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= 022661
(294 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 = 120 bits (302), Expect = 7e-28, Method: Compositional matrix adjust.
Identities = 62/123 (50%), Positives = 86/123 (69%), Gaps = 1/123 (0%)
Query: 144 RLDVPVDKYPNQFNFVGRILGPRGNSLKRVEAMTECRVFIRGRGSVKDSIKEEKLKDKPG 203
+L VPV +YP+ FNFVGRILGPRG + K++EA T C++ +RG+GS++D KEE+ + KP
Sbjct: 5 KLYVPVKEYPD-FNFVGRILGPRGLTAKQLEAETGCKIMVRGKGSMRDKKKEEQNRGKPN 63
Query: 204 YEHLNEPLHVLVEAEFPEDIINSRLDHAVAILENLLKPVDESLDHYKKQQLRELAMLNGT 263
+EHLNE LHVL+ E ++ +L AV ++ LL P E D KK +L ELA+LNGT
Sbjct: 64 WEHLNEDLHVLITVEDAQNRAELKLKRAVEEVKKLLVPAAEGEDSLKKMKLMELAILNGT 123
Query: 264 LRE 266
R+
Sbjct: 124 YRD 126
>pdb|1K1G|A Chain A, Structural Basis For Recognition Of The Intron Branch Site
Rna By Splicing Factor 1
Length = 131
Score = 85.1 bits (209), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 57/139 (41%), Positives = 79/139 (56%), Gaps = 14/139 (10%)
Query: 132 GIPTTPVVKRVIRLDVPVDKYPNQFNFVGRILGPRGNSLKRVEAMTECRVFIRGRGSVKD 191
G T V +V+ +P D+YP + NFVG ++GPRGN+LK +E ++ IRG+GSVK+
Sbjct: 1 GAMATRVSDKVM---IPQDEYP-EINFVGLLIGPRGNTLKNIEKECNAKIMIRGKGSVKE 56
Query: 192 SIKEEKLKDKPGYEHLNEPLHVLVEAEFPEDIINSRLDHAVAILENLLK---PVDESLDH 248
+ KD +EPLH LV A E++ AV + N+LK E +
Sbjct: 57 G--KVGRKDGQMLPGEDEPLHALVTANTMENV-----KKAVEQIRNILKQGIETPEDQND 109
Query: 249 YKKQQLRELAMLNGTLREE 267
+K QLRELA LNGTLRE+
Sbjct: 110 LRKMQLRELARLNGTLRED 128
>pdb|2YQR|A Chain A, Solution Structure Of The Kh Domain In Kiaa0907 Protein
Length = 119
Score = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 26/109 (23%), Positives = 50/109 (45%), Gaps = 13/109 (11%)
Query: 144 RLDVPVDKYPNQFNFVGRILGPRGNSLKRVEAMTECRVFIRGRGSVKDSIKEEKLKDKPG 203
+L V ++ FN ++ GP + L+ ++ T +VF+RG+GS ++ G
Sbjct: 15 KLFVGLEHAVPTFNVKEKVEGPGCSYLQHIQIETGAKVFLRGKGS-------GCIEPASG 67
Query: 204 YEHLNEPLHVLVEAEFPEDIINSRLDHAVAILENLLKPVDESLDHYKKQ 252
E EP+++ + PE + ++ + ENLL+ V + Q
Sbjct: 68 REAF-EPMYIYISHPKPEGLAAAK-----KLCENLLQTVHAEYSRFVNQ 110
>pdb|1S3I|A Chain A, Crystal Structure Of The N Terminal Hydrolase Domain Of
10- Formyltetrahydrofolate Dehydrogenase
Length = 310
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 21/33 (63%)
Query: 32 RERYLAELLAERQKLGPFVQVLPLCSRLLSQEI 64
R + L E++A+ Q LG + VLP CS+ + E+
Sbjct: 62 RGQALPEVVAKYQALGAELNVLPFCSQFIPMEV 94
>pdb|1DT4|A Chain A, Crystal Structure Of Nova-1 Kh3 K-Homology Rna-Binding
Domain
Length = 73
Score = 30.0 bits (66), Expect = 1.6, Method: Composition-based stats.
Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 7/60 (11%)
Query: 139 VKRVIRLDVPVDKYPNQFNFVGRILGPRGNSLKRVEAMTECRVFIRGRGSVKDSIKEEKL 198
+K V+ + VP N VG ILG G +L + +T CR+ I +G + K+
Sbjct: 1 MKDVVEIAVPE-------NLVGAILGKGGKTLVEYQELTGCRIQISKKGEFLPGTRNRKV 53
>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 = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 21/33 (63%)
Query: 32 RERYLAELLAERQKLGPFVQVLPLCSRLLSQEI 64
+ + L +++A+ Q LG + VLP CS+ + EI
Sbjct: 84 KGQALPDVVAKYQALGAELNVLPFCSQFIPMEI 116
>pdb|2DGR|A Chain A, Solution Structure Of The Second Kh Domain In Ring Finger
And Kh Domain Containing Protein 1
Length = 83
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 10/31 (32%), Positives = 19/31 (61%)
Query: 156 FNFVGRILGPRGNSLKRVEAMTECRVFIRGR 186
+ VG ++GP+G ++KR++ T + GR
Sbjct: 18 YRVVGLVVGPKGATIKRIQQRTHTYIVTPGR 48
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 0.138 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,876,649
Number of Sequences: 62578
Number of extensions: 364336
Number of successful extensions: 906
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 896
Number of HSP's gapped (non-prelim): 10
length of query: 294
length of database: 14,973,337
effective HSP length: 98
effective length of query: 196
effective length of database: 8,840,693
effective search space: 1732775828
effective search space used: 1732775828
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: 51 (24.3 bits)