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= 020729
(322 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|P71020|YLMH_BACSU Putative RNA-binding protein YlmH OS=Bacillus subtilis (strain 168)
GN=ylmH PE=4 SV=1
Length = 257
Score = 102 bits (254), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 75/242 (30%), Positives = 121/242 (50%), Gaps = 12/242 (4%)
Query: 81 VKHILEMARRASSRREVLHSDFLTPPVLKESMM--ALEKLADVKAVAQGGYPQAERCRLS 138
+ LE R + + +DFL P +E ++ A+ ADV GGY +AER R +
Sbjct: 16 IDQALEWKRIVQEQYRMKLTDFLDP---REQVILSAVTGQADVGLAFSGGYDRAERKR-A 71
Query: 139 VGHPEALT---SDPDIVAALSITGNFGFQPCSHGDFLGSILGTGIAREKIGDIILQGEKG 195
+ PE +T SD ++ A ++ F H LG+++G G+ R+K GDI+ E
Sbjct: 72 ILFPEYITPEESDFEL-QAFNVRYADKFVSVDHRSLLGALMGIGLKRQKFGDIVF-SETA 129
Query: 196 AQFLVVPELADYLITSLEKVGNVSVSCTRIPLLALEYEPPRTKSFKTIEASLRVDALASA 255
Q +V + AD++ L + G +VS +I L L + +SLR+DA+ ++
Sbjct: 130 VQLIVSADTADFVAAQLTQAGKAAVSLEKIDLSDLNIPAVDVEIRDDTVSSLRLDAVCAS 189
Query: 256 GFKLSRSKLVNLISNGDVRVNWTTVTKNGTTLRTGDIVSVSGKGRIKIGEIN-STRKGKF 314
+ SR K L+ NG V+VNW V + GD++S+ G GR + +I T+K K+
Sbjct: 190 MSRQSRQKSQTLVKNGLVKVNWKVVEDPSYIVAEGDMLSIRGFGRCSLTKIEGKTKKDKW 249
Query: 315 AV 316
V
Sbjct: 250 RV 251
>sp|Q7UXM6|RS4_RHOBA 30S ribosomal protein S4 OS=Rhodopirellula baltica (strain SH1)
GN=rpsD PE=3 SV=2
Length = 202
Score = 38.1 bits (87), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 29/53 (54%)
Query: 250 DALASAGFKLSRSKLVNLISNGDVRVNWTTVTKNGTTLRTGDIVSVSGKGRIK 302
+ + GF +R + I++G RVN VTK G LR GD++ V G+ +K
Sbjct: 97 NVVRRVGFTKTRPQARQGITHGHFRVNGVKVTKPGYMLRAGDLIEVRGRENLK 149
>sp|C5CGH5|RS4_KOSOT 30S ribosomal protein S4 OS=Kosmotoga olearia (strain TBF 19.5.1)
GN=rpsD PE=3 SV=1
Length = 208
Score = 38.1 bits (87), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 34/63 (53%), Gaps = 1/63 (1%)
Query: 241 KTIEASLRVDALASAGFKLSRSKLVNLISNGDVRVNWTTVTKNGTTLRTGDIVSVSGKGR 300
K +E+ L + + GF SR + L+S+G V VN V K ++R GDI+ + K +
Sbjct: 94 KVLESRLD-NVVYRMGFASSRKQARQLVSHGHVLVNGRKVNKASYSVRPGDIIEIKEKSK 152
Query: 301 IKI 303
K+
Sbjct: 153 AKV 155
>sp|A1R043|RS4_BORT9 30S ribosomal protein S4 OS=Borrelia turicatae (strain 91E135)
GN=rpsD PE=3 SV=1
Length = 208
Score = 35.8 bits (81), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 32/56 (57%), Gaps = 1/56 (1%)
Query: 248 RVDALA-SAGFKLSRSKLVNLISNGDVRVNWTTVTKNGTTLRTGDIVSVSGKGRIK 302
R+D + AGF +SR+ ++S+G + +N VT TLR D++ V K R+K
Sbjct: 96 RIDNVVYRAGFAISRAHARQIVSHGIIMLNGRRVTIPSITLRANDMIQVKEKDRLK 151
>sp|Q9Z993|VATA_CHLPN V-type ATP synthase alpha chain OS=Chlamydia pneumoniae GN=atpA
PE=3 SV=1
Length = 591
Score = 35.0 bits (79), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 30/54 (55%), Gaps = 1/54 (1%)
Query: 248 RVDALASAGFKLSRSKLVNLISNGDVRVNWTTVTKNGTTLRTGDIVSVSGKGRI 301
R++ LA L R K VN IS+ ++ N+T V G TLR GD++ +GR
Sbjct: 99 RLEVLAEDSSFLQRGKHVNAISDHNLW-NYTPVASVGDTLRRGDLLGTVPEGRF 151
>sp|P0A2V1|NDVA_RHIRD Beta-(1-->2)glucan export ATP-binding/permease protein NdvA
OS=Rhizobium radiobacter GN=ndvA PE=1 SV=1
Length = 588
Score = 34.3 bits (77), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 37/139 (26%), Positives = 58/139 (41%), Gaps = 8/139 (5%)
Query: 175 ILGTGIAREKIGDIILQGEKGAQFLVVPELADYLITSLEKVGNVSV--SCTRIPLLALEY 232
++G GI IG ++ K Q V + + NVSV S RI E
Sbjct: 162 LIGLGIVYWFIGKWVMGRTKDGQASVEEHYHSVFAHVSDSISNVSVLHSYNRI-----EA 216
Query: 233 EPPRTKSFKTIEASLRVDALASAGFKLSRSKLVNLISNGDVRVNWTTVTKNGTTLRTGDI 292
E KSF S + L F + ++ + +S + V T + KNG LR GD+
Sbjct: 217 ETKALKSFTEKLLSAQYPVLDWWAFASALNRTASTVSMMIILVIGTVLVKNGE-LRVGDV 275
Query: 293 VSVSGKGRIKIGEINSTRK 311
++ G + IG ++ R+
Sbjct: 276 IAFIGFANLLIGRLDQMRQ 294
>sp|P0A2V0|NDVA_AGRT5 Beta-(1-->2)glucan export ATP-binding/permease protein NdvA
OS=Agrobacterium tumefaciens (strain C58 / ATCC 33970)
GN=ndvA PE=3 SV=1
Length = 588
Score = 34.3 bits (77), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 37/139 (26%), Positives = 58/139 (41%), Gaps = 8/139 (5%)
Query: 175 ILGTGIAREKIGDIILQGEKGAQFLVVPELADYLITSLEKVGNVSV--SCTRIPLLALEY 232
++G GI IG ++ K Q V + + NVSV S RI E
Sbjct: 162 LIGLGIVYWFIGKWVMGRTKDGQASVEEHYHSVFAHVSDSISNVSVLHSYNRI-----EA 216
Query: 233 EPPRTKSFKTIEASLRVDALASAGFKLSRSKLVNLISNGDVRVNWTTVTKNGTTLRTGDI 292
E KSF S + L F + ++ + +S + V T + KNG LR GD+
Sbjct: 217 ETKALKSFTEKLLSAQYPVLDWWAFASALNRTASTVSMMIILVIGTVLVKNGE-LRVGDV 275
Query: 293 VSVSGKGRIKIGEINSTRK 311
++ G + IG ++ R+
Sbjct: 276 IAFIGFANLLIGRLDQMRQ 294
>sp|P75485|Y292_MYCPN Uncharacterized RNA pseudouridine synthase MG209 homolog
OS=Mycoplasma pneumoniae (strain ATCC 29342 / M129)
GN=MPN_292 PE=3 SV=1
Length = 309
Score = 34.3 bits (77), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 30/55 (54%)
Query: 242 TIEASLRVDALASAGFKLSRSKLVNLISNGDVRVNWTTVTKNGTTLRTGDIVSVS 296
++ + R+D + LSR K+ LI +G V VN +TKNG ++ D V V+
Sbjct: 6 SVTTAQRLDTFLATLLNLSRVKVAKLIVDGLVSVNGKKITKNGWLVQPEDRVHVN 60
>sp|Q9P0P8|CF203_HUMAN Uncharacterized protein C6orf203 OS=Homo sapiens GN=C6orf203 PE=1
SV=1
Length = 240
Score = 34.3 bits (77), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 34/66 (51%), Gaps = 3/66 (4%)
Query: 233 EPPRTKSFKTIEA---SLRVDALASAGFKLSRSKLVNLISNGDVRVNWTTVTKNGTTLRT 289
+P K++K +E S R D + G + R+K+ + G++R+N + K T++
Sbjct: 125 DPTVVKNYKDLEKAVQSFRYDVVLKTGLDIGRNKVEDAFYKGELRLNEEKLWKKSRTVKV 184
Query: 290 GDIVSV 295
GD + +
Sbjct: 185 GDTLDL 190
>sp|B2S0W1|RS4_BORHD 30S ribosomal protein S4 OS=Borrelia hermsii (strain DAH) GN=rpsD
PE=3 SV=1
Length = 208
Score = 34.3 bits (77), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 248 RVDALA-SAGFKLSRSKLVNLISNGDVRVNWTTVTKNGTTLRTGDIVSVSGKGRIK 302
R+D + AGF +SR+ ++S+G + +N VT TLR DI+ V K +K
Sbjct: 96 RIDNVVYRAGFAISRAHARQIVSHGIIMLNGRRVTIPSITLRANDIIQVKEKDSLK 151
>sp|A8F4T8|RS4_THELT 30S ribosomal protein S4 OS=Thermotoga lettingae (strain ATCC
BAA-301 / DSM 14385 / TMO) GN=rpsD PE=3 SV=1
Length = 209
Score = 33.9 bits (76), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 248 RVDALASA-GFKLSRSKLVNLISNGDVRVNWTTVTKNGTTLRTGDIVSVSGKGR 300
RVD + GF +SR + L+++G VN + LR GDIV V K R
Sbjct: 99 RVDNIVYRLGFAISRRQARQLVTHGHFSVNGVKIDIPSYKLRPGDIVEVREKSR 152
>sp|Q9GZM7|TINAL_HUMAN Tubulointerstitial nephritis antigen-like OS=Homo sapiens
GN=TINAGL1 PE=1 SV=1
Length = 467
Score = 33.9 bits (76), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 27/46 (58%), Gaps = 2/46 (4%)
Query: 143 EALTSDPDIVAALSITGNFGFQPCSHGDFLGSILGTGIAREKIGDI 188
E DPD++ A++ GN+G+Q +H F G L GI R ++G I
Sbjct: 138 EPCLVDPDMIKAIN-QGNYGWQAGNHSAFWGMTLDEGI-RYRLGTI 181
>sp|B5RMG4|RS4_BORDL 30S ribosomal protein S4 OS=Borrelia duttonii (strain Ly) GN=rpsD
PE=3 SV=1
Length = 208
Score = 33.5 bits (75), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 248 RVDALA-SAGFKLSRSKLVNLISNGDVRVNWTTVTKNGTTLRTGDIVSVSGKGRIK 302
R+D + AGF +SR+ ++S+G + +N VT TLR DI+ V K +K
Sbjct: 96 RIDNIVYRAGFAISRAHARQIVSHGIIILNGRRVTIPSITLRANDIIQVKEKDSLK 151
>sp|Q99JR5|TINAL_MOUSE Tubulointerstitial nephritis antigen-like OS=Mus musculus
GN=Tinagl1 PE=1 SV=1
Length = 466
Score = 33.5 bits (75), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 27/46 (58%), Gaps = 2/46 (4%)
Query: 143 EALTSDPDIVAALSITGNFGFQPCSHGDFLGSILGTGIAREKIGDI 188
E DPD++ A++ GN+G+Q +H F G L GI R ++G I
Sbjct: 137 EPCLVDPDMIKAIN-RGNYGWQAGNHSAFWGMTLDEGI-RYRLGTI 180
>sp|Q3Z8V6|SYY_DEHE1 Tyrosine--tRNA ligase OS=Dehalococcoides ethenogenes (strain 195)
GN=tyrS PE=3 SV=1
Length = 396
Score = 33.1 bits (74), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 249 VDALASAGFKLSRSKLVNLISNGDVRVNWTTVTKNGTTLRTGDIVSVSGKGR 300
+D + A S+S+ L+ G V +N ++ GTT++ GDI+ +GK R
Sbjct: 341 IDFIIKADLAKSKSEARRLLEQGGVEINSAKISDPGTTVKCGDIIK-AGKRR 391
>sp|B5RPW0|RS4_BORRA 30S ribosomal protein S4 OS=Borrelia recurrentis (strain A1)
GN=rpsD PE=3 SV=1
Length = 208
Score = 32.7 bits (73), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 248 RVDALA-SAGFKLSRSKLVNLISNGDVRVNWTTVTKNGTTLRTGDIVSVSGKGRIK 302
R+D + AGF +SR+ ++S+G + +N VT TLR DI+ V K K
Sbjct: 96 RIDNIVYRAGFAISRAHARQIVSHGIIILNGRRVTIPSITLRANDIIQVKEKDSFK 151
>sp|P79202|CP11A_SHEEP Cholesterol side-chain cleavage enzyme, mitochondrial OS=Ovis aries
GN=CYP11A1 PE=1 SV=1
Length = 520
Score = 32.0 bits (71), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 4/63 (6%)
Query: 42 TFPTSLRHTASGIRHLIQAVKGNFDDLLKGVGDKNAIEEVKHILEMAR----RASSRREV 97
+P L H + L++ VK N ++L G D ++ H+ EMAR + R+EV
Sbjct: 296 NYPGILYHLLKSEKMLLEDVKANITEMLAGGVDTTSMTLQWHLYEMARSLNVQEMLRKEV 355
Query: 98 LHS 100
L++
Sbjct: 356 LNA 358
>sp|Q8R7Y1|RS4_THETN 30S ribosomal protein S4 OS=Thermoanaerobacter tengcongensis
(strain DSM 15242 / JCM 11007 / NBRC 100824 / MB4)
GN=rpsD PE=3 SV=1
Length = 206
Score = 32.0 bits (71), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 27/51 (52%)
Query: 250 DALASAGFKLSRSKLVNLISNGDVRVNWTTVTKNGTTLRTGDIVSVSGKGR 300
+ + GF +SR++ L+S+G + VN V ++ GD++SV R
Sbjct: 102 NVVYRLGFAVSRAQARQLVSHGHIEVNGKKVDIPSYLVKPGDVISVKESSR 152
>sp|Q9CQF4|CF203_MOUSE Uncharacterized protein C6orf203 homolog OS=Mus musculus PE=1 SV=1
Length = 240
Score = 31.6 bits (70), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 32/65 (49%), Gaps = 3/65 (4%)
Query: 234 PPRTKSFKTIEA---SLRVDALASAGFKLSRSKLVNLISNGDVRVNWTTVTKNGTTLRTG 290
P K +K +E S R D + G + R+K+ + G++R+N + K T++ G
Sbjct: 126 PGVAKDYKDLEKVVQSFRYDVILKTGLDVGRNKVEDAFYKGELRLNGEKLWKKSRTVKVG 185
Query: 291 DIVSV 295
D + +
Sbjct: 186 DTLDL 190
>sp|B7IHX2|RS4_THEAB 30S ribosomal protein S4 OS=Thermosipho africanus (strain TCF52B)
GN=rpsD PE=3 SV=1
Length = 209
Score = 31.6 bits (70), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 1/65 (1%)
Query: 237 TKSFKTIEASLRVD-ALASAGFKLSRSKLVNLISNGDVRVNWTTVTKNGTTLRTGDIVSV 295
T+ ++ R+D + GF ++R+ L+++G V VN VT +R GD++ +
Sbjct: 88 TRENLVVQVERRLDNVVYRLGFAVNRTTARQLVNHGHVLVNGRKVTIPSYQVRPGDVIEI 147
Query: 296 SGKGR 300
K R
Sbjct: 148 REKSR 152
>sp|B0K5S0|RS4_THEPX 30S ribosomal protein S4 OS=Thermoanaerobacter sp. (strain X514)
GN=rpsD PE=3 SV=1
Length = 206
Score = 31.6 bits (70), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 24/45 (53%)
Query: 256 GFKLSRSKLVNLISNGDVRVNWTTVTKNGTTLRTGDIVSVSGKGR 300
GF SR + L+S+G + VN V ++ GD++SV K R
Sbjct: 108 GFAASRPQARQLVSHGHIEVNGKKVDIPSFLVKPGDVISVREKSR 152
>sp|B0KCM7|RS4_THEP3 30S ribosomal protein S4 OS=Thermoanaerobacter pseudethanolicus
(strain ATCC 33223 / 39E) GN=rpsD PE=3 SV=1
Length = 206
Score = 31.6 bits (70), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 24/45 (53%)
Query: 256 GFKLSRSKLVNLISNGDVRVNWTTVTKNGTTLRTGDIVSVSGKGR 300
GF SR + L+S+G + VN V ++ GD++SV K R
Sbjct: 108 GFAASRPQARQLVSHGHIEVNGKKVDIPSFLVKPGDVISVREKSR 152
>sp|B0CZ32|MTNB_LACBS Methylthioribulose-1-phosphate dehydratase OS=Laccaria bicolor
(strain S238N-H82 / ATCC MYA-4686) GN=MDE1 PE=3 SV=1
Length = 237
Score = 31.6 bits (70), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 1/66 (1%)
Query: 245 ASLRVDALASAGFKLSRSKLVNLISNGDVRVNWTTVTKNGTTLRTGDIVSVSGKGRIKIG 304
AS DAL ++ L + L+ + ++ W T T G +RTGD V ++ G ++
Sbjct: 2 ASQDADALVTSSDPLHPANLIPELCRSFYQLGWVTGTGGGICIRTGDKVFIAPSG-VQKE 60
Query: 305 EINSTR 310
I ST
Sbjct: 61 RIESTH 66
Database: swissprot
Posted date: Mar 23, 2013 2:32 AM
Number of letters in database: 191,569,459
Number of sequences in database: 539,616
Lambda K H
0.320 0.136 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 118,996,043
Number of Sequences: 539616
Number of extensions: 4969696
Number of successful extensions: 14168
Number of sequences better than 100.0: 41
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 14142
Number of HSP's gapped (non-prelim): 42
length of query: 322
length of database: 191,569,459
effective HSP length: 117
effective length of query: 205
effective length of database: 128,434,387
effective search space: 26329049335
effective search space used: 26329049335
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 61 (28.1 bits)