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_016_G04
(670 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|O43502|RA51C_HUMAN DNA repair protein RAD51 homolog 3 114 2e-25
sp|Q8GXF0|RA51C_ARATH DNA repair protein RAD51 homolog 3 (D... 105 1e-22
sp|Q55075|RADA_SULSO DNA repair and recombination protein radA 53 8e-07
sp|Q61880|DMC1_MOUSE Meiotic recombination protein DMC1/LIM... 52 1e-06
sp|Q14565|DMC1_HUMAN Meiotic recombination protein DMC1/LIM... 52 2e-06
sp|Q4JAT5|RADA_SULAC DNA repair and recombination protein radA 51 2e-06
sp|Q975Y1|RADA_SULTO DNA repair and recombination protein radA 50 4e-06
sp|O28184|RADB_ARCFU DNA repair and recombination protein radB 50 4e-06
sp|O15315|RA51B_HUMAN DNA repair protein RAD51 homolog 2 (R... 50 5e-06
sp|O35719|RA51B_MOUSE DNA repair protein RAD51 homolog 2 (R... 49 9e-06
>sp|O43502|RA51C_HUMAN DNA repair protein RAD51 homolog 3
Length = 376
Score = 114 bits (285), Expect = 2e-25
Identities = 67/155 (43%), Positives = 84/155 (54%)
Frame = +3
Query: 150 MLKSIFYFRCTEQIQLLSLSYRLHKFCQTHPKVRLIIIDSIAFHFRYDSTDIPQRNRVLT 329
+L I+YFRC + +LL+ Y L F H KVRL+I+D IAF FR+D D+ R R+L
Sbjct: 204 ILSHIYYFRCRDYTELLAQVYLLPDFLSEHSKVRLVIVDGIAFPFRHDLDDLSLRTRLLN 263
Query: 330 VFGQNMSNIASQFGVAVILTNQMTTKFVDGAGYAAPALGESWGHICHIRIQLQRFSESSS 509
Q M ++A+ +AVILTNQMTTK PALGESWGH IR+
Sbjct: 264 GLAQQMISLANNHRLAVILTNQMTTKIDRNQALLVPALGESWGHAATIRLIFH------- 316
Query: 510 DASNKYRQAVLLKHVSQPFSSSLYQITIGGIRDIV 614
K R A L K SQ + L+QI G RD V
Sbjct: 317 -WDRKQRLATLYKSPSQKECTVLFQIKPQGFRDTV 350
>sp|Q8GXF0|RA51C_ARATH DNA repair protein RAD51 homolog 3 (DNA repair-recombination
protein RAD51C) (AtRAD51C)
Length = 363
Score = 105 bits (262), Expect = 1e-22
Identities = 58/153 (37%), Positives = 87/153 (56%)
Frame = +3
Query: 150 MLKSIFYFRCTEQIQLLSLSYRLHKFCQTHPKVRLIIIDSIAFHFRYDSTDIPQRNRVLT 329
+L++IFYFR + ++L L KF + V+++I+DSI FHFR D D+ QR RVL+
Sbjct: 208 ILENIFYFRVCSYTEQIALVNHLEKFISENKDVKVVIVDSITFHFRQDYDDLAQRTRVLS 267
Query: 330 VFGQNMSNIASQFGVAVILTNQMTTKFVDGAGYAAPALGESWGHICHIRIQLQRFSESSS 509
+A +F +AV+L NQ+TTKF +G+ A ALG+SW H C R+ L +
Sbjct: 268 EMALKFMKLAKKFSLAVVLLNQVTTKFSEGSFQLALALGDSWSHSCTNRVILYWNGDE-- 325
Query: 510 DASNKYRQAVLLKHVSQPFSSSLYQITIGGIRD 608
R A + K S P +S+ Y +T G+R+
Sbjct: 326 ------RYAYIDKSPSLPSASASYTVTSRGLRN 352
>sp|Q55075|RADA_SULSO DNA repair and recombination protein radA
Length = 324
Score = 52.8 bits (125), Expect = 8e-07
Identities = 43/173 (24%), Positives = 81/173 (46%), Gaps = 6/173 (3%)
Frame = +3
Query: 108 KTL*EQVDNLNEMKMLKSIFYFRCTEQIQLLSLSYRLHKFCQTHPKVRLIIIDSIAFHFR 287
K L +DN+ + +I+Y R +++ L + P ++LI++DS+ HFR
Sbjct: 163 KALGLDIDNV-----MNNIYYIRAINTDHQIAIVDDLQELVSKDPSIKLIVVDSVTSHFR 217
Query: 288 YD---STDIPQRNRVLTVFGQNMSNIASQFGVAVILTNQMTTKFVDGAGYAAPAL---GE 449
+ ++ R + L ++ +A + +AVI+TNQ+ + Y P + G
Sbjct: 218 AEYPGRENLAVRQQKLNKHLHQLTRLAEVYDIAVIITNQVMAR--PDMFYGDPTVAVGGH 275
Query: 450 SWGHICHIRIQLQRFSESSSDASNKYRQAVLLKHVSQPFSSSLYQITIGGIRD 608
+ H+ IRIQL++ S + + + V H+ P ++ +T GIRD
Sbjct: 276 TLYHVPGIRIQLKK-----SRGNRRIARVVDAPHL--PEGEVVFALTEEGIRD 321
>sp|Q61880|DMC1_MOUSE Meiotic recombination protein DMC1/LIM15 homolog
Length = 340
Score = 52.0 bits (123), Expect = 1e-06
Identities = 46/167 (27%), Positives = 73/167 (43%), Gaps = 8/167 (4%)
Frame = +3
Query: 132 NLNEMKMLKSIFYFRC-TEQIQLLSLSYRLHKFCQTHPKVRLIIIDSIAFHFRYDST--- 299
N++ +L ++ Y R T + Q+ L Y KF + +L+IIDSI FR D +
Sbjct: 178 NVDHEAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDFSGRG 237
Query: 300 DIPQRNRVLTVFGQNMSNIASQFGVAVILTNQMT----TKFVDGAGYAAPALGESWGHIC 467
++ +R + L + I+ ++ VAV +TNQMT A P G H
Sbjct: 238 ELAERQQKLAQMLSRLQKISEEYNVAVFVTNQMTADPGATMTFQADPKKPIGGHILAHAS 297
Query: 468 HIRIQLQRFSESSSDASNKYRQAVLLKHVSQPFSSSLYQITIGGIRD 608
RI L++ + R A + P + + + IT GGI D
Sbjct: 298 TTRISLRK-------GRGELRIAKIYDSPEMPENEATFAITAGGIGD 337
>sp|Q14565|DMC1_HUMAN Meiotic recombination protein DMC1/LIM15 homolog
Length = 340
Score = 51.6 bits (122), Expect = 2e-06
Identities = 46/167 (27%), Positives = 73/167 (43%), Gaps = 8/167 (4%)
Frame = +3
Query: 132 NLNEMKMLKSIFYFRC-TEQIQLLSLSYRLHKFCQTHPKVRLIIIDSIAFHFRYDST--- 299
N++ +L ++ Y R T + Q+ L Y KF + +L+IIDSI FR D +
Sbjct: 178 NVDHDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDFSGRG 237
Query: 300 DIPQRNRVLTVFGQNMSNIASQFGVAVILTNQMT----TKFVDGAGYAAPALGESWGHIC 467
++ +R + L + I+ ++ VAV +TNQMT A P G H
Sbjct: 238 ELAERQQKLAQMLSRLQKISEEYNVAVFVTNQMTADPGATMTFQADPKKPIGGHILAHAS 297
Query: 468 HIRIQLQRFSESSSDASNKYRQAVLLKHVSQPFSSSLYQITIGGIRD 608
RI L++ + R A + P + + + IT GGI D
Sbjct: 298 TTRISLRK-------GRGELRIAKIYDSPEMPENEATFAITAGGIGD 337
>sp|Q4JAT5|RADA_SULAC DNA repair and recombination protein radA
Length = 321
Score = 51.2 bits (121), Expect = 2e-06
Identities = 40/156 (25%), Positives = 74/156 (47%), Gaps = 4/156 (2%)
Frame = +3
Query: 153 LKSIFYFRCTEQIQLLSLSYRLHKFCQTHPKVRLIIIDSIAFHFRYD---STDIPQRNRV 323
+ +I+Y R +++ L + P ++LII+DSI HFR + ++ R +
Sbjct: 170 MNNIYYMRAINSDHQMAIVDDLQELITKDPAIKLIIVDSITSHFRAEYPGRENLAVRQQK 229
Query: 324 LTVFGQNMSNIASQFGVAVILTNQMTTKFVDGAGYAAPAL-GESWGHICHIRIQLQRFSE 500
L + +A + +AVI+TNQ+ + G A+ G + H+ IR+QL++
Sbjct: 230 LNKHLHQLVRLAEMYDIAVIITNQVMARPDMFYGDPTTAVGGHTLYHVPGIRVQLKK--- 286
Query: 501 SSSDASNKYRQAVLLKHVSQPFSSSLYQITIGGIRD 608
S + + + V H+ P ++ IT G+RD
Sbjct: 287 --SRGNKRIARIVDAPHL--PEGEVVFAITEEGVRD 318
>sp|Q975Y1|RADA_SULTO DNA repair and recombination protein radA
Length = 324
Score = 50.4 bits (119), Expect = 4e-06
Identities = 38/158 (24%), Positives = 74/158 (46%), Gaps = 6/158 (3%)
Frame = +3
Query: 153 LKSIFYFRCTEQIQLLSLSYRLHKFCQTHPKVRLIIIDSIAFHFRYD---STDIPQRNRV 323
+ +I+Y R +++ L + P ++L+I+DS+ HFR + ++ R +
Sbjct: 173 MNNIYYMRAINSDHQMAIVDDLQELISKDPAIKLVIVDSVTSHFRAEFPGRENLAVRQQK 232
Query: 324 LTVFGQNMSNIASQFGVAVILTNQMTTKFVDGAGYAAPAL---GESWGHICHIRIQLQRF 494
L + +A + +AVI+TNQ+ + Y P + G + H+ IR+QL++
Sbjct: 233 LNKHLHQLVRLAEMYDLAVIITNQVMAR--PDMFYGDPTVAVGGHTLYHVPGIRVQLKK- 289
Query: 495 SESSSDASNKYRQAVLLKHVSQPFSSSLYQITIGGIRD 608
S + + + V H+ P ++ IT G+RD
Sbjct: 290 ----SRGNKRIARIVDAPHL--PEGEVVFAITEEGVRD 321
>sp|O28184|RADB_ARCFU DNA repair and recombination protein radB
Length = 221
Score = 50.4 bits (119), Expect = 4e-06
Identities = 43/131 (32%), Positives = 67/131 (51%), Gaps = 4/131 (3%)
Frame = +3
Query: 222 KFCQTHPKVRLIIIDSIAFHFRYDSTDIPQR---NRVLTVFGQNMSNIASQFGVAVILTN 392
K C++ KV+L+I+D +R + D ++ R LT + +A ++ VAV++TN
Sbjct: 100 KLCRSE-KVKLVIVDCFTSLYRSELEDDRKQIKIKRELTSQLTFLLGMARKYDVAVVITN 158
Query: 393 QMTTKFVDGAGYAAPALGESWGHICHIRIQLQRFSESSSDASNKYRQAVLLKH-VSQPFS 569
QM T G+G P G S H+ + I L+R SN+ R+A L+KH +
Sbjct: 159 QMFTDV--GSGVDRPLGGPSLEHLSKVIIALER--------SNELRKATLIKHRWMKEGK 208
Query: 570 SSLYQITIGGI 602
S Y+IT GI
Sbjct: 209 SCFYRITDRGI 219
>sp|O15315|RA51B_HUMAN DNA repair protein RAD51 homolog 2 (R51H2) (RAD51-like protein 1)
(Rad51B)
Length = 384
Score = 50.1 bits (118), Expect = 5e-06
Identities = 37/146 (25%), Positives = 64/146 (43%), Gaps = 27/146 (18%)
Frame = +3
Query: 246 VRLIIIDSIAFHFRYD-----STDIPQRNRVLTVFGQNMSNIASQFGVAVILTNQMTTKF 410
++L+I+DS+A R + ++ +RN+ L ++ +A +F + VILTNQ+TT
Sbjct: 204 IKLVILDSVASVVRKEFDAQLQGNLKERNKFLAREASSLKYLAEEFSIPVILTNQITTHL 263
Query: 411 ----------------------VDGAGYAAPALGESWGHICHIRIQLQRFSESSSDASNK 524
G+ ALG +W H + R+ LQ ++
Sbjct: 264 SGALASQADLVSPADDLSLSEGTSGSSCVIAALGNTWSHSVNTRLILQYL-------DSE 316
Query: 525 YRQAVLLKHVSQPFSSSLYQITIGGI 602
RQ ++ K PF+S +Y I G+
Sbjct: 317 RRQILIAKSPLAPFTSFVYTIKEEGL 342
>sp|O35719|RA51B_MOUSE DNA repair protein RAD51 homolog 2 (R51H2) (RAD51-like protein 1)
Length = 350
Score = 49.3 bits (116), Expect = 9e-06
Identities = 40/146 (27%), Positives = 63/146 (43%), Gaps = 27/146 (18%)
Frame = +3
Query: 246 VRLIIIDSIAFHFRYD-----STDIPQRNRVLTVFGQNMSNIASQFGVAVILTNQMTTKF 410
V+L+I+DSIA R + +I +RN+ L + +A +F + VILTNQ+TT
Sbjct: 204 VKLVIVDSIASVVRKEFDPKLQGNIKERNKFLGKGASLLKYLAGEFSIPVILTNQITTHL 263
Query: 411 ----------------------VDGAGYAAPALGESWGHICHIRIQLQRFSESSSDASNK 524
G+ ALG +WGH + R+ LQ ++
Sbjct: 264 SGALPSQADLVSPADDLSLSEGTSGSSCLVAALGNTWGHCVNTRLILQYL-------DSE 316
Query: 525 YRQAVLLKHVSQPFSSSLYQITIGGI 602
RQ ++ K F+S +Y I G+
Sbjct: 317 RRQILIAKSPLAAFTSFVYTIKGEGL 342
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: 74,806,151
Number of Sequences: 369166
Number of extensions: 1472044
Number of successful extensions: 3795
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 3669
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): 3776
length of database: 68,354,980
effective HSP length: 106
effective length of database: 48,773,070
effective search space used: 5657676120
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)