Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
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.
Query= Dr_sW_008_N07
(333 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|Q99JX7|NXF1_MOUSE Nuclear RNA export factor 1 (Tip-assoc... 33 0.27
sp|O26780|ECR1_METTH Probable exosome complex RNA-binding p... 32 0.60
sp|O09105|NDF4_MOUSE Neurogenic differentiation factor 4 (N... 30 1.3
sp|Q05025|G3P_COTJA Glyceraldehyde-3-phosphate dehydrogenas... 28 5.1
sp|P75441|Y337_MYCPN Hypothetical protein MG241 homolog (F1... 28 5.1
sp|P00356|G3P_CHICK Glyceraldehyde-3-phosphate dehydrogenas... 28 5.1
sp|O57479|G3P_COLLI Glyceraldehyde-3-phosphate dehydrogenas... 28 5.1
sp|O05975|Y785_RICPR Hypothetical protein RP785 precursor 28 6.6
sp|P80534|G3P1_JACOR Glyceraldehyde-3-phosphate dehydrogena... 28 6.6
>sp|Q99JX7|NXF1_MOUSE Nuclear RNA export factor 1 (Tip-associating protein)
(Tip-associated protein) (mRNA export factor TAP)
Length = 618
Score = 32.7 bits (73), Expect = 0.27
Identities = 23/85 (27%), Positives = 40/85 (47%), Gaps = 3/85 (3%)
Frame = +3
Query: 36 ILDAIMNSVAGPFNMYSDYHTEYNKS---IKSGTTSSCALGNLHSVNKISHNNTSTITAA 206
+L I + + PFN ++H E ++ ++ TT+S G H + + S I A
Sbjct: 134 LLSMIQSKCSVPFNPI-EFHYENTRAHFFVEDATTASALKGVNHKIQDRENRRISIIINA 192
Query: 207 ATYDSYSKYQIDMQLSPHQLDRLKL 281
S Y + +L P Q+++LKL
Sbjct: 193 ----SAPPYTVQNELKPEQIEQLKL 213
>sp|O26780|ECR1_METTH Probable exosome complex RNA-binding protein 1
Length = 311
Score = 31.6 bits (70), Expect = 0.60
Identities = 15/42 (35%), Positives = 25/42 (59%)
Frame = -3
Query: 148 PKAQDEVVPDFIDLLYSVW*SEYILNGPATEFMMASKIFKKD 23
PK D V+ + D+ +S+W + +N P T + AS++F KD
Sbjct: 60 PKRGDVVIGEITDIRFSMWGLD--INSPYTGLLPASEVFGKD 99
>sp|O09105|NDF4_MOUSE Neurogenic differentiation factor 4 (NeuroD4) (Atonal protein
homolog 3) (Helix-loop-helix protein mATH-3) (MATH3)
Length = 330
Score = 30.4 bits (67), Expect = 1.3
Identities = 19/69 (27%), Positives = 35/69 (50%), Gaps = 3/69 (4%)
Frame = +3
Query: 57 SVAGPFNMYSDYHTEYNKS---IKSGTTSSCALGNLHSVNKISHNNTSTITAAATYDSYS 227
S++G F++ D + KS + T++S + G++HS + + +YDSYS
Sbjct: 257 SISGNFSLKQDGSPDLEKSYNFMPHYTSASLSSGHVHSTPFQTGTPRYDVPVDLSYDSYS 316
Query: 228 KYQIDMQLS 254
+ I QL+
Sbjct: 317 HHSIGTQLN 325
>sp|Q05025|G3P_COTJA Glyceraldehyde-3-phosphate dehydrogenase (GAPDH)
Length = 333
Score = 28.5 bits (62), Expect = 5.1
Identities = 14/52 (26%), Positives = 24/52 (46%)
Frame = +3
Query: 57 SVAGPFNMYSDYHTEYNKSIKSGTTSSCALGNLHSVNKISHNNTSTITAAAT 212
S P + H +Y+KS+K + +SC L + K+ H+N + T
Sbjct: 123 SADAPMFVMGVNHEKYDKSLKIVSNASCTTNCLAPLAKVIHDNFGIVEGLMT 174
>sp|P75441|Y337_MYCPN Hypothetical protein MG241 homolog (F10_orf621)
Length = 621
Score = 28.5 bits (62), Expect = 5.1
Identities = 18/62 (29%), Positives = 34/62 (54%), Gaps = 3/62 (4%)
Frame = +3
Query: 99 EYNKSIKSGTTSSCAL--GNLHSVNKISHNNTSTITAAATYDS-YSKYQIDMQLSPHQLD 269
+Y+K + T+ +L NL+S+N++ + + TA+ YD Y+K + MQL +D
Sbjct: 466 DYSKIFEQNRTNDPSLLRSNLNSINRLRYLSEYFRTASVKYDQLYTKVKEYMQLDQFLVD 525
Query: 270 RL 275
+
Sbjct: 526 MI 527
>sp|P00356|G3P_CHICK Glyceraldehyde-3-phosphate dehydrogenase (GAPDH)
Length = 333
Score = 28.5 bits (62), Expect = 5.1
Identities = 14/52 (26%), Positives = 24/52 (46%)
Frame = +3
Query: 57 SVAGPFNMYSDYHTEYNKSIKSGTTSSCALGNLHSVNKISHNNTSTITAAAT 212
S P + H +Y+KS+K + +SC L + K+ H+N + T
Sbjct: 123 SADAPMFVMGVNHEKYDKSLKIVSNASCTTNCLAPLAKVIHDNFGIVEGLMT 174
>sp|O57479|G3P_COLLI Glyceraldehyde-3-phosphate dehydrogenase (GAPDH)
Length = 333
Score = 28.5 bits (62), Expect = 5.1
Identities = 14/52 (26%), Positives = 24/52 (46%)
Frame = +3
Query: 57 SVAGPFNMYSDYHTEYNKSIKSGTTSSCALGNLHSVNKISHNNTSTITAAAT 212
S P + H +Y+KS+K + +SC L + K+ H+N + T
Sbjct: 123 SADAPMFVMGVNHEKYDKSLKIVSNASCTTNCLAPLAKVIHDNFGIVEGLMT 174
>sp|O05975|Y785_RICPR Hypothetical protein RP785 precursor
Length = 1169
Score = 28.1 bits (61), Expect = 6.6
Identities = 9/25 (36%), Positives = 16/25 (64%)
Frame = +3
Query: 15 PNQSFLNILDAIMNSVAGPFNMYSD 89
PN F+ +L +I+N++ FN + D
Sbjct: 277 PNSEFIKVLQSILNAIGEVFNFFPD 301
>sp|P80534|G3P1_JACOR Glyceraldehyde-3-phosphate dehydrogenase, muscle (GAPDH)
Length = 363
Score = 28.1 bits (61), Expect = 6.6
Identities = 12/40 (30%), Positives = 21/40 (52%)
Frame = +3
Query: 93 HTEYNKSIKSGTTSSCALGNLHSVNKISHNNTSTITAAAT 212
H +Y+KS+K + +SC L + K+ H+N + T
Sbjct: 165 HEKYDKSLKIVSNASCTTNCLAPLAKVIHDNFGIVEGLMT 204
Database: Non-redundant SwissProt sequences
Posted date: Dec 6, 2005 7:40 AM
Number of letters in database: 68,354,980
Number of sequences in database: 184,735
Database: swissprot.01
Posted date: Dec 6, 2005 8:18 AM
Number of letters in database: 66,202,850
Number of sequences in database: 184,431
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 34,803,241
Number of Sequences: 369166
Number of extensions: 554438
Number of successful extensions: 1380
Number of sequences better than 10.0: 9
Number of HSP's better than 10.0 without gapping: 1364
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 1380
length of database: 68,354,980
effective HSP length: 78
effective length of database: 53,945,650
effective search space used: 1726260800
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)