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= 037095
(334 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3Q90|A Chain A, Crystal Structure Of The Ntf2 Domain Of Ras
Gtpase-Activating Protein- Binding Protein 1
pdb|3Q90|B Chain B, Crystal Structure Of The Ntf2 Domain Of Ras
Gtpase-Activating Protein- Binding Protein 1
Length = 140
Score = 87.8 bits (216), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 50/131 (38%), Positives = 77/131 (58%), Gaps = 6/131 (4%)
Query: 12 SPQVVGNAFVEQYYCILHQNPDVVHRFYQESSMVSRP--DQSGS-MTSVTTIKEINDMIV 68
SP +VG FV QYY +L+Q PD++HRFY ++S D +G +V KEI+ ++
Sbjct: 8 SPLLVGREFVRQYYTLLNQAPDMLHRFYGKNSSYVHGGLDSNGKPADAVYGQKEIHRKVM 67
Query: 69 SLDYQNYNVQIFSADAQASYDNGLTVLVTGCLIGKDNVRRKFTQSFFLAPQD---KGYFV 125
S ++ N + +I DA A+ ++G+ V V G L + R+F Q+F LAP+ ++V
Sbjct: 68 SQNFTNCHTKIRHVDAHATLNDGVVVQVMGLLSNNNQALRRFMQTFVLAPEGSVANKFYV 127
Query: 126 LNDILRYVDEI 136
NDI RY DE+
Sbjct: 128 HNDIFRYQDEV 138
>pdb|3UJM|A Chain A, Crystal Structure Of The Ntf2-Like Domain Of The
Drosophila Melanogaster Rasputin Protein
pdb|3UJM|B Chain B, Crystal Structure Of The Ntf2-Like Domain Of The
Drosophila Melanogaster Rasputin Protein
Length = 120
Score = 80.9 bits (198), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 48/118 (40%), Positives = 67/118 (56%), Gaps = 5/118 (4%)
Query: 16 VGNAFVEQYYCILHQNPDVVHRFYQESSMVSRPDQSGSMTSVTTIKEINDMIVSLDYQNY 75
VG FV QYY +L++ P+ +HRFY +S G V +EI++ I L++ +
Sbjct: 6 VGREFVRQYYTLLNKAPNHLHRFYNHNSSYIH----GESKLVVGQREIHNRIQQLNFNDC 61
Query: 76 NVQIFSADAQASYDNGLTVLVTGCLIGKDNVRRKFTQSFFLAPQD-KGYFVLNDILRY 132
+ +I DAQA+ NG+ V VTG L R+FTQ+F LA Q K Y+V NDI RY
Sbjct: 62 HAKISQVDAQATLGNGVVVQVTGELSNDGQPMRRFTQTFVLAAQSPKKYYVHNDIFRY 119
>pdb|1ZO2|A Chain A, Structure Of Nuclear Transport Factor 2 (Ntf2) From
Cryptosporidium Parvum
pdb|1ZO2|B Chain B, Structure Of Nuclear Transport Factor 2 (Ntf2) From
Cryptosporidium Parvum
Length = 129
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 41/130 (31%), Positives = 58/130 (44%), Gaps = 8/130 (6%)
Query: 5 ADSSSALSPQV--VGNAFVEQYYCILHQNPDVVHRFYQESSMVSRPDQSGSMTSVTTIKE 62
D S L+PQ +G FV+ YY N + Y SM++ D T
Sbjct: 1 MDQSINLNPQFDQIGKQFVQHYYQTFQTNRPALGGLYGPQSMLTWED-----TQFQGQAN 55
Query: 63 INDMIVSLDYQNYNVQIFSADAQASYDNGLTVLVTGCLIGKDNVRRKFTQSFFLAPQ-DK 121
I + SL++Q +I D Q S +NG V VTG + D KF+Q F L P +
Sbjct: 56 IVNKFNSLNFQRVQFEITRVDCQPSPNNGSIVFVTGDVRIDDGQPLKFSQVFNLMPSGNG 115
Query: 122 GYFVLNDILR 131
G+ + ND+ R
Sbjct: 116 GFMIFNDLFR 125
>pdb|1GY7|A Chain A, N77y Point Mutant Of S.Cerevisiae Ntf2
pdb|1GY7|B Chain B, N77y Point Mutant Of S.Cerevisiae Ntf2
pdb|1GY7|C Chain C, N77y Point Mutant Of S.Cerevisiae Ntf2
pdb|1GY7|D Chain D, N77y Point Mutant Of S.Cerevisiae Ntf2
pdb|1GYB|A Chain A, N77y Point Mutant Of Yntf2 Bound To Fxfg Nucleoporin
Repeat
pdb|1GYB|B Chain B, N77y Point Mutant Of Yntf2 Bound To Fxfg Nucleoporin
Repeat
pdb|1GYB|C Chain C, N77y Point Mutant Of Yntf2 Bound To Fxfg Nucleoporin
Repeat
pdb|1GYB|D Chain D, N77y Point Mutant Of Yntf2 Bound To Fxfg Nucleoporin
Repeat
Length = 125
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 35/124 (28%), Positives = 60/124 (48%), Gaps = 7/124 (5%)
Query: 10 ALSPQVVGNAFVEQYYCILHQNPDVVHRFYQESSMVSRPDQSGSMTSVTTIKEINDMIVS 69
+L + F + YY + + Y+ SM++ + + K+I + +VS
Sbjct: 2 SLDFNTLAQNFTQFYYNQFDTDRSQLGNLYRNESMLT-----FETSQLQGAKDIVEKLVS 56
Query: 70 LDYQNYNVQIFSADAQ-ASYDNGLTVLVTG-CLIGKDNVRRKFTQSFFLAPQDKGYFVLN 127
L +Q +I + DAQ AS + V++TG LI ++ ++F+Q F L P Y+V N
Sbjct: 57 LPFQKVQHRITTLDAQPASPYGDVLVMITGDLLIDEEQNPQRFSQVFHLIPDGNSYYVFN 116
Query: 128 DILR 131
DI R
Sbjct: 117 DIFR 120
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 37.4 bits (85), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 16/27 (59%), Positives = 20/27 (74%)
Query: 297 HSIFVGNLPDSATVDQLKLIFEQFGPV 323
S+FVGN+P AT +QLK IF + GPV
Sbjct: 9 RSVFVGNIPYEATEEQLKDIFSEVGPV 35
>pdb|3NV0|B Chain B, Crystal Structure And Mutational Analysis Of The Nxf2NXT1
Heterodimeric Complex From Caenorhabditis Elegans At
1.84 A Resolution
Length = 154
Score = 34.7 bits (78), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 29/118 (24%), Positives = 52/118 (44%), Gaps = 6/118 (5%)
Query: 20 FVEQYYCILHQNPDVVHRFYQESSMVSRPDQSGS-MTSVTTIKEINDMIVSL--DYQNYN 76
F++ YY ++ + + + Y + VS +G+ + +I E + S D Q+ +
Sbjct: 40 FMDVYYDVMDRKREKIGFLYTQ---VSNAVWNGNPINGYDSICEFMKALPSTQHDIQSLD 96
Query: 77 VQIFSADAQASYDNGLTVLVTGCLIGKDNVRRKFTQSFFLAPQDKGYFVLNDILRYVD 134
Q G+ + V G + + +R FTQ+ L +D Y V +D RYVD
Sbjct: 97 AQRLPEGVTGDMSGGMLLNVAGAVTVDGDSKRAFTQTLLLGVEDGKYKVKSDRFRYVD 154
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 32.7 bits (73), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 297 HSIFVGNLPDSATVDQLKLIFEQFGPVK 324
H +F+G LP+ DQ+K + FGP+K
Sbjct: 2 HKLFIGGLPNYLNDDQVKELLTSFGPLK 29
>pdb|2YH0|A Chain A, Solution Structure Of The Closed Conformation Of Human
U2af65 Tandem Rrm1 And Rrm2 Domains
pdb|2YH1|A Chain A, Model Of Human U2af65 Tandem Rrm1 And Rrm2 Domains With
Eight-Site Uridine Binding
Length = 198
Score = 32.3 bits (72), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 297 HSIFVGNLPDSATVDQLKLIFEQFGPVK 324
H +F+G LP+ DQ+K + FGP+K
Sbjct: 115 HKLFIGGLPNYLNDDQVKELLTSFGPLK 142
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 32.3 bits (72), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 297 HSIFVGNLPDSATVDQLKLIFEQFGPVK 324
H +F+G LP+ DQ+K + FGP+K
Sbjct: 95 HKLFIGGLPNYLNDDQVKELLTSFGPLK 122
>pdb|3VAF|A Chain A, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAF|B Chain B, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAG|A Chain A, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAG|B Chain B, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAH|A Chain A, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAH|B Chain B, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAI|A Chain A, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAI|B Chain B, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAJ|A Chain A, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAJ|B Chain B, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAK|A Chain A, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAK|B Chain B, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAL|A Chain A, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|B Chain B, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|D Chain D, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|I Chain I, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAM|A Chain A, Structure Of U2af65 Variant With Bru5c2 Dna
pdb|3VAM|B Chain B, Structure Of U2af65 Variant With Bru5c2 Dna
Length = 174
Score = 32.3 bits (72), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 297 HSIFVGNLPDSATVDQLKLIFEQFGPVK 324
H +F+G LP+ DQ+K + FGP+K
Sbjct: 97 HKLFIGGLPNYLNDDQVKELLTSFGPLK 124
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 32.0 bits (71), Expect = 0.52, Method: Composition-based stats.
Identities = 12/25 (48%), Positives = 19/25 (76%)
Query: 299 IFVGNLPDSATVDQLKLIFEQFGPV 323
+F+GNLP AT +++ +FEQ+G V
Sbjct: 11 LFIGNLPREATEQEIRSLFEQYGKV 35
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 32.0 bits (71), Expect = 0.55, Method: Composition-based stats.
Identities = 15/26 (57%), Positives = 20/26 (76%)
Query: 298 SIFVGNLPDSATVDQLKLIFEQFGPV 323
+I+VGNL SAT +Q+K +F QFG V
Sbjct: 3 NIYVGNLVYSATSEQVKELFSQFGKV 28
>pdb|2QIY|A Chain A, Yeast Deubiquitinase Ubp3 And Bre5 Cofactor Complex
pdb|2QIY|B Chain B, Yeast Deubiquitinase Ubp3 And Bre5 Cofactor Complex
Length = 154
Score = 31.6 bits (70), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 30/143 (20%), Positives = 63/143 (44%), Gaps = 16/143 (11%)
Query: 7 SSSALSPQVVGNAFVEQYYCILHQNPDVVHRFYQESSMVSRPDQSGSMTS---------- 56
+S ++ Q + AF++ YY + +P + FY ++ ++ + T+
Sbjct: 5 ASMGVTVQDICFAFLQNYYERMRTDPSKLAYFYASTAELTHTNYQSKSTNEKDDVLPTVK 64
Query: 57 VTTIKEINDMIVSLD--YQNYNVQIFSADAQAS--YDNGLTVLVTGCLIGKDNVRRKFTQ 112
VT + IN D ++ +++ + D Q + + ++ TG + KF Q
Sbjct: 65 VTGRENINKFFSRNDAKVRSLKLKLDTIDFQYTGHLHKSILIMATGEMFWTGTPVYKFCQ 124
Query: 113 SFFLAPQDKG--YFVLNDILRYV 133
+F L P G + + NDI+R++
Sbjct: 125 TFILLPSSNGSTFDITNDIIRFI 147
>pdb|1ZX2|A Chain A, Crystal Structure Of Yeast Ubp3-Associated Protein Bre5
pdb|1ZX2|B Chain B, Crystal Structure Of Yeast Ubp3-Associated Protein Bre5
Length = 147
Score = 31.2 bits (69), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 30/142 (21%), Positives = 62/142 (43%), Gaps = 16/142 (11%)
Query: 8 SSALSPQVVGNAFVEQYYCILHQNPDVVHRFYQESSMVSRPDQSGSMTS----------V 57
S ++ Q + AF++ YY + +P + FY ++ ++ + T+ V
Sbjct: 1 SMGVTVQDICFAFLQNYYERMRTDPSKLAYFYASTAELTHTNYQSKSTNEKDDVLPTVKV 60
Query: 58 TTIKEINDMIVSLD--YQNYNVQIFSADAQAS--YDNGLTVLVTGCLIGKDNVRRKFTQS 113
T + IN D ++ +++ + D Q + + ++ TG + KF Q+
Sbjct: 61 TGRENINKFFSRNDAKVRSLKLKLDTIDFQYTGHLHKSILIMATGEMFWTGTPVYKFCQT 120
Query: 114 FFLAPQDKG--YFVLNDILRYV 133
F L P G + + NDI+R++
Sbjct: 121 FILLPSSNGSTFDITNDIIRFI 142
>pdb|1JB4|A Chain A, Crystal Structure Of Ntf2 M102e Mutant
pdb|1JB4|B Chain B, Crystal Structure Of Ntf2 M102e Mutant
Length = 127
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 25/116 (21%), Positives = 49/116 (42%), Gaps = 5/116 (4%)
Query: 16 VGNAFVEQYYCILHQNPDVVHRFYQESSMVSRPDQSGSMTSVTTIKEINDMIVSLDYQNY 75
+G++F+ YY + + + Y ++S ++ Q + K + SL +Q
Sbjct: 10 IGSSFINHYYQLFDNDRTQLGAIYIDASCLTWEGQQFQGKAAIVEK-----LSSLPFQKI 64
Query: 76 NVQIFSADAQASYDNGLTVLVTGCLIGKDNVRRKFTQSFFLAPQDKGYFVLNDILR 131
I + D Q + D+ + +V G L ++ F Q F L + + ND+ R
Sbjct: 65 QHSITAQDHQPTPDSCIISMVVGQLKADEDPIMGFHQEFLLKNINDAWVCTNDMFR 120
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 22/39 (56%)
Query: 285 SLERNNDHAAKGHSIFVGNLPDSATVDQLKLIFEQFGPV 323
S R + K +++V NLP + T DQL IF ++G +
Sbjct: 78 SYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSI 116
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 30.0 bits (66), Expect = 1.7, Method: Composition-based stats.
Identities = 14/25 (56%), Positives = 17/25 (68%)
Query: 299 IFVGNLPDSATVDQLKLIFEQFGPV 323
IFVG L + TV+ +K FEQFG V
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKV 26
>pdb|3SXL|A Chain A, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|B Chain B, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|C Chain C, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
Length = 184
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 22/39 (56%)
Query: 285 SLERNNDHAAKGHSIFVGNLPDSATVDQLKLIFEQFGPV 323
S R + K +++V NLP + T DQL IF ++G +
Sbjct: 89 SYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSI 127
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 299 IFVGNLPDSATVDQLKLIFEQFG 321
+FVGNLP T + K +FE++G
Sbjct: 25 LFVGNLPTDITEEDFKRLFERYG 47
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 18/23 (78%)
Query: 299 IFVGNLPDSATVDQLKLIFEQFG 321
+FVGNLP T ++++ +FE++G
Sbjct: 25 LFVGNLPPDITEEEMRKLFEKYG 47
>pdb|1SXL|A Chain A, Resonance Assignments And Solution Structure Of The Second
Rna-Binding Domain Of Sex-Lethal Determined By
Multidimensional Heteronuclear Magnetic Resonance
Spectroscopy
Length = 97
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 22/39 (56%)
Query: 285 SLERNNDHAAKGHSIFVGNLPDSATVDQLKLIFEQFGPV 323
S R + K +++V NLP + T DQL IF ++G +
Sbjct: 2 SYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSI 40
>pdb|2CPJ|A Chain A, Solution Structure Of The N-Terminal Rna Recognition Motif
Of Nono
pdb|2RS8|A Chain A, Solution Structure Of The N-Terminal Rna Recognition Motif
Of Nono
Length = 99
Score = 29.6 bits (65), Expect = 2.4, Method: Composition-based stats.
Identities = 10/23 (43%), Positives = 18/23 (78%)
Query: 299 IFVGNLPDSATVDQLKLIFEQFG 321
+FVGNLP T ++++ +FE++G
Sbjct: 18 LFVGNLPPDITEEEMRKLFEKYG 40
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
0.311 0.127 0.354
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,622,979
Number of Sequences: 62578
Number of extensions: 384035
Number of successful extensions: 937
Number of sequences better than 100.0: 31
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 904
Number of HSP's gapped (non-prelim): 34
length of query: 334
length of database: 14,973,337
effective HSP length: 99
effective length of query: 235
effective length of database: 8,778,115
effective search space: 2062857025
effective search space used: 2062857025
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 52 (24.6 bits)