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= 023341
(283 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2BL5|A Chain A, Solution Structure Of The Kh-Qua2 Region Of The Xenopus
Star-Gsg Quaking Protein
Length = 140
Score = 134 bits (337), Expect = 6e-32, Method: Compositional matrix adjust.
Identities = 58/122 (47%), Positives = 92/122 (75%)
Query: 138 RLEIPVDTYPNFNFVGRLLGPRGNSLKRVEATTGCRVYIRGKGSIKDPDKEDKLRGRPGY 197
+L +PV YP+FNFVGR+LGPRG + K++EA TGC++ +RGKGS++D KE++ RG+P +
Sbjct: 5 KLYVPVKEYPDFNFVGRILGPRGLTAKQLEAETGCKIMVRGKGSMRDKKKEEQNRGKPNW 64
Query: 198 EHLNDPLHILIEADLPANIVDIRLRQAQEIIEELLKPVDESQDYIKRQQLRELAMLNSNF 257
EHLN+ LH+LI + N +++L++A E +++LL P E +D +K+ +L ELA+LN +
Sbjct: 65 EHLNEDLHVLITVEDAQNRAELKLKRAVEEVKKLLVPAAEGEDSLKKMKLMELAILNGTY 124
Query: 258 RE 259
R+
Sbjct: 125 RD 126
>pdb|1K1G|A Chain A, Structural Basis For Recognition Of The Intron Branch Site
Rna By Splicing Factor 1
Length = 131
Score = 87.0 bits (214), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 54/130 (41%), Positives = 76/130 (58%), Gaps = 16/130 (12%)
Query: 138 RLEIPVDTYPNFNFVGRLLGPRGNSLKRVEATTGCRVYIRGKGSIKDPDKEDKLRGRPGY 197
++ IP D YP NFVG L+GPRGN+LK +E ++ IRGKGS+ KE K+ GR
Sbjct: 10 KVMIPQDEYPEINFVGLLIGPRGNTLKNIEKECNAKIMIRGKGSV----KEGKV-GRKDG 64
Query: 198 EHL---NDPLHILIEADLPANIVDIRLRQAQEIIEELLK---PVDESQDYIKRQQLRELA 251
+ L ++PLH L+ A+ N+ ++A E I +LK E Q+ +++ QLRELA
Sbjct: 65 QMLPGEDEPLHALVTANTMENV-----KKAVEQIRNILKQGIETPEDQNDLRKMQLRELA 119
Query: 252 MLNSNFREDS 261
LN RED
Sbjct: 120 RLNGTLREDD 129
>pdb|2YQR|A Chain A, Solution Structure Of The Kh Domain In Kiaa0907 Protein
Length = 119
Score = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 45/91 (49%), Gaps = 15/91 (16%)
Query: 147 PNFNFVGRLLGPRGNSLKRVEATTGCRVYIRGKGS-IKDPDKEDKLRGRPGYEHLNDPLH 205
P FN ++ GP + L+ ++ TG +V++RGKGS +P GR +E P++
Sbjct: 25 PTFNVKEKVEGPGCSYLQHIQIETGAKVFLRGKGSGCIEPAS-----GREAFE----PMY 75
Query: 206 ILIEADLPANIVDIRLRQAQEIIEELLKPVD 236
I I P L A+++ E LL+ V
Sbjct: 76 IYISHPKPEG-----LAAAKKLCENLLQTVH 101
>pdb|1E3H|A Chain A, Semet Derivative Of Streptomyces Antibioticus PnpaseGPSI
Enzyme
Length = 757
Score = 32.0 bits (71), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 27/48 (56%), Gaps = 6/48 (12%)
Query: 135 RILRLEIPVDTYPNFNFVGRLLGPRGNSLKRVEATTGCRVYIRGKGSI 182
RI+ ++IPVD +G ++GP+ + +++ TG + I G+I
Sbjct: 598 RIITVKIPVDK------IGEVIGPKRQXINQIQEDTGAEITIEDDGTI 639
>pdb|1E3P|A Chain A, Tungstate Derivative Of Streptomyces Antibioticus Pnpase
Gpsi Enzyme
Length = 757
Score = 31.6 bits (70), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 27/48 (56%), Gaps = 6/48 (12%)
Query: 135 RILRLEIPVDTYPNFNFVGRLLGPRGNSLKRVEATTGCRVYIRGKGSI 182
RI+ ++IPVD +G ++GP+ + +++ TG + I G+I
Sbjct: 598 RIITVKIPVDK------IGEVIGPKRQMINQIQEDTGAEITIEDDGTI 639
>pdb|1DT4|A Chain A, Crystal Structure Of Nova-1 Kh3 K-Homology Rna-Binding
Domain
Length = 73
Score = 31.6 bits (70), Expect = 0.57, Method: Composition-based stats.
Identities = 14/31 (45%), Positives = 18/31 (58%)
Query: 150 NFVGRLLGPRGNSLKRVEATTGCRVYIRGKG 180
N VG +LG G +L + TGCR+ I KG
Sbjct: 12 NLVGAILGKGGKTLVEYQELTGCRIQISKKG 42
>pdb|1S3I|A Chain A, Crystal Structure Of The N Terminal Hydrolase Domain Of
10- Formyltetrahydrofolate Dehydrogenase
Length = 310
Score = 31.2 bits (69), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 20/32 (62%)
Query: 30 QYLSELLAEHQKLGPFTQVLPICSRLLTQEIF 61
Q L E++A++Q LG VLP CS+ + E+
Sbjct: 64 QALPEVVAKYQALGAELNVLPFCSQFIPMEVI 95
>pdb|2BW0|A Chain A, Crystal Structure Of The Hydrolase Domain Of Human 10-
Formyltetrahydrofolate 2 Dehydrogenase
pdb|2CFI|A Chain A, The Hydrolase Domain Of Human 10-Fthfd In Complex With 6-
Formyltetrahydropterin
Length = 329
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 20/32 (62%)
Query: 30 QYLSELLAEHQKLGPFTQVLPICSRLLTQEIF 61
Q L +++A++Q LG VLP CS+ + EI
Sbjct: 86 QALPDVVAKYQALGAELNVLPFCSQFIPMEII 117
>pdb|3UOR|A Chain A, The Structure Of The Sugar-Binding Protein Male From The
Phytopathogen Xanthomonas Citri
pdb|3UOR|B Chain B, The Structure Of The Sugar-Binding Protein Male From The
Phytopathogen Xanthomonas Citri
Length = 458
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 33/74 (44%), Gaps = 12/74 (16%)
Query: 61 FRVSGMMPNQGFGDFDRLRHRSPSPMASSNLMSNVAGTGLGG---------WNGLPQERL 111
FR +G GF +D + + +P S +SNV G WN + + +L
Sbjct: 218 FRGAGFRKALGF--YDNMYQQGWAPKVSETQVSNVWYEFFNGYYAFYLSGPWN-VREFKL 274
Query: 112 GGPPGMTMDWQSAP 125
PPGM +W +AP
Sbjct: 275 RQPPGMEGNWGTAP 288
>pdb|1DU5|A Chain A, The Crystal Structure Of Zeamatin.
pdb|1DU5|B Chain B, The Crystal Structure Of Zeamatin
Length = 206
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 154 RLLGPRGNSLKRVEATTGCRVYIRGKGSIKDPD 186
R+ P G + R+ A TGC+ G+GS + D
Sbjct: 33 RITAPAGTTAARIWARTGCKFDASGRGSCRTGD 65
>pdb|3DLS|A Chain A, Crystal Structure Of Human Pas Kinase Bound To Adp
pdb|3DLS|B Chain B, Crystal Structure Of Human Pas Kinase Bound To Adp
pdb|3DLS|C Chain C, Crystal Structure Of Human Pas Kinase Bound To Adp
pdb|3DLS|D Chain D, Crystal Structure Of Human Pas Kinase Bound To Adp
pdb|3DLS|E Chain E, Crystal Structure Of Human Pas Kinase Bound To Adp
pdb|3DLS|F Chain F, Crystal Structure Of Human Pas Kinase Bound To Adp
Length = 335
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 24/53 (45%)
Query: 30 QYLSELLAEHQKLGPFTQVLPICSRLLTQEIFRVSGMMPNQGFGDFDRLRHRS 82
+ L + E KLG T + I SR+ I +V + NQGF +H S
Sbjct: 61 KVLEDCWIEDPKLGKVTLEIAILSRVEHANIIKVLDIFENQGFFQLVMEKHGS 113
>pdb|2I76|A Chain A, Crystal Structure Of Protein Tm1727 From Thermotoga
Maritima
pdb|2I76|B Chain B, Crystal Structure Of Protein Tm1727 From Thermotoga
Maritima
Length = 276
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 32/64 (50%), Gaps = 6/64 (9%)
Query: 17 PQIRSTPDINIDSQYLSELLAEHQKLGPFTQVLPICSRLLTQEIFRVSG---MMPNQGFG 73
P++ + + +Y+ + +A H LG VL CS L+ EIF+ SG + PN F
Sbjct: 56 PELNGVVFVIVPDRYI-KTVANHLNLGD--AVLVHCSGFLSSEIFKKSGRASIHPNFSFS 112
Query: 74 DFDR 77
++
Sbjct: 113 SLEK 116
>pdb|1GL9|B Chain B, Archaeoglobus Fulgidus Reverse Gyrase Complexed With Adpnp
pdb|1GL9|C Chain C, Archaeoglobus Fulgidus Reverse Gyrase Complexed With Adpnp
Length = 1054
Score = 27.3 bits (59), Expect = 9.5, Method: Composition-based stats.
Identities = 18/59 (30%), Positives = 33/59 (55%), Gaps = 2/59 (3%)
Query: 214 ANIVDIRLRQAQEI-IEELLKPVDESQDYIKRQQLRELAMLNSNFREDSPGPSGSVSPF 271
A + DI + E+ E+L + +DES+D +R+Q +L + + F +SP + +S F
Sbjct: 466 AKLYDIEFKSIDEVDFEKLSRELDESRDRYRRRQEFDL-IKPALFIVESPTKARQISRF 523
>pdb|1GKU|B Chain B, Reverse Gyrase From Archaeoglobus Fulgidus
Length = 1054
Score = 27.3 bits (59), Expect = 9.7, Method: Composition-based stats.
Identities = 18/59 (30%), Positives = 33/59 (55%), Gaps = 2/59 (3%)
Query: 214 ANIVDIRLRQAQEI-IEELLKPVDESQDYIKRQQLRELAMLNSNFREDSPGPSGSVSPF 271
A + DI + E+ E+L + +DES+D +R+Q +L + + F +SP + +S F
Sbjct: 466 AKLYDIEFKSIDEVDFEKLSRELDESRDRYRRRQEFDL-IKPALFIVESPTKARQISRF 523
>pdb|1ZTG|A Chain A, Human Alpha Polyc Binding Protein Kh1
pdb|1ZTG|B Chain B, Human Alpha Polyc Binding Protein Kh1
pdb|1ZTG|C Chain C, Human Alpha Polyc Binding Protein Kh1
pdb|1ZTG|D Chain D, Human Alpha Polyc Binding Protein Kh1
Length = 74
Score = 27.3 bits (59), Expect = 9.9, Method: Composition-based stats.
Identities = 10/25 (40%), Positives = 17/25 (68%)
Query: 152 VGRLLGPRGNSLKRVEATTGCRVYI 176
VG ++G +G S+KR+ +G R+ I
Sbjct: 14 VGSIIGKKGESVKRIREESGARINI 38
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
0.316 0.136 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,281,566
Number of Sequences: 62578
Number of extensions: 411224
Number of successful extensions: 828
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 815
Number of HSP's gapped (non-prelim): 20
length of query: 283
length of database: 14,973,337
effective HSP length: 98
effective length of query: 185
effective length of database: 8,840,693
effective search space: 1635528205
effective search space used: 1635528205
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)