLA2
contains a serine nucleophile through which the
catalytic mechanism is initiated. The active site is
partially covered by a solvent-accessible flexible lid.
cPLA2 displays interfacial activation as it exists in
both "closed lid" and "open lid" forms. Movement of the
cPLA2 lid possibly exposes a greater hydrophobic surface
and the active site. cPLA2 belongs to the alpha-beta
hydrolase family which is identified by a characteristic
nucleophile elbow with a consensus sequence of
Sm-X-Nu-Sm (Sm = small residue, X = any residue and Nu =
nucleophile). Calcium is required for cPLA2 to bind with
membranes or phospholipids. Group IV cPLA2 includes six
intercellular enzymes: cPLA2alpha, cPLA2beta,
cPLA2gamma, cPLA2delta, cPLA2epsilon, and cPLA2zeta.
Length = 438
Score = 28.8 bits (65), Expect = 4.5
Identities = 14/47 (29%), Positives = 17/47 (36%), Gaps = 6/47 (12%)
Query: 104 IIKELNKALDQFELTQLLSGPYDKEGAVISITAGAGGTDAQTSFSGA 150
+ K L K L P VI+I GG A T +GA
Sbjct: 22 VAKALKKFLGLENDLNPDEVP------VIAILGSGGGYRAMTGGAGA 62
>gnl|CDD|233046 TIGR00603, rad25, DNA repair helicase rad25. All proteins in this
family for which functions are known are DNA-DNA
helicases used for the initiation of nucleotide excision
repair and transacription as part of the TFIIH
complex.This family is based on the phylogenomic
analysis of JA Eisen (1999, Ph.D. Thesis, Stanford
University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 732
Score = 28.6 bits (64), Expect = 4.7
Identities = 17/57 (29%), Positives = 22/57 (38%), Gaps = 12/57 (21%)
Query: 252 QQIRNYVFHPYKLVKDVRTGHETSDIVSVMD--------GELEPFIK----SYLKYK 296
+ I Y Y L V G ET DI+ V+ + FI+ SY K K
Sbjct: 52 EHIHEYKLTAYSLYAAVSVGLETEDIIEVLGRLSKTPIPKGIIEFIRLCTQSYGKVK 108
>gnl|CDD|132914 cd07043, STAS_anti-anti-sigma_factors, Sulphate Transporter and
Anti-Sigma factor antagonist) domain of anti-anti-sigma
factors, key regulators of anti-sigma factors by
phosphorylation. Anti-anti-sigma factors play an
important role in the regulation of several sigma
factors and their corresponding anti-sigma factors. Upon
dephosphorylation they bind the anti-sigma factor and
induce the release of the sigma factor from the
anti-sigma factor. In a feedback mechanism the
anti-anti-sigma factor can be inactivated via
phosphorylation by the anti-sigma factor. Well studied
examples from Bacillus subtilis are SpoIIAA (regulating
sigmaF and sigmaC which play an important role in
sporulation) and RsbV (regulating sigmaB involved in the
general stress response). The STAS domain is also found
in the C- terminal region of sulphate transporters and
stressosomes.
Length = 99
Score = 26.7 bits (60), Expect = 6.4
Identities = 9/29 (31%), Positives = 15/29 (51%)
Query: 73 FKTKMDDAVTIVKLTEEMDSTDAGLLEEA 101
+ V +V+L+ E+D+ A L EA
Sbjct: 1 ITVEERGGVLVVRLSGELDAATAPELREA 29
>gnl|CDD|239049 cd02134, NusA_KH, NusA_K homology RNA-binding domain (KH). NusA is
an essential multifunctional transcription elongation
factor that is universally conserved among prokaryotes
and archaea. NusA anti-termination function plays an
important role in the expression of ribosomal rrn
operons. During transcription of many other genes,
NusA-induced RNAP pausing provides a mechanism for
synchronizing transcription and translation . The
N-terminal RNAP-binding domain (NTD) is connected
through a flexible hinge helix to three globular
domains, S1, KH1 and KH2. The KH motif is a
beta-alpha-alpha-beta-beta unit that folds into an
alpha-beta structure with a three stranded beta-sheet
interupted by two contiguous helices.
Length = 61
Score = 25.6 bits (57), Expect = 6.7
Identities = 12/33 (36%), Positives = 16/33 (48%), Gaps = 4/33 (12%)
Query: 157 PEESMDVQIPEEDLEISFSRAGGKGGQNVNKVE 189
E+ V +P++ L A GKGGQNV
Sbjct: 23 EEKRARVVVPDDQL----GLAIGKGGQNVRLAS 51
>gnl|CDD|217653 pfam03639, Glyco_hydro_81, Glycosyl hydrolase family 81. Family of
eukaryotic beta-1,3-glucanases. Within the Aspergillus
fumigatus protein two perfectly conserved Glu residues
(E550 or E554) have been proposed as putative
nucleophiles of the active site of the Engl1
endoglucanase, while the proton donor would be D475. The
endo-beta-1,3-glucanase activity is essential for
efficient spore release.
Length = 694
Score = 27.9 bits (62), Expect = 7.3
Identities = 13/49 (26%), Positives = 22/49 (44%), Gaps = 3/49 (6%)
Query: 257 YVFHPYKLVKDVRTGHETSDIVSVMDGELEPFIKSYLKYKYSMSLSASD 305
Y F+P + V + E S D +L+ S ++ S S S+S+
Sbjct: 84 YYFNPLGIASVVFSARE---FDSSNDLQLDESRLSSIRVVLSESNSSSN 129
>gnl|CDD|238053 cd00105, KH-I, K homology RNA-binding domain, type I. KH binds
single-stranded RNA or DNA. It is found in a wide
variety of proteins including ribosomal proteins,
transcription factors and post-transcriptional modifiers
of mRNA. There are two different KH domains that belong
to different protein folds, but they share a single KH
motif. The KH motif is folded into a beta alpha alpha
beta unit. In addition to the core, type II KH domains
(e.g. ribosomal protein S3) include N-terminal extension
and type I KH domains (e.g. hnRNP K) contain C-terminal
extension.
Length = 64
Score = 25.6 bits (57), Expect = 7.8
Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 14/60 (23%)
Query: 167 EEDLEISFSRAG---GKGGQNVNKV--ETAVRITHIPTG--------VTVRCTEERSQLA 213
E + + S G GKGG + ++ ET +I IP VT+ T E + A
Sbjct: 1 TERVLVPSSLVGRIIGKGGSTIKEIREETGAKI-KIPDSGSGSEERIVTITGTPEAVEKA 59
>gnl|CDD|225931 COG3396, COG3396, Uncharacterized conserved protein [Function
unknown].
Length = 265
Score = 27.7 bits (62), Expect = 8.1
Identities = 18/63 (28%), Positives = 23/63 (36%), Gaps = 10/63 (15%)
Query: 55 ETLQALTDVKDKINLLTDFKTKM--D--------DAVTIVKLTEEMDSTDAGLLEEAASI 104
+ L L D + K N L + T D D I +L DS+ L A I
Sbjct: 82 DDLAYLRDGRHKRNSLFNLPTGDWADTIVRGFLVDGAAIYQLEALADSSYGPLARAAQKI 141
Query: 105 IKE 107
KE
Sbjct: 142 CKE 144
>gnl|CDD|153353 cd07669, BAR_SNX33, The Bin/Amphiphysin/Rvs (BAR) domain of
Sorting Nexin 33. BAR domains are dimerization, lipid
binding and curvature sensing modules found in many
different proteins with diverse functions. Sorting
nexins (SNXs) are Phox homology (PX) domain containing
proteins that are involved in regulating membrane
traffic and protein sorting in the endosomal system.
SNXs differ from each other in their lipid-binding
specificity, subcellular localization and specific
function in the endocytic pathway. A subset of SNXs
also contain BAR domains. The PX-BAR structural unit
determines the specific membrane targeting of SNXs.
SNX33 interacts with Wiskott-Aldrich syndrome protein
(WASP) and plays a role in the maintenance of cell
shape and cell cycle progression. It modulates the
shedding and endocytosis of cellular prion protein
(PrP(c)) and amyloid precursor protein (APP). BAR
domains form dimers that bind to membranes, induce
membrane bending and curvature, and may also be
involved in protein-protein interactions.
Length = 207
Score = 27.2 bits (60), Expect = 9.0
Identities = 10/24 (41%), Positives = 17/24 (70%)
Query: 58 QALTDVKDKINLLTDFKTKMDDAV 81
Q L DV++++++ F KMDD+V
Sbjct: 5 QDLQDVEERVDVFKAFSKKMDDSV 28
>gnl|CDD|221268 pfam11853, DUF3373, Protein of unknown function (DUF3373). This
family of proteins are functionally uncharacterized.
This protein is found in bacteria. Proteins in this
family are typically between 472 to 574 amino acids in
length.
Length = 485
Score = 27.5 bits (61), Expect = 9.1
Identities = 14/59 (23%), Positives = 28/59 (47%), Gaps = 7/59 (11%)
Query: 20 EIRASAGLQQLEKELAELEMKAADSSFWDNRAEAQETLQALTDVKDKINLLTDFKTKMD 78
+I ++ L+KELAEL+ + D ++ E + D++ DF+ ++D
Sbjct: 26 DIDLLQKIEALKKELAELKAQLKDLQKRVDKTEKK-------SAGDRLTFGGDFRFRVD 77
>gnl|CDD|147765 pfam05791, Bacillus_HBL, Bacillus haemolytic enterotoxin (HBL).
This family consists of several Bacillus haemolytic
enterotoxins (HblC, HblD, HblA, NheA, and NheB) which
can cause food poisoning in humans.
Length = 181
Score = 26.9 bits (60), Expect = 9.7
Identities = 13/38 (34%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 49 NRAEAQETLQALTDVKDKINL-LTDFKTKMDDAVTIVK 85
N+ E + L+ L D K+K+ FKT +D +I+K
Sbjct: 119 NQKEVDQLLEELKDFKNKLAKDTRSFKTDVDQLTSILK 156
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
0.311 0.128 0.341
Gapped
Lambda K H
0.267 0.0857 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,267,708
Number of extensions: 1477120
Number of successful extensions: 1678
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1645
Number of HSP's successfully gapped: 151
Length of query: 307
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 210
Effective length of database: 6,635,264
Effective search space: 1393405440
Effective search space used: 1393405440
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 59 (26.3 bits)