BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 004178
(770 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3HTX|A Chain A, Crystal Structure Of Small Rna Methyltransferase Hen1
pdb|3HTX|D Chain D, Crystal Structure Of Small Rna Methyltransferase Hen1
Length = 950
Score = 593 bits (1528), Expect = e-169, Method: Compositional matrix adjust.
Identities = 350/781 (44%), Positives = 462/781 (59%), Gaps = 46/781 (5%)
Query: 1 MRAATRLSEFVVTSEGQLSIWRKDPYPXXXXXXXXXXXXXXXXXXCIEAIHIPSSLEMAV 60
M+AA +L++++V S L RK+ YP + A++IP E V
Sbjct: 183 MKAAAKLADYIVASPHGLR--RKNAYPSEIVEALATHVSDSLHSREVAAVYIPCIDEEVV 240
Query: 61 HPVTLNVSSTGYYLDVIARNLDQTDGNKILVSRTIGKAS--SEMRLYFAAPKSYLLDLSS 118
TL +SS +YLD IA L DGN++++SR GKAS SE RLY PK YL D SS
Sbjct: 241 ELDTLYISSNRHYLDSIAERLGLKDGNQVMISRMFGKASCGSECRLYSEIPKKYL-DNSS 299
Query: 119 DLPNV--EEVVDFEGSLNPRASYLYGQDIYGDAILASIGYTRKSEGLFHEDITLQSYYRM 176
D E+ S N RASY+ GQDI+GDAILAS+GY KS+ L ++D+T+ S+YR+
Sbjct: 300 DASGTSNEDSSHIVKSRNARASYICGQDIHGDAILASVGYRWKSDDLDYDDVTVNSFYRI 359
Query: 177 LIHLTPSGVYKLSREAILTAELPMAFTTRTNWRGSFPREMLFMFCRQHWLSEPVFXXXXX 236
++P+G+YK+SR+A++ A+LP AFTT++NWRG PRE+L +FC QH L+EP+
Sbjct: 360 CCGMSPNGIYKISRQAVIAAQLPFAFTTKSNWRGPLPREILGLFCHQHRLAEPILSSSTA 419
Query: 237 XXXXXXXXXRFYEK------SAALESAETGKECTSGGGTAASDNVRCEVKIFSKSRDPIL 290
R ++K A E+ KE T G G RCEVKIF+KS+D +L
Sbjct: 420 PVKSLSDIFRSHKKLKVSGVDDANENLSRQKEDTPGLGHG----FRCEVKIFTKSQDLVL 475
Query: 291 ECSPKEFYKKQNESIENASLKVLSWLNAYFKDPDIPLEKLNNLVGALDIQCYPQNFFKKF 350
ECSP++FY+K+N++I+NASLK L W + +F D D+ E+ + D + N F
Sbjct: 476 ECSPRKFYEKENDAIQNASLKALLWFSKFFADLDVDGEQSCDTDDDQDTKSSSPNVFAAP 535
Query: 351 SSYRFIHNVQQRKM----GEKLLQANSINTLNAIPEHGIYCLSIG-GPD---SGIYPSNG 402
+ H+ + + EK +Q+ + ++ +I Y LS+ P+ G P
Sbjct: 536 PILQKEHSSESKNTNVLSAEKRVQSITNGSVVSI----CYSLSLAVDPEYSSDGESPRED 591
Query: 403 CLSFISYSVSLVIEGETMKXXXXXXXXXXXXMGTGAVIPQVEVVTAQMSVGQSACFCKEL 462
S E+ +GTG++ P +E QM+VG+ A F K
Sbjct: 592 NESNEEMESEYSANCESSVEPIESNEEIEFEVGTGSMNPHIESEVTQMTVGEYASF-KMT 650
Query: 463 PP---QELILAAADDSARTFSLLSSRACCLEYHITLLRVTEPPEDRMEQALFSPPLSKQR 519
PP + LILA D+ R SLLS R C L Y+I LL V P E+RME A F PPLSKQR
Sbjct: 651 PPDAAEALILAVGSDTVRIRSLLSERPC-LNYNILLLGVKGPSEERMEAAFFKPPLSKQR 709
Query: 520 VEYALQHIKESCATTLVXXXXXXXXXXXXXXXYPTALEKIVGVDISQKSLSRAAKIIHSK 579
VEYAL+HI+ES A+TLV YPT+L+ I+GVDIS K L+RAAK++H K
Sbjct: 710 VEYALKHIRESSASTLVDFGCGSGSLLDSLLDYPTSLQTIIGVDISPKGLARAAKMLHVK 769
Query: 580 LSKKLDAAVPCTDVKSAVLFDGSITVFDSRLHGFDIGTCLEVIEHMEEDEASQFGNIVLS 639
L+K+ +VKSA L+DGSI FDSRLH DIGTCLEVIEHMEED+A +FG VLS
Sbjct: 770 LNKE------ACNVKSATLYDGSILEFDSRLHDVDIGTCLEVIEHMEEDQACEFGEKVLS 823
Query: 640 SFRPRILIVSTPNYEYNAILQKSSSTIQEDDPDEKTQLQSCKFRNHDHKFEWTRDQFNCW 699
F P++LIVSTPNYE+N ILQ+S+ QE++ E Q KFRNHDHKFEWTR+QFN W
Sbjct: 824 LFHPKLLIVSTPNYEFNTILQRSTPETQEENNSEP---QLPKFRNHDHKFEWTREQFNQW 880
Query: 700 ATELAARHNYSVEFSGVGGSGDREPGFASQIAVFRSRTPPEEDDLLKDGDSAHHYKVIWE 759
A++L RHNYSVEFSGVGGSG+ EPGFASQIA+FR E+ S YKVIWE
Sbjct: 881 ASKLGKRHNYSVEFSGVGGSGEVEPGFASQIAIFRREASSVEN---VAESSMQPYKVIWE 937
Query: 760 W 760
W
Sbjct: 938 W 938
>pdb|3JWH|A Chain A, Crystal Structure Analysis Of The Methyltransferase Domain
Of Bacterial-Avhen1-C
pdb|3JWH|B Chain B, Crystal Structure Analysis Of The Methyltransferase Domain
Of Bacterial-Avhen1-C
Length = 217
Score = 112 bits (279), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 63/181 (34%), Positives = 93/181 (51%), Gaps = 23/181 (12%)
Query: 556 LEKIVGVDISQKSLSRAAKIIHSKLSKKLDAAVPCTDVKSAVLFDGSITVFDSRLHGFDI 615
E+I GVD+S +SL +I +L + +P + L G++T D R HG+D
Sbjct: 53 FEQITGVDVSYRSL----EIAQERLDR---LRLPRNQWERLQLIQGALTYQDKRFHGYDA 105
Query: 616 GTCLEVIEHMEEDEASQFGNIVLSSFRPRILIVSTPNYEYNAILQKSSSTIQEDDPDEKT 675
T +EVIEH++ F ++ +P+I+IV+TPN EYN
Sbjct: 106 ATVIEVIEHLDLSRLGAFERVLFEFAQPKIVIVTTPNIEYNVKF---------------A 150
Query: 676 QLQSCKFRNHDHKFEWTRDQFNCWATELAARHNYSVEFSGVGGSGDREPGFASQIAVFRS 735
L + K R+ DH+FEWTR QF WA ++ R Y+V+F + G D E G +Q+AVF
Sbjct: 151 NLPAGKLRHKDHRFEWTRSQFQNWANKITERFAYNVQFQPI-GEADPEVGSPTQMAVFIH 209
Query: 736 R 736
R
Sbjct: 210 R 210
>pdb|3JWJ|A Chain A, Crystal Structure Analysis Of The Methyltransferase Domain
Of Bacterial-Avhen1-Cn
pdb|3JWJ|B Chain B, Crystal Structure Analysis Of The Methyltransferase Domain
Of Bacterial-Avhen1-Cn
Length = 202
Score = 111 bits (277), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 63/181 (34%), Positives = 93/181 (51%), Gaps = 23/181 (12%)
Query: 556 LEKIVGVDISQKSLSRAAKIIHSKLSKKLDAAVPCTDVKSAVLFDGSITVFDSRLHGFDI 615
E+I GVD+S +SL +I +L + +P + L G++T D R HG+D
Sbjct: 43 FEQITGVDVSYRSL----EIAQERLDR---LRLPRNQWERLQLIQGALTYQDKRFHGYDA 95
Query: 616 GTCLEVIEHMEEDEASQFGNIVLSSFRPRILIVSTPNYEYNAILQKSSSTIQEDDPDEKT 675
T +EVIEH++ F ++ +P+I+IV+TPN EYN
Sbjct: 96 ATVIEVIEHLDLSRLGAFERVLFEFAQPKIVIVTTPNIEYNVKF---------------A 140
Query: 676 QLQSCKFRNHDHKFEWTRDQFNCWATELAARHNYSVEFSGVGGSGDREPGFASQIAVFRS 735
L + K R+ DH+FEWTR QF WA ++ R Y+V+F + G D E G +Q+AVF
Sbjct: 141 NLPAGKLRHKDHRFEWTRSQFQNWANKITERFAYNVQFQPI-GEADPEVGSPTQMAVFIH 199
Query: 736 R 736
R
Sbjct: 200 R 200
>pdb|3JWI|A Chain A, Crystal Structure Analysis Of The Methyltransferase Domain
Of Bacterial-Cthen1-Cn
pdb|3JWI|B Chain B, Crystal Structure Analysis Of The Methyltransferase Domain
Of Bacterial-Cthen1-Cn
Length = 207
Score = 108 bits (270), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 64/179 (35%), Positives = 90/179 (50%), Gaps = 23/179 (12%)
Query: 555 ALEKIVGVDISQKSLSRAAKIIHSKLSKKLDAAVPCTDVKSAVLFDGSITVFDSRLHGFD 614
+ E+I GVD+S L RA + K+D +P K LF S+ D R G+D
Sbjct: 50 SFEQITGVDVSYSVLERAKDRL------KIDR-LPEMQRKRISLFQSSLVYRDKRFSGYD 102
Query: 615 IGTCLEVIEHMEEDEASQFGNIVLSSFRPRILIVSTPNYEYNAILQKSSSTIQEDDPDEK 674
T +EVIEH++E+ F ++ RP+ +IVSTPN EYN Q
Sbjct: 103 AATVIEVIEHLDENRLQAFEKVLFEFTRPQTVIVSTPNKEYNFHYQ-------------- 148
Query: 675 TQLQSCKFRNHDHKFEWTRDQFNCWATELAARHNYSVEFSGVGGSGDREPGFASQIAVF 733
L R+ DH+FEWTR +F WA ++A ++ YSV F +G D E G +Q+ VF
Sbjct: 149 -NLFEGNLRHRDHRFEWTRKEFETWAVKVAEKYGYSVRFLQIGEIDD-EFGSPTQMGVF 205
>pdb|3JWG|A Chain A, Crystal Structure Analysis Of The Methyltransferase Domain
Of Bacterial-Cthen1-C
Length = 219
Score = 106 bits (264), Expect = 6e-23, Method: Compositional matrix adjust.
Identities = 63/179 (35%), Positives = 89/179 (49%), Gaps = 23/179 (12%)
Query: 555 ALEKIVGVDISQKSLSRAAKIIHSKLSKKLDAAVPCTDVKSAVLFDGSITVFDSRLHGFD 614
+ E+I GVD+S L RA + K+D +P K LF S+ D R G+D
Sbjct: 52 SFEQITGVDVSYSVLERAKDRL------KIDR-LPEMQRKRISLFQSSLVYRDKRFSGYD 104
Query: 615 IGTCLEVIEHMEEDEASQFGNIVLSSFRPRILIVSTPNYEYNAILQKSSSTIQEDDPDEK 674
T +EVIEH++E+ F ++ RP+ +IVSTPN EYN
Sbjct: 105 AATVIEVIEHLDENRLQAFEKVLFEFTRPQTVIVSTPNKEYNF---------------HY 149
Query: 675 TQLQSCKFRNHDHKFEWTRDQFNCWATELAARHNYSVEFSGVGGSGDREPGFASQIAVF 733
L R+ DH+FEWTR +F WA ++A ++ YSV F +G D E G +Q+ VF
Sbjct: 150 GNLFEGNLRHRDHRFEWTRKEFQTWAVKVAEKYGYSVRFLQIGEIDD-EFGSPTQMGVF 207
>pdb|3UQI|A Chain A, Crystallographic Structure Of Fkbp12 From Aedes Aegypti
pdb|2LPV|A Chain A, Solution Structure Of Fkbp12 From Aedes Aegypti
Length = 108
Score = 33.5 bits (75), Expect = 0.52, Method: Composition-based stats.
Identities = 20/73 (27%), Positives = 33/73 (45%), Gaps = 1/73 (1%)
Query: 384 GIYCLSIGGPDSGIYPSNGCLSFISYSVSLVIEGETMKXXXXXXXXXXXXMGTGAVIPQV 443
G+ +++ D YP G ++ + Y+ +L +G+ +G G VI
Sbjct: 2 GVQVVTLAAGDEATYPKAGQVAVVHYTGTLA-DGKVFDSSRTRGKPFRFTVGRGEVIRGW 60
Query: 444 EVVTAQMSVGQSA 456
+ AQMSVGQ A
Sbjct: 61 DEGVAQMSVGQRA 73
>pdb|2Y35|A Chain A, Crystal Structure Of Xrn1-Substrate Complex
Length = 1140
Score = 29.6 bits (65), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 23/37 (62%), Gaps = 4/37 (10%)
Query: 125 EVVDFEGSLNPRASYLYGQDIYGDAILASIGYTRKSE 161
+V+DF G N RA +++ QD++ +A +G+ R E
Sbjct: 955 DVIDFFGDSNDRAEFVFEQDVFPNA----VGHRRVEE 987
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.318 0.133 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,868,305
Number of Sequences: 62578
Number of extensions: 803912
Number of successful extensions: 1729
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1705
Number of HSP's gapped (non-prelim): 16
length of query: 770
length of database: 14,973,337
effective HSP length: 106
effective length of query: 664
effective length of database: 8,340,069
effective search space: 5537805816
effective search space used: 5537805816
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)